Biography
Dr. Alizadeh leads a group interested in techniques and methods for understanding tumor behavior at molecular, cellular, organism and population levels. In this effort, his group studies cancer genomic profiles obtained either from tumor tissues, or from noninvasive “liquid biopsies”. Using machine learning techniques, his lab studies how cellular compositional variation impacts cancer behavior and therapeutic response (e.g., http://cibersortx.stanford.edu, http://precog.stanford.edu, and http://ecotyper.stanford.edu), including anti-tumor immunity (http://maria.stanford.edu).
Dr. Alizadeh's group has helped pioneer a range of noninvasive cancer genomic techniques that enable “liquid biopsies”, including CAPP-Seq (https://cappseq.stanford.edu), PhasED-Seq (https://phasedseq.stanford.edu), and EPIC-Seq (https://epicseq.stanford.edu). Using such techniques work from his group focuses on the analysis of circulating nucleic acids to address problems for early cancer detection (http://clip.stanford.edu) and noninvasive cancer monitoring, including prediction of therapeutic response (http://ciri.stanford.edu & http://direct.stanford.edu).
Dr. Alizadeh holds a BS in Biochemistry from UCLA, an MD from Stanford Medical School, a PhD in Biophysics from Stanford, with additional training at the National Cancer Institute (NCI), the National Institutes of Health (NIH), and the Howard Hughes Medical Institute (HHMI). He has received a number of key awards for his work, including the Scholar Award from the American Society of Hematology (ASH), the Leukemia & Lymphoma Society (LLS), the V-Foundation, as well as awards from the American Red Cross, Damon Runyon Cancer Research Foundation, Doris Duke Charitable Research Foundation, among others. He is an elected member of the American Society for Clinical Investigation (ASCI), and an elected member of the Scientific Advisory Board (SAB) of the Lymphoma Research Foundation (LRF).
Dr. Alizadeh is a past-President of the American Society of Hematology (ASH) Meeting on Lymphoma Biology, a founding member of the International Lymphoma ctDNA Consortium & Working Group, and past-Chair of the Scientific Committee on Genetics & Epigenetics for the American Society of Hematology (ASH), and past-Chair the Scientific Committee on Lymphoma & Myeloma for the American Society of Clinical Oncology (ASCO). Dr. Alizadeh is a co-founder of CAPP Medical, CiberMED, and Foresight Diagnostics. Dr. Alizadeh is board certified in Medical Oncology, Hematology, and Internal Medicine, a member of the Stanford Lymphoma Program, and received the Stanford Department of Medicine Research Award in 2005. He is a member of the Scientific Advisory Board for Cell, and Scientific Editor for Blood, Cancer Discovery, Blood Cancer Discovery, and the Journal of Clinical Oncology (JCO) and Precision Oncology (PO).
Professional Summary
Education & Certifications
- Board Certification: American Board of Internal Medicine, Medical Oncology (2021)
- Medical Education: Stanford University School of Medicine (2003) CA
- Fellowship: Stanford University Hematology and Oncology Fellowship (2009) CA
- Residency: Stanford University Internal Medicine Residency (2006) CA
- MD, Stanford university School of Medicine, Medicine (2003)
- PhD, Stanford university School of Medicine, Biophysics/Dept of Biochemistry (2003)
- B.S., UCLA, Biochemistry (1994)
Honors & Awards
- American Society for Clinical Oncology Career Development Award, Stanford University (2010-2013)
- American Society of Hematology Scholar Award, Stanford University (2015-2017)
- Bent & Janet Cardan Oncology Research Fellow, Stanford University (2010)
- Cancer Innovation Award, Stanford Hospital & Clinics (2012-2013)
- Celgene Young Investigator Award, Stanford University (2014-2015)
- Clinical Investigator Program: Fellow Award, Stanford University Medical Center (2004-2010)
- Damon Runyon Cancer Research Foundation Clinical Investigator Award, Stanford University (2014-2017)
- Doris Duke Clinical Scientist Development Award, Stanford University (2011)
- Franklin G. Ebaugh, Jr. Award for Outstanding Research, Dept of Medicine, Stanford (2004-2005)
- Garbrielle's Angel Foundation, Stanford University (2012-2015)
- Intramural Research Award, NIH/NCI (1997 - 1998)
- Josephine Q. Berry Faculty Scholar in Cancer Research, Stanford University (2010)
- Leukemia & Lymphoma Society Special Fellow in Clinical Research, Stanford University (2010-2013)
- Magna cum laude, College & Departmental Honors, UCLA (6/1993)
- Medical Scientist Training Program Award, NIH (1996-2003)
- NIH Research Fellow Award, NIH/NCI (6/1995)
- Research Scholar Award, HHMI-NIH (1996 - 1998)
- Research Scholar Award for Outstanding Research, HHMI (1998)
- Sandler Fellow Award, UCSF (2003-2004)
- V-Foundation Scholar/Martin D Abeloff Award (1st Place), Stanford University (2014-2016)
Memberships
- Vice Chair, Committee on Epigenetics and Genomics, American Society of Hematology (2014 - Present)
- Mentor, Lymphoma Clinical Research Mentoring Program, Lymphoma Research Foundation (2013 - Present)
- Leader, Scientific Program Committee on Lymphoma, Myeloma, Plasma Cell Disorders, American Society of Clinical Oncology (2011 - 2014)
Administrative Appointments
- Admissions Panel, Medical Scientist Training Program, Stanford University (2011 - Present)
- Admissions Panel, Stanford Medical School (2012 - Present)
- Chair, Seminar Committee, Stanford Immunology Program (2011 - Present)
- Steering Committee Member & Mentor, Stanford Computational & Systems Immunology (2012 - Present)
Publications
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Genome-wide analysis of DNA copy-number changes using cDNA microarrays
Pollack, J. R., Perou, C. M., Alizadeh, A. A., Eisen, M. B., Pergamenschikov, A., Williams, C. F., … Brown, P. O. (1999). Genome-wide analysis of DNA copy-number changes using cDNA microarrays. NATURE GENETICS, 23(1), 41–46. -
Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
Alizadeh, A. A., Eisen, M. B., Davis, R. E., Ma, C., Lossos, I. S., Rosenwald, A., … Staudt, L. M. (2000). Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. NATURE, 403(6769), 503–11. -
Genomic-scale gene expression profiling of normal and malignant immune cells
Alizadeh, A. A., & Staudt, L. M. (2000). Genomic-scale gene expression profiling of normal and malignant immune cells. CURRENT OPINION IN IMMUNOLOGY, 12(2), 219–225. -
Examining the living genome in health and disease with DNA microarrays
Diehn, M., Alizadeh, A. A., & Brown, P. O. (2000). Examining the living genome in health and disease with DNA microarrays. JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION, 283(17), 2298–2299. -
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'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns.
Hastie, T., Tibshirani, R., Eisen, M. B., Alizadeh, A., Levy, R., Staudt, L., … BROWN, P. (2000). 'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns. Genome Biology, 1(2), RESEARCH0003-? -
The lymphochip: A specialized cDNA microarray for the genomic-scale analysis of gene expression in normal and malignant lymphocytes
Alizadeh, A., Eisen, M., Davis, R. E., Ma, C., Sabet, H., Tran, T., … Staudt, L. M. (1999). The lymphochip: A specialized cDNA microarray for the genomic-scale analysis of gene expression in normal and malignant lymphocytes. Presented at the 64th Symposia: Signaling and Gene Expression in the Immune System, NEW YORK,NY,NY,NY: COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT. -
Genomic analysis of renal allograft dysfunction using cDNA microarrays
Sarwal, M., Chang, S., Barry, C., Chen, X., Alizadeh, A., Salvatierra, O., & BROWN, P. (2001). Genomic analysis of renal allograft dysfunction using cDNA microarrays. TRANSPLANTATION PROCEEDINGS, 33(1-2), 297–298. -
Towards a novel classification of human malignancies based on gene expression patterns
Alizadeh, A. A., Ross, D. T., Perou, C. M., & van de Rijn, M. (2001). Towards a novel classification of human malignancies based on gene expression patterns. JOURNAL OF PATHOLOGY, 195(1), 41–52. -
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In vivo regulation of human skeletal muscle gene expression by thyroid hormone
Clement, K., Viguerie, N., Diehn, M., Alizadeh, A., Barbe, P., Thalamas, C., … Langin, D. (2002). In vivo regulation of human skeletal muscle gene expression by thyroid hormone. GENOME RESEARCH, 12(2), 281–91. -
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Software tools for high-throughput analysis and archiving of immunohistochemistry staining data obtained with tissue microarrays
Liu, C. L., Prapong, W., Natkunam, Y., Alizadeh, A., Montgomery, K., Gilks, C. B., & van de Rijn, M. (2002). Software tools for high-throughput analysis and archiving of immunohistochemistry staining data obtained with tissue microarrays. AMERICAN JOURNAL OF PATHOLOGY, 161(5), 1557–1565. -
HGAL is a novel interleukin-4-inducible gene that strongly predicts survival in diffuse large B-cell lymphoma
Lossos, I. S., Alizadeh, A. A., Rajapaksa, R., Tibshirani, R., & Levy, R. (2003). HGAL is a novel interleukin-4-inducible gene that strongly predicts survival in diffuse large B-cell lymphoma. BLOOD, 101(2), 433–440. -
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Individuality and variation in gene expression patterns in human blood
Whitney, A. R., Diehn, M., Popper, S. J., Alizadeh, A. A., Boldrick, J. C., Relman, D. A., & Brown, P. O. (2003). Individuality and variation in gene expression patterns in human blood. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 100(4), 1896–1901. -
Rheumatoid arthritis is a heterogeneous disease - Evidence for differences in the activation of the STAT-1 pathway between rheumatoid tissues
Kraan, T. C. T. M. V., van Gaalen, F. A., Kasperkovitz, P. V., Verbeet, N. L., Smeets, T. J. M., Kraan, M. C., … Verweij, C. L. (2003). Rheumatoid arthritis is a heterogeneous disease - Evidence for differences in the activation of the STAT-1 pathway between rheumatoid tissues. ARTHRITIS AND RHEUMATISM, 48(8), 2132–2145. -
T cell receptor-independent basal signaling via Erk and Abl kinases suppresses RAG gene expression.
Roose, J. P., Diehn, M., Tomlinson, M. G., Lin, J., Alizadeh, A. A., Botstein, D., … Weiss, A. (2003). T cell receptor-independent basal signaling via Erk and Abl kinases suppresses RAG gene expression. PLoS Biology, 1(2), E53-? -
Gene expression signature of fibroblast serum response predicts human cancer progression: similarities between tumors and wounds.
Chang, H. Y., Sneddon, J. B., Alizadeh, A. A., Sood, R., West, R. B., Montgomery, K., … Brown, P. O. (2004). Gene expression signature of fibroblast serum response predicts human cancer progression: similarities between tumors and wounds. PLoS Biology, 2(2), E7-? -
Role of interleukin 6 in myocardial dysfunction of meningococcal septic shock
Pathan, N., Hemingway, C. A., Alizadeh, A. A., Stephens, A. C., Boldrick, J. C., Oragui, E. E., … Levin, M. (2004). Role of interleukin 6 in myocardial dysfunction of meningococcal septic shock. LANCET, 363(9404), 203–9. -
Prediction of survival in diffuse large-B-cell lymphoma based on the expression of six genes
Lossos, I. S., Czerwinski, D. K., Alizadeh, A. A., Wechser, M. A., Tibshirani, R., Botstein, D., & Levy, R. (2004). Prediction of survival in diffuse large-B-cell lymphoma based on the expression of six genes. NEW ENGLAND JOURNAL OF MEDICINE, 350(18), 1828–1837. -
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AID is expressed in germinal center B-cell-like and activated B-cell-like diffuse large-cell lymphomas and is not correlated with intraclonal heterogeneity
Lossos, I. S., Levy, R., & Alizadeh, A. A. (2004). AID is expressed in germinal center B-cell-like and activated B-cell-like diffuse large-cell lymphomas and is not correlated with intraclonal heterogeneity. LEUKEMIA, 18(11), 1775–1779. -
Distinct IL-4-induced gene expression, proliferation, and intracellular signaling in germinal center B-cell-like and activated B-cell-like diffuse large-cell lymphomas
Lu, X. Q., Nechushtan, H., Ding, F. Y., Rosado, M. F., Singal, R., Alizadeh, A. A., & Lossos, I. S. (2005). Distinct IL-4-induced gene expression, proliferation, and intracellular signaling in germinal center B-cell-like and activated B-cell-like diffuse large-cell lymphomas. BLOOD, 105(7), 2924–2932. -
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Double trouble in follicular lymphoma: A rare and unusual synergy of oncogenes in the germinal center
Alizadeh, A. A., & Lossos, I. S. (2008). Double trouble in follicular lymphoma: A rare and unusual synergy of oncogenes in the germinal center. LEUKEMIA & LYMPHOMA, 49(3), 377–380. -
Evaluation and management of angioimmunoblastic T-cell lymphoma: a review of current approaches and future strategies.
Alizadeh, A. A., & Advani, R. H. (2008). Evaluation and management of angioimmunoblastic T-cell lymphoma: a review of current approaches and future strategies. Clinical Advances in Hematology & Oncology : H&O, 6(12), 899–909. -
Molecular Outcome Prediction in Diffuse Large-B-Cell Lymphoma
Alizadeh, A. A., Gentles, A. J., Lossos, I. S., & Levy, R. (2009). Molecular Outcome Prediction in Diffuse Large-B-Cell Lymphoma. NEW ENGLAND JOURNAL OF MEDICINE, 360(26), 2794–95. -
CD47 Is an Adverse Prognostic Factor and Therapeutic Antibody Target on Human Acute Myeloid Leukemia Stem Cells
Majeti, R., Chao, M. P., Alizadeh, A. A., Pang, W. W., Jaiswal, S., Gibbs, K. D., … Weissman, I. L. (2009). CD47 Is an Adverse Prognostic Factor and Therapeutic Antibody Target on Human Acute Myeloid Leukemia Stem Cells. CELL, 138(2), 286–99. -
Therapeutic effect of CD137 immunomodulation in lymphoma and its enhancement by T-reg depletion
Houot, R., Goldstein, M. J., Kohrt, H. E., Myklebust, J. H., Alizadeh, A. A., Lin, J. T., … Levy, R. (2009). Therapeutic effect of CD137 immunomodulation in lymphoma and its enhancement by T-reg depletion. BLOOD, 114(16), 3431–3438. -
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Expression profiles of adult T-cell leukemia-lymphoma and associations with clinical responses to zidovudine and interferon alpha
Alizadeh, A. A., Bohen, S. P., Lossos, C., Martinez-Climent, J. A., Ramos, J. C., Cubedo-Gil, E., … Lossos, I. S. (2010). Expression profiles of adult T-cell leukemia-lymphoma and associations with clinical responses to zidovudine and interferon alpha. LEUKEMIA & LYMPHOMA, 51(7), 1200–1216. -
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Therapeutic Antibody Targeting of CD47 Eliminates Human Acute Lymphoblastic Leukemia
Chao, M. P., Alizadeh, A. A., Tang, C., Jan, M., Weissman-Tsukamoto, R., Zhao, F., … Majeti, R. (2011). Therapeutic Antibody Targeting of CD47 Eliminates Human Acute Lymphoblastic Leukemia. CANCER RESEARCH, 71(4), 1374–84. -
Association of a Leukemic Stem Cell Gene Expression Signature With Clinical Outcomes in Acute Myeloid Leukemia
Gentles, A. J., Plevritis, S. K., Majeti, R., & Alizadeh, A. A. (2010). Association of a Leukemic Stem Cell Gene Expression Signature With Clinical Outcomes in Acute Myeloid Leukemia. JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION, 304(24), 2706–15. -
Calreticulin Is the Dominant Pro-Phagocytic Signal on Multiple Human Cancers and Is Counterbalanced by CD47
Chao, M. P., Jaiswal, S., Weissman-Tsukamoto, R., Alizadeh, A. A., Gentles, A. J., Volkmer, J., … Weissman, I. L. (2010). Calreticulin Is the Dominant Pro-Phagocytic Signal on Multiple Human Cancers and Is Counterbalanced by CD47. SCIENCE TRANSLATIONAL MEDICINE, 2(63). -
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Prediction of survival in diffuse large B-cell lymphoma based on the expression of 2 genes reflecting tumor and microenvironment
Alizadeh, A. A., Gentles, A. J., Alencar, A. J., Liu, C. L., Kohrt, H. E., Houot, R., … Levy, R. (2011). Prediction of survival in diffuse large B-cell lymphoma based on the expression of 2 genes reflecting tumor and microenvironment. BLOOD, 118(5), 1350–1358. -
Surprise! HSC Are Aberrant in Chronic Lymphocytic Leukemia
Alizadeh, A. A., & Majeti, R. (2011). Surprise! HSC Are Aberrant in Chronic Lymphocytic Leukemia. CANCER CELL, 20(2), 135–136. -
Impact of TET2 mutations on mRNA expression and clinical outcomes in MDS patients treated with DNA methyltransferase inhibitors
Pollyea, D. A., Raval, A., Kusler, B., Gotlib, J. R., Alizadeh, A. A., & Mitchell, B. S. (2011). Impact of TET2 mutations on mRNA expression and clinical outcomes in MDS patients treated with DNA methyltransferase inhibitors. HEMATOLOGICAL ONCOLOGY, 29(3), 157–160. -
Utility of positron emission tomography scans in mantle cell lymphoma
Hosein, P. J., Pastorini, V. H., Paes, F. M., Eber, D., Chapman, J. R., Serafini, A. N., … Lossos, I. S. (2011). Utility of positron emission tomography scans in mantle cell lymphoma. AMERICAN JOURNAL OF HEMATOLOGY, 86(10), 841–845. -
Treatment advances have not improved the early death rate in acute promyelocytic leukemia
McClellan, J. S., Kohrt, H. E., Coutre, S., Gotlib, J. R., Majeti, R., Alizadeh, A. A., & Medeiros, B. C. (2012). Treatment advances have not improved the early death rate in acute promyelocytic leukemia. HAEMATOLOGICA-THE HEMATOLOGY JOURNAL, 97(1), 133–36. -
A proteomic approach for the identification of novel lysine methyltransferase substrates
Levy, D., Liu, C. L., Yang, Z., Newman, A. M., Alizadeh, A. A., Utz, P. J., & Gozani, O. (2011). A proteomic approach for the identification of novel lysine methyltransferase substrates. EPIGENETICS & CHROMATIN, 4. -
A few good genes Simple, biologically motivated signatures for cancer prognosis
Gentles, A. J., & Alizadeh, A. A. (2011). A few good genes Simple, biologically motivated signatures for cancer prognosis. CELL CYCLE, 10(21), 3615–3616. -
A retrospective study evaluating the efficacy and safety of bendamustine in the treatment of mantle cell lymphoma
Warsch, S., Hosein, P. J., Maeda, L. S., Alizadeh, A. A., & Lossos, I. S. (2012). A retrospective study evaluating the efficacy and safety of bendamustine in the treatment of mantle cell lymphoma. LEUKEMIA & LYMPHOMA, 53(7), 1299–1305. -
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Specific post-translational histone modifications of neutrophil extracellular traps as immunogens and potential targets of lupus autoantibodies
Liu, C. L., Tangsombatvisit, S., Rosenberg, J. M., Mandelbaum, G., Gillespie, E. C., Gozani, O. P., … Utz, P. J. (2012). Specific post-translational histone modifications of neutrophil extracellular traps as immunogens and potential targets of lupus autoantibodies. ARTHRITIS RESEARCH & THERAPY, 14(1). -
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The CD47-signal regulatory protein alpha (SIRPa) interaction is a therapeutic target for human solid tumors
Willingham, S. B., Volkmer, J.-P., Gentles, A. J., Sahoo, D., Dalerba, P., Mitra, S. S., … Weissman, I. L. (2012). The CD47-signal regulatory protein alpha (SIRPa) interaction is a therapeutic target for human solid tumors. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 109(17), 6662–67. -
Absolute lymphocyte count at day 28 independently predicts event-free and overall survival in adults with newly diagnosed acute lymphoblastic leukemia
Sun, D., Elson, P., Liedtke, M., Medeiros, B. C., Earl, M., Alizadeh, A., … Advani, A. S. (2012). Absolute lymphocyte count at day 28 independently predicts event-free and overall survival in adults with newly diagnosed acute lymphoblastic leukemia. AMERICAN JOURNAL OF HEMATOLOGY, 87(10), 957–960. -
The chemoattractant chemerin suppresses melanoma by recruiting natural killer cell antitumor defenses
Pachynski, R. K., Zabel, B. A., Kohrt, H. E., Tejeda, N. M., Monnier, J., Swanson, C. D., … Butcher, E. C. (2012). The chemoattractant chemerin suppresses melanoma by recruiting natural killer cell antitumor defenses. JOURNAL OF EXPERIMENTAL MEDICINE, 209(8), 1427–1435. -
Correction: Specific post-translational histone modifications of neutrophil extracellular traps as immunogens and potential targets of lupus autoantibodies.
Liu, C. L., Tangsombatvisit, S., Rosenberg, J. M., Mandelbaum, G., Gillespie, E. C., Gozani, O. P., … Utz, P. J. (2012). Correction: Specific post-translational histone modifications of neutrophil extracellular traps as immunogens and potential targets of lupus autoantibodies. Arthritis Research & Therapy, 14(4), 403-? -
CD137 Is Expressed in Follicular Dendritic Cell Tumors and in Classical Hodgkin and T-Cell Lymphomas Diagnostic and Therapeutic Implications
Anderson, M. W., Zhao, S., Freud, A. G., Czerwinski, D. K., Kohrt, H., Alizadeh, A. A., … Natkunam, Y. (2012). CD137 Is Expressed in Follicular Dendritic Cell Tumors and in Classical Hodgkin and T-Cell Lymphomas Diagnostic and Therapeutic Implications. AMERICAN JOURNAL OF PATHOLOGY, 181(3), 795–803. -
Rituximab use and survival after diffuse large B-cell or follicular lymphoma: a population-based study.
Keegan, T. H. M., Moy, L. M., Foran, J. M., Alizadeh, A. A., Chang, E. T., Shema, S. J., … Glaser, S. L. (2013). Rituximab use and survival after diffuse large B-cell or follicular lymphoma: a population-based study. Leukemia & Lymphoma, 54(4), 743–751. -
Self-antigen recognition by follicular lymphoma B-cell receptors
Sachen, K. L., Strohman, M. J., Singletary, J., Alizadeh, A. A., Kattah, N. H., Lossos, C., … Levy, R. (2012). Self-antigen recognition by follicular lymphoma B-cell receptors. BLOOD, 120(20), 4182–90. -
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Hierarchy in somatic mutations arising during genomic evolution and progression of follicular lymphoma.
Green, M. R., Gentles, A. J., Nair, R. V., Irish, J. M., Kihira, S., Liu, C. L., … Alizadeh, A. A. (2013). Hierarchy in somatic mutations arising during genomic evolution and progression of follicular lymphoma. Blood, 121(9), 1604–1611. -
High PD-1 expression and suppressed cytokine signaling distinguish T cells infiltrating follicular lymphoma tumors from peripheral T cells.
Myklebust, J. H., Irish, J. M., Brody, J., Czerwinski, D. K., Houot, R., Kohrt, H. E., … Levy, R. (2013). High PD-1 expression and suppressed cytokine signaling distinguish T cells infiltrating follicular lymphoma tumors from peripheral T cells. Blood, 121(8), 1367–76. -
Germinal centre protein HGAL promotes lymphoid hyperplasia and amyloidosis via BCR-mediated Syk activation.
Romero-Camarero, I., Jiang, X., Natkunam, Y., Lu, X., Vicente-Dueñas, C., Gonzalez-Herrero, I., … Lossos, I. S. (2013). Germinal centre protein HGAL promotes lymphoid hyperplasia and amyloidosis via BCR-mediated Syk activation. Nature Communications, 4, 1338-? -
Utility in prognostic value added by molecular profiles for diffuse large B-cell lymphoma.
Gentles, A. J., & Alizadeh, A. A. (2013). Utility in prognostic value added by molecular profiles for diffuse large B-cell lymphoma. Blood, 121(15), 3052–3054. -
Identification of gene microarray expression profiles in patients with chronic graft-versus-host disease following allogeneic hematopoietic cell transplantation.
Kohrt, H. E., Tian, L., Li, L., Alizadeh, A. A., Hsieh, S., Tibshirani, R. J., … Lowsky, R. (2013). Identification of gene microarray expression profiles in patients with chronic graft-versus-host disease following allogeneic hematopoietic cell transplantation. Clinical Immunology , 148(1), 124–35. -
Probing lymphocyte biology by genomic-scale gene expression analysis
Alizadeh, A., Eisen, M., Botstein, D., Brown, P. O., & Staudt, L. M. (1998). Probing lymphocyte biology by genomic-scale gene expression analysis. JOURNAL OF CLINICAL IMMUNOLOGY, 18(6), 373–379. -
Molecular heterogeneity in acute renal allograft rejection identified by DNA microarray profiling
Molecular heterogeneity in acute renal allograft rejection identified by DNA microarray profiling. (2003). N Engl J Med, 349(2). -
Therapeutic Antibody Targeting of CD47 Synergizes with Rituximab to Completely Eradicate Human B-Cell Lymphoma
Chao, M. P., & Majeti R. (2010). Therapeutic Antibody Targeting of CD47 Synergizes with Rituximab to Completely Eradicate Human B-Cell Lymphoma. Cell, 142(5). -
Is Time of the Essence in Adult Acute Myeloid Leukemia (AML)? Time to Blast Clearance and Time to Induction Therapy Fail to Predict Overall Survival (OS)
Is Time of the Essence in Adult Acute Myeloid Leukemia (AML)? Time to Blast Clearance and Time to Induction Therapy Fail to Predict Overall Survival (OS). (2010). Blood (e-Letter), 113(1). -
A pluripotency signature predicts histological transformation and influences survival in follicular lymphoma patients
A pluripotency signature predicts histological transformation and influences survival in follicular lymphoma patients. (2009). Blood. -
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Systematic Deconvolution of Hematolymphoid Tumor Transcriptomes Reveals Infiltrating Immune Cell Signatures Related to Survival
Newman, A. M., Gentles, A. J., Plevritis, S. K., & Alizadeh, A. A. (2012). Systematic Deconvolution of Hematolymphoid Tumor Transcriptomes Reveals Infiltrating Immune Cell Signatures Related to Survival. BLOOD, 120(21). -
CD47 Is An Independent Prognostic Factor and Therapeutic Antibody Target on Human Acute Myeloid Leukemia Stem Cells
Majeti, R., Chao, M. P., Alizadeh, A. A., Pang, W. W., & Weissman, I. L. (2008). CD47 Is An Independent Prognostic Factor and Therapeutic Antibody Target on Human Acute Myeloid Leukemia Stem Cells. BLOOD, 112(11), 284–284. -
CD47 IS AN ADVERSE PROGNOSTIC FACTOR IN NON-HODGKIN LYMPHOMA AND A THERAPEUTIC ANTIBODY TARGET THAT SYNERGIZES WITH RITUXIMAB
Chao, M. P., Alizadeh, A., Tang, C. Z., Jan, M., Levy, R., Majeti, R., & Weissman, I. L. (2009). CD47 IS AN ADVERSE PROGNOSTIC FACTOR IN NON-HODGKIN LYMPHOMA AND A THERAPEUTIC ANTIBODY TARGET THAT SYNERGIZES WITH RITUXIMAB. EXPERIMENTAL HEMATOLOGY, 37(9), S8–S9. -
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LMO2 Protein Expression Predicts Survival in Patients with Diffuse Large B-Cell Lymphoma Treated with Immunochemotherapy (RCHOP): A Multicenter Validation Study.
Advani, R., Talreja, N., Tibshirani, R., Zhao, S., Alizadeh, A., Briones, J., … Natkunam, Y. (2008). LMO2 Protein Expression Predicts Survival in Patients with Diffuse Large B-Cell Lymphoma Treated with Immunochemotherapy (RCHOP): A Multicenter Validation Study. BLOOD, 112(11), 1291–1291. -
Prediction of Survival in Diffuse Large B-Cell Lymphoma Based On the Expression of Two Genes: Integration of Tumor and Microenvironment Contributions
Alizadeh, A. A., Gentles, A. J., Alencar, A. J., Kohrt, H. E., Houot, R., Talreja, N., … Levy, R. (2009). Prediction of Survival in Diffuse Large B-Cell Lymphoma Based On the Expression of Two Genes: Integration of Tumor and Microenvironment Contributions. BLOOD, 114(22), 258–58. -
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NF-kappa B Signaling In Response to CpG Stratifies Mantle Cell Lymphoma Patient Outcome
Myklebust, J. H., Irish, J. M., Brody, J., Alizadeh, A. A., Czerwinski, D., Houot, R., … Levy, R. (2010). NF-kappa B Signaling In Response to CpG Stratifies Mantle Cell Lymphoma Patient Outcome. BLOOD, 116(21), 67–68. -
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Self-Antigen Recognition by the B Cell Receptors of Follicular Lymphoma
Layn, K., Alizadeh, A. A., Kattah, N., Levy, S., & Levy, R. (2010). Self-Antigen Recognition by the B Cell Receptors of Follicular Lymphoma. BLOOD, 116(21), 1678–1679. -
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Hierarchy in Somatic Mutations Arising During Genomic Evolution and Progression of Follicular Lymphoma
Green, M. R., Gentles, A. J., Nair, R. V., Irish, J. M., Levy, R., & Alizadeh, A. A. (2012). Hierarchy in Somatic Mutations Arising During Genomic Evolution and Progression of Follicular Lymphoma. BLOOD, 120(21). -
Targeting B-Cell Lymphoma with Idiotype-Specific Peptibodies: Toward a Personalized and Tumor-Specific Therapy
Torchia, J. A., Ng, P. P., Chen, H., Kohrt, H. E., Marabelle, A., Alizadeh, A. A., & Levy, R. (2012). Targeting B-Cell Lymphoma with Idiotype-Specific Peptibodies: Toward a Personalized and Tumor-Specific Therapy. BLOOD, 120(21). -
Gene expression signature of fibroblast serum response predicts human cancer progression: Similarities between tumors and wounds
Chang, H. Y., Sneddon, J. B., Alizadeh, A. A., Sood, R., West, R. B., Montgomery, K., … Brown, P. O. (2004). Gene expression signature of fibroblast serum response predicts human cancer progression: Similarities between tumors and wounds. PLOS BIOLOGY, 2(2), 206–14. -
Noninvasive Prediction of Graft-Versus-Host Disease Following Allogeneic Hematopoietic Cell Transplantation by Gene Expression Profiling.
Li, L., Kohrt, H., Heish, S., Alizadeh, A., Laport, G., Shizuru, J., … Sarwal, M. (2010). Noninvasive Prediction of Graft-Versus-Host Disease Following Allogeneic Hematopoietic Cell Transplantation by Gene Expression Profiling. Presented at the 10th American Transplant Congress, SAN DIEGO,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA: WILEY-BLACKWELL. -
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The chemoattractant chemerin as a natural tumor suppressive cytokine.
Pachynski, R. K., Zabel, B., Tejeda, N., Monnier, J., Holzer, A. K., Gentles, A., … Butcher, E. (2012). The chemoattractant chemerin as a natural tumor suppressive cytokine. JOURNAL OF CLINICAL ONCOLOGY, 30(15). -
Early Mortality in Acute Promyelocytic Leukemia May Be Higher Than Previously Reported.
Alizadeh, A. A., McClellan, J. S., Gotlib, J. R., Coutre, S., Majeti, R., Kohrt, H. E., & Medeiros, B. C. (2009). Early Mortality in Acute Promyelocytic Leukemia May Be Higher Than Previously Reported. BLOOD, 114(22), 420–421. -
Identification of Candidate Transcriptional Biomarkers Associated with Chronic Graft-Versus-Host Disease Following Allogeneic Hematopoietic Cell Transplantation
Kohrt, H. E., Tian, L., Li, L., Alizadeh, A. A., Hsieh, S., Strober, S., … Lowsky, R. (2012). Identification of Candidate Transcriptional Biomarkers Associated with Chronic Graft-Versus-Host Disease Following Allogeneic Hematopoietic Cell Transplantation. BLOOD, 120(21). -
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Genome-Wide Characterization of Human Hematopoietic Progenitor Cell Heterogeneity by Expression Profiling of Single Cells: A Pilot Study
Liu, C. L., Dai, B., Newman, A. M., Majeti, R., & Alizadeh, A. A. (2012). Genome-Wide Characterization of Human Hematopoietic Progenitor Cell Heterogeneity by Expression Profiling of Single Cells: A Pilot Study. BLOOD, 120(21). -
Cell-free DNA as a Biomarker of Residual Disease Following Radiation Therapy for Non-small Cell Lung Cancer
Bratman, S. V., Eclov, N. C., Modlin, L. A., Neal, J., Loo, B. W., Wu, G., … Diehn, M. (2012). Cell-free DNA as a Biomarker of Residual Disease Following Radiation Therapy for Non-small Cell Lung Cancer. INTERNATIONAL JOURNAL OF RADIATION ONCOLOGY BIOLOGY PHYSICS, 84(3), S713–S713. -
The Diffuse Large B-Cell Lymphoma Infiltrating Macrophage Transcriptome Signature Is Enriched for Both M1 and M2 Genes and Provides an Excellent Platform for Functional Validation of Macrophage Biology in DLBCL
Coutinho, R., Newman, A. M., Rossignoli, G., Day, W., Miraki-Moud, F., Chaplin, T., … Gribben, J. G. (2012). The Diffuse Large B-Cell Lymphoma Infiltrating Macrophage Transcriptome Signature Is Enriched for Both M1 and M2 Genes and Provides an Excellent Platform for Functional Validation of Macrophage Biology in DLBCL. BLOOD, 120(21). -
Gene expression in large B-cell lymphoma using cDNA microarray technology.
Chan, W. C., Alizadeh, A., Eisen, M., Davis, R. E., Ma, C., Sabet, H., … Staudt, L. M. (1999). Gene expression in large B-cell lymphoma using cDNA microarray technology. BLOOD, 94(10), 698A–698A. -
Three differentiation states risk-stratify bladder cancer into distinct subtypes (vol 109, pg 2078, 2012)
Volkmer, J.-P., Sahoo, D., Chin, R. K., Ho, P. L., Tang, C., Kurtova, A. V., … Chan, K. S. (2012). Three differentiation states risk-stratify bladder cancer into distinct subtypes (vol 109, pg 2078, 2012). PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 109(9), 3600–3600. -
Is Time of the Essence in Adult Acute Myeloid Leukemia (AML)? Time to Blast Clearance and Time to Induction Therapy Fail to Predict Overall Survival (OS).
Kohrt, H. E., Patel, S., Ho, M., Owen, T., Majeti, R., Gotlib, J. R., … Alizadeh, A. A. (2009). Is Time of the Essence in Adult Acute Myeloid Leukemia (AML)? Time to Blast Clearance and Time to Induction Therapy Fail to Predict Overall Survival (OS). BLOOD, 114(22), 646–647. -
An ultrasensitive method for quantitating circulating tumor DNA with broad patient coverage.
Newman, A. M., Bratman, S. V., To, J., Wynne, J. F., Eclov, N. C. W., Modlin, L. A., … Diehn, M. (2014). An ultrasensitive method for quantitating circulating tumor DNA with broad patient coverage. Nature Medicine, 20(5), 548–54. -
Transient expression of Bcl6 is sufficient for oncogenic function and induction of mature B-cell lymphoma.
Green, M. R., Vicente-Dueñas, C., Romero-Camarero, I., Long Liu, C., Dai, B., González-Herrero, I., … Sánchez-García, I. (2014). Transient expression of Bcl6 is sufficient for oncogenic function and induction of mature B-cell lymphoma. Nature Communications, 5, 3904-? -
Common progenitor cells in mature B-cell malignancies: implications for therapy.
Green, M. R., & Alizadeh, A. A. (2014). Common progenitor cells in mature B-cell malignancies: implications for therapy. Current Opinion in Hematology, 21(4), 333–340. -
An ultrasensitive method for quantitating circulating tumor DNA with broad patient coverage
Newman, A. M., Bratman, S. V., To, J., Wynne, J. F., Eclov, N. C. W., Modlin, L. A., … Diehn, M. (2014). An ultrasensitive method for quantitating circulating tumor DNA with broad patient coverage. NATURE MEDICINE, 20(5), 552–58. -
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Hit-and-run lymphomagenesis by the Bcl6 oncogene.
Green, M. R., Vicente-Dueñas, C., Alizadeh, A. A., & Sánchez-García, I. (2014). Hit-and-run lymphomagenesis by the Bcl6 oncogene. Cell Cycle , 13(12), 1831–1832. -
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Transient expression of Bcl6 is sufficient for oncogenic function and induction of mature B-cell lymphoma
Green, M. R., Vicente-Duenas, C., Romero-Camarero, I., Liu, C. L., Dai, B., Gonzalez-Herrero, I., … Sanchez-Garcia, I. (2014). Transient expression of Bcl6 is sufficient for oncogenic function and induction of mature B-cell lymphoma. NATURE COMMUNICATIONS, 5. -
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Active idiotypic vaccination versus control immunotherapy for follicular lymphoma.
Levy, R., Ganjoo, K. N., Leonard, J. P., Vose, J. M., Flinn, I. W., Ambinder, R. F., … Denney, D. W. (2014). Active idiotypic vaccination versus control immunotherapy for follicular lymphoma. Journal of Clinical Oncology , 32(17), 1797–1803. -
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FACTERA: a practical method for the discovery of genomic rearrangements at breakpoint resolution
Newman, A. M., Bratman, S. V., Stehr, H., Lee, L. J., Liu, C. L., Diehn, M., & Alizadeh, A. A. (2014). FACTERA: a practical method for the discovery of genomic rearrangements at breakpoint resolution. BIOINFORMATICS, 30(23), 3390–93. -
Potential clinical utility of ultrasensitive circulating tumor DNA detection with CAPP-Seq.
Bratman, S. V., Newman, A. M., Alizadeh, A. A., & Diehn, M. (2015). Potential clinical utility of ultrasensitive circulating tumor DNA detection with CAPP-Seq. Expert Review of Molecular Diagnostics, 1–5. -
Mutations in early follicular lymphoma progenitors are associated with suppressed antigen presentation.
Green, M. R., Kihira, S., Liu, C. L., Nair, R. V., Salari, R., Gentles, A. J., … Alizadeh, A. A. (2015). Mutations in early follicular lymphoma progenitors are associated with suppressed antigen presentation. Proceedings of the National Academy of Sciences of the United States of America, 112(10), E1116–25. -
Noninvasive monitoring of diffuse large B-cell lymphoma by immunoglobulin high-throughput sequencing.
Kurtz, D. M., Green, M. R., Bratman, S. V., Scherer, F., Liu, C. L., Kunder, C. A., … Alizadeh, A. A. (2015). Noninvasive monitoring of diffuse large B-cell lymphoma by immunoglobulin high-throughput sequencing. Blood, 125(24), 3679–87. -
Mixed Phenotype Acute Leukemia A Study of 61 Cases Using World Health Organization and European Group for the Immunological Classification of Leukaemias Criteria
Weinberg, O. K., Seetharam, M., Ren, L., Alizadeh, A., & Arber, D. A. (2014). Mixed Phenotype Acute Leukemia A Study of 61 Cases Using World Health Organization and European Group for the Immunological Classification of Leukaemias Criteria. AMERICAN JOURNAL OF CLINICAL PATHOLOGY, 142(6), 803–808. -
A Simple Method for Estimating Interactions between a Treatment and a Large Number of Covariates.
Tian, L., Alizadeh, A. A., Gentles, A. J., & Tibshirani, R. (2014). A Simple Method for Estimating Interactions between a Treatment and a Large Number of Covariates. Journal of the American Statistical Association, 109(508), 1517–1532. -
Robust enumeration of cell subsets from tissue expression profiles.
Newman, A. M., Liu, C. L., Green, M. R., Gentles, A. J., Feng, W., Xu, Y., … Alizadeh, A. A. (2015). Robust enumeration of cell subsets from tissue expression profiles. Nature Methods, 12(5), 453–57. -
Large-Scale and Comprehensive Immune Profiling and Functional Analysis of Normal Human Aging.
Whiting, C. C., Siebert, J., Newman, A. M., Du, H.-W., Alizadeh, A. A., Goronzy, J., … Maecker, H. T. (2015). Large-Scale and Comprehensive Immune Profiling and Functional Analysis of Normal Human Aging. PloS One, 10(7). -
The prognostic landscape of genes and infiltrating immune cells across human cancers
Gentles, A. J., Newman, A. M., Liu, C. L., Bratman, S. V., Feng, W., Kim, D., … Alizadeh, A. A. (2015). The prognostic landscape of genes and infiltrating immune cells across human cancers. NATURE MEDICINE, 21(8), 938–45. -
Integrating Tumor and Stromal Gene Expression Signatures With Clinical Indices for Survival Stratification of Early-Stage Non-Small Cell Lung Cancer.
Gentles, A. J., Bratman, S. V., Lee, L. J., Harris, J. P., Feng, W., Nair, R. V., … Diehn, M. (2015). Integrating Tumor and Stromal Gene Expression Signatures With Clinical Indices for Survival Stratification of Early-Stage Non-Small Cell Lung Cancer. Journal of the National Cancer Institute, 107(10). -
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Mutations in early follicular lymphoma progenitors are associated with suppressed antigen presentation.
Green, M. R., Kihira, S., Liu, C. L., Nair, R. V., Salari, R., Gentles, A. J., … Alizadeh, A. A. (2015). Mutations in early follicular lymphoma progenitors are associated with suppressed antigen presentation. Proceedings of the National Academy of Sciences of the United States of America, 112(10), E1116–25. -
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Robust enumeration of cell subsets from tissue expression profiles
Newman, A. M., Liu, C. L., Green, M. R., Gentles, A. J., Feng, W., Xu, Y., … Alizadeh, A. A. (2015). Robust enumeration of cell subsets from tissue expression profiles. NATURE METHODS, 12(5), 453-? -
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Predicting Radiotherapy Responses and Treatment Outcomes Through Analysis of Circulating Tumor DNA.
Chaudhuri, A. A., Binkley, M. S., Osmundson, E. C., Alizadeh, A. A., & Diehn, M. (2015). Predicting Radiotherapy Responses and Treatment Outcomes Through Analysis of Circulating Tumor DNA. Seminars in Radiation Oncology, 25(4), 305–12. -
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Integrated digital error suppression for improved detection of circulating tumor DNA
Newman, A. M., Lovejoy, A. F., Klass, D. M., Kurtz, D. M., Chabon, J. J., Scherer, F., … Alizadeh, A. A. (2016). Integrated digital error suppression for improved detection of circulating tumor DNA. NATURE BIOTECHNOLOGY, 34(5), 547–55. -
Circulating tumour DNA profiling reveals heterogeneity of EGFR inhibitor resistance mechanisms in lung cancer patients
Chabon, J. J., Simmons, A. D., Lovejoy, A. F., Esfahani, M. S., Newman, A. M., Haringsma, H. J., … Diehn, M. (2016). Circulating tumour DNA profiling reveals heterogeneity of EGFR inhibitor resistance mechanisms in lung cancer patients. NATURE COMMUNICATIONS, 7. -
High-throughput genomic profiling of tumor-infiltrating leukocytes.
Newman, A. M., & Alizadeh, A. A. (2016). High-throughput genomic profiling of tumor-infiltrating leukocytes. Current Opinion in Immunology, 41, 77–84. -
Role of KEAP1/NRF2 and TP53 Mutations in Lung Squamous Cell Carcinoma Development and Radiation Resistance.
Jeong, Y., Hoang, N. T., Lovejoy, A., Stehr, H., Newman, A. M., Gentles, A. J., … Diehn, M. (2016). Role of KEAP1/NRF2 and TP53 Mutations in Lung Squamous Cell Carcinoma Development and Radiation Resistance. Cancer Discovery. -
Distinct biological subtypes and patterns of genome evolution in lymphoma revealed by circulating tumor DNA
Scherer, F., Kurtz, D. M., Newman, A. M., Stehr, H., Craig, A. F. M., Esfahani, M. S., … Alizadeh, A. A. (2016). Distinct biological subtypes and patterns of genome evolution in lymphoma revealed by circulating tumor DNA. SCIENCE TRANSLATIONAL MEDICINE, 8(364). -
Antigen presentation profiling reveals recognition of lymphoma immunoglobulin neoantigens
Khodadoust, M. S., Olsson, N., Wagar, L. E., Haabeth, O. A. W., Chen, B., Swaminathan, K., … Alizadeh, A. A. (2017). Antigen presentation profiling reveals recognition of lymphoma immunoglobulin neoantigens. NATURE, 543(7647), 723-? -
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Distinct patterns of B-cell receptor signaling in non-Hodgkin lymphomas identified by single-cell profiling.
Myklebust, J. H., Brody, J., Kohrt, H. E., Kolstad, A., Czerwinski, D. K., Wälchli, S., … Levy, R. (2017). Distinct patterns of B-cell receptor signaling in non-Hodgkin lymphomas identified by single-cell profiling. Blood, 129(6), 759–70. -
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overexpression to promote lymphoma in mice.
García-Ramírez, I., Tadros, S., González-Herrero, I., Martín-Lorenzo, A., Rodríguez-Hernández, G., Moore, D., … Green, M. R. (2017). overexpression to promote lymphoma in mice. Blood, 129(19), 2645–56. -
Data normalization considerations for digital tumor dissection.
Newman, A. M., Gentles, A. J., Liu, C. L., Diehn, M., & Alizadeh, A. A. (2017). Data normalization considerations for digital tumor dissection. Genome Biology, 18(1), 128. -
Development and Validation of Biopsy-Free Genotyping for Molecular Subtyping of Diffuse Large B-Cell Lymphoma
Scherer, F., Kurtz, D. M., Newman, A. M., Esfahani, M. S., Craig, A., Stehr, H., … Alizadeh, A. A. (2016). Development and Validation of Biopsy-Free Genotyping for Molecular Subtyping of Diffuse Large B-Cell Lymphoma. BLOOD. SAN DIEGO,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA,CA: AMER SOC HEMATOLOGY. -
Early detection of molecular residual disease in localized lung cancer by circulating tumor DNA profiling.
Chaudhuri, A. A., Chabon, J. J., Lovejoy, A. F., Newman, A. M., Stehr, H., Azad, T. D., … Diehn, M. (2017). Early detection of molecular residual disease in localized lung cancer by circulating tumor DNA profiling. Cancer Discovery. -
Profiling Tumor Infiltrating Immune Cells with CIBERSORT.
Chen, B., Khodadoust, M. S., Liu, C. L., Newman, A. M., & Alizadeh, A. A. (2018). Profiling Tumor Infiltrating Immune Cells with CIBERSORT. Methods in Molecular Biology (Clifton, N.J.), 1711, 243–59. -
Combination approach for detecting different types of alterations in circulating tumor DNA in leiomyosarcoma.
Przybyl, J., Chabon, J. J., Spans, L., Ganjoo, K., Vennam, S., Newman, A. M., … van de Rijn, M. (2018). Combination approach for detecting different types of alterations in circulating tumor DNA in leiomyosarcoma. Clinical Cancer Research : an Official Journal of the American Association for Cancer Research. -
NONINVASIVE PREDICTION OF GRAFT-VERUS-HOST DISEASE FOLLOWING ALLOGENEIC HEMATOPOIETIC CELL TRANSPLANTATION BY GENE EXPRESSION PROFILING
Kohrt, H. E., Li, L., Alizadeh, A. A., Heish, S., Goldstein, M. J., Strober, S., … Lowsky, R. (2011). NONINVASIVE PREDICTION OF GRAFT-VERUS-HOST DISEASE FOLLOWING ALLOGENEIC HEMATOPOIETIC CELL TRANSPLANTATION BY GENE EXPRESSION PROFILING. BIOLOGY OF BLOOD AND MARROW TRANSPLANTATION, 17(2), S336. -
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Ultrasensitive Detection of Circulating Tumor DNA in Non-Small Cell Lung Cancer by Deep Sequencing
Diehn, M., Bratman, S. V., Newman, A. M., Neal, J. W., Wakelee, H. A., Merritt, R. E., … Alizadeh, A. (2014). Ultrasensitive Detection of Circulating Tumor DNA in Non-Small Cell Lung Cancer by Deep Sequencing. INTERNATIONAL JOURNAL OF RADIATION ONCOLOGY BIOLOGY PHYSICS, 90, S75. -
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A stem cell-like signature predicts histological transformation and influences survival in follicular lymphoma patients
Gentles, A., Alizadeh, A., Lee, S.-I., Shahbaba, B., Shachaf, C., Levy, R., … Plevritis, S. (2009). A stem cell-like signature predicts histological transformation and influences survival in follicular lymphoma patients. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
The prognostic landscape of genes and infiltrating immune cells across human cancers
Gentles, A. J., Newman, A. M., Liu, C. L., Bratman, S. V., Feng, W., Kim, D., … Alizadeh, A. A. (2015). The prognostic landscape of genes and infiltrating immune cells across human cancers. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
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Noninvasive Genotyping and Assessment of Treatment Response in Diffuse Large B Cell Lymphoma
Scherer, F., Kurtz, D. M., Newman, A. M., Stehr, H., Liu, C. L., Zhou, L., … Alizadeh, A. A. (2015). Noninvasive Genotyping and Assessment of Treatment Response in Diffuse Large B Cell Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
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Distinct early response dynamics of circulating tumor DNA and circulating tumor cells during therapy of B-cell NHL.
Kurtz, D. M., Scherer, F., Green, M. R., Khodadoust, M. S., Klass, D. M., Zhou, L., … Alizadeh, A. A. (2015). Distinct early response dynamics of circulating tumor DNA and circulating tumor cells during therapy of B-cell NHL. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
KLHL6 Is Preferentially Expressed in Germinal Center-Derived B-Cell Lymphomas
Kunder, C. A., Roncador, G., Advani, R. H., Gualco, G., Bacchi, C. E., Sabile, J. M., … Natkunam, Y. (2017). KLHL6 Is Preferentially Expressed in Germinal Center-Derived B-Cell Lymphomas. AMERICAN JOURNAL OF CLINICAL PATHOLOGY, 148(6), 465–76. -
Characterization of the Novel Germinal Center Marker KLHL6 in Human Lymphomas
Kunder, C. A., Zhao, S., Martinez, E. G., Roncador, G., Alizadeh, A. A., Lossos, I. S., & Natkunam, Y. (2013). Characterization of the Novel Germinal Center Marker KLHL6 in Human Lymphomas. LABORATORY INVESTIGATION. NATURE PUBLISHING GROUP. -
Characterization of the Novel Germinal Center Marker KLHL6 in Human Lymphomas
Kunder, C. A., Zhao, S., Martinez, E. G., Roncador, G., Alizadeh, A. A., Lossos, I. S., & Natkunam, Y. (2013). Characterization of the Novel Germinal Center Marker KLHL6 in Human Lymphomas. MODERN PATHOLOGY. NATURE PUBLISHING GROUP. -
HGAL-a Germinal Center Specific Protein, Enhances B-Cell Receptor Signaling by Activation of Syk, Leading to Follicular Lymphoproliferation
Jiang, X., Romero-Camarero, I., Lu, X., Vicente-Duenas, C., Gonzalez-Herrero, I., Flores, T., … Lossos, I. S. (2011). HGAL-a Germinal Center Specific Protein, Enhances B-Cell Receptor Signaling by Activation of Syk, Leading to Follicular Lymphoproliferation. BLOOD. AMER SOC HEMATOLOGY. -
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Circulating Tumor DNA Detects Residual Disease and Anticipates Tumor Progression Earlier Than CT Imaging
Chaudhuri, A. A., Chabon, J. J., Lovejoy, A. F., Newman, A. M., Stehr, H., Azad, T. D., … Diehn, M. (2017). Circulating Tumor DNA Detects Residual Disease and Anticipates Tumor Progression Earlier Than CT Imaging. INTERNATIONAL JOURNAL OF RADIATION ONCOLOGY BIOLOGY PHYSICS, 98(2), E4. -
Identification of Candidate Transcriptional Biomarkers Associated with Chronic Graft-Versus-Host Disease Following Allogeneic Hematopoietic Cell Transplantation
Kohrt, H. E., Tian, L., Li, L., Alizadeh, A. A., Hsieh, S., Strober, S., … Lowsky, R. (2012). Identification of Candidate Transcriptional Biomarkers Associated with Chronic Graft-Versus-Host Disease Following Allogeneic Hematopoietic Cell Transplantation. BLOOD, 120(21). -
Dynamic Noninvasive Genomic Monitoring for Outcome Prediction in Diffuse Large B-Cell Lymphoma
Kurtz, D. M., Scherer, F., Newman, A. M., Lovejoy, A. F., Klass, D. M., Chabon, J. J., … Alizadeh, A. A. (2015). Dynamic Noninvasive Genomic Monitoring for Outcome Prediction in Diffuse Large B-Cell Lymphoma. BLOOD, 126(23). -
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Circulating Tumor DNA Quantitation for Early Response Assessment of Immune Checkpoint Inhibitors for Metastatic Non-Small Cell Lung Cancer
Chaudhuri, A. A., Nabet, B. Y., Merriott, D. J., Jin, M., Chen, E. L., Chabon, J. J., … Diehn, M. (2018). Circulating Tumor DNA Quantitation for Early Response Assessment of Immune Checkpoint Inhibitors for Metastatic Non-Small Cell Lung Cancer. INTERNATIONAL JOURNAL OF RADIATION ONCOLOGY BIOLOGY PHYSICS. ELSEVIER SCIENCE INC. -
High-throughput sequencing for noninvasive disease detection in hematologic malignancies.
Scherer, F., Kurtz, D. M., Diehn, M., & Alizadeh, A. A. (2017). High-throughput sequencing for noninvasive disease detection in hematologic malignancies. Blood, 130(4), 440–52. -
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Circulating Tumor DNA Measurements As Early Outcome Predictors in Diffuse Large B-Cell Lymphoma.
Kurtz, D. M., Scherer, F., Jin, M. C., Soo, J., Craig, A. F., Esfahani, M. S., … Alizadeh, A. A. (2018). Circulating Tumor DNA Measurements As Early Outcome Predictors in Diffuse Large B-Cell Lymphoma. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology, JCO2018785246. -
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Noninvasive Cancer Classification Using Diverse Genomic Features in Circulating Tumor DNA
Esfahani, M. S., Newman, A. M., Scherer, F., Tibshirani, R., Diehn, M., & Alizadeh, A. A. (2016). Noninvasive Cancer Classification Using Diverse Genomic Features in Circulating Tumor DNA. PROCEEDINGS OF THE 7TH ACM INTERNATIONAL CONFERENCE ON BIOINFORMATICS, COMPUTATIONAL BIOLOGY, AND HEALTH INFORMATICS, 516. -
Absence of Evidence Implicating Hematopoietic Stem Cells As Common Progenitors for DLBCL Mutations
Jan, M., Scherer, F., Kurtz, D. M., Newman, A. M., Stehr, H., Liu, C. L., … Alizadeh, A. A. (2016). Absence of Evidence Implicating Hematopoietic Stem Cells As Common Progenitors for DLBCL Mutations. BLOOD. AMER SOC HEMATOLOGY. -
Noninvasive Detection of BCL2, BCL6, and MYC Translocations in Diffuse Large B-Cell Lymphoma
Kurtz, D. M., Scherer, F., Newman, A. M., Craig, A., Jin, M., Stehr, H., … Alizadeh, A. A. (2016). Noninvasive Detection of BCL2, BCL6, and MYC Translocations in Diffuse Large B-Cell Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Noninvasive Detection of Ibrutinib Resistance in Non-Hodgkin Lymphoma Using Cell-Free DNA
Scherer, F., Kurtz, D. M., Newman, A. M., Craig, A., Stehr, H., Zhou, L., … Alizadeh, A. A. (2016). Noninvasive Detection of Ibrutinib Resistance in Non-Hodgkin Lymphoma Using Cell-Free DNA. BLOOD, 128(22). -
The VarScan2's SNVs-Near-Indel Filter: Is It Necessary?
Suarez, C. J., Stehr, H., Fung, E., Kunder, C. A., Ewalt, M. D., Lal, A., … Zehnder, J. (2015). The VarScan2's SNVs-Near-Indel Filter: Is It Necessary? JOURNAL OF MOLECULAR DIAGNOSTICS. ELSEVIER SCIENCE INC. -
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Circulating tumor DNA (ctDNA) in B-cell lymphoma
Scherer, F., Kurtz, D. M., Newman, A. M., Stehr, H., Craig, A. F. M., Esfahani, M. S., … Alizadeh, A. A. (2018). Circulating tumor DNA (ctDNA) in B-cell lymphoma. BRITISH JOURNAL OF HAEMATOLOGY. WILEY. -
Antigen Presentation Profiling Reveals T-Cell Recognition of Lymphoma Immunoglobulin Neoantigens
Khodadoust, M., Olsson, N., Wagar, L., Chen, B., Rawson, K., Liu, C. L., … Alizadeh, A. A. (2016). Antigen Presentation Profiling Reveals T-Cell Recognition of Lymphoma Immunoglobulin Neoantigens. BLOOD. AMER SOC HEMATOLOGY. -
Analysis of Urinary Cell-free DNA for Early Detection and Surveillance of Bladder Cancer
Dudley, J., Schroers-Martin, J., Lazzareschi, D., Shi, W., Chen, S., Liao, J., … Diehn, M. (2018). Analysis of Urinary Cell-free DNA for Early Detection and Surveillance of Bladder Cancer. JOURNAL OF MOLECULAR DIAGNOSTICS, 20(6), 968. -
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B cell lymphomas present immunoglobulin neoantigens.
Khodadoust, M. S., Olsson, N., Chen, B., Sworder, B., Shree, T., Liu, C. L., … Alizadeh, A. A. (2018). B cell lymphomas present immunoglobulin neoantigens. Blood. -
Detection and surveillance of bladder cancer using urine tumor DNA.
Dudley, J. C., Schroers-Martin, J., Lazzareschi, D. V., Shi, W. Y., Chen, S. B., Esfahani, M. S., … Diehn, M. (2018). Detection and surveillance of bladder cancer using urine tumor DNA. Cancer Discovery. -
Noninvasive detection of clinically relevant copy number alterations in diffuse large B-cell lymphoma.
Jin, M. C., Kurtz, D. M., Esfahani, M. S., Scherer, F., Craig, A. F. M., Soo, J., … Alizadeh, A. A. (2017). Noninvasive detection of clinically relevant copy number alterations in diffuse large B-cell lymphoma. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
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Lymphoma Virome Dynamics Revealed By Cell-Free DNA Sequencing
Schroers-Martin, J. G., Garofalo, A., Soo, J., Jin, M. C., Kurtz, D. M., Buedts, L., … Alizadeh, A. A. (2018). Lymphoma Virome Dynamics Revealed By Cell-Free DNA Sequencing. BLOOD, 132. -
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Elucidation of distinct mutational patterns between diffuse large B cell lymphoma subtypes utilizing circulating tumor DNA.
Soo, J., Kurtz, D. M., Scherer, F., Craig, A. F. M., Jin, M. C., Westin, J. R., … Alizadeh, A. A. (2017). Elucidation of distinct mutational patterns between diffuse large B cell lymphoma subtypes utilizing circulating tumor DNA. JOURNAL OF CLINICAL ONCOLOGY, 35. -
Pembrolizumab for Treatment of Relapsed/Refractory Mycosis Fungoides and Sezary Syndrome: Clinical Efficacy in a Citn Multicenter Phase 2 Study
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On the hunt for cancer neoantigens: is mass spectrometry the solution?
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Early Detection of Post-Transplant Lymphoproliferative Disorder Using Circulating Tumor DNA
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Genomic Feature Selection by Coverage Design Optimization.
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Clinical and Pathological Variables Influencing Noninvasive Detection of Early Stage Lung Cancer Using Circulating Tumor DNA
Chabon, J., Chaudhuri, A., Azad, T., Kurtz, D., Stehr, H., Liu, C. L., … Diehn, M. (2017). Clinical and Pathological Variables Influencing Noninvasive Detection of Early Stage Lung Cancer Using Circulating Tumor DNA. JOURNAL OF THORACIC ONCOLOGY. ELSEVIER SCIENCE INC. -
Detection and Surveillance of Bladder Cancer Using Urine Tumor DNA
Dudley, J. C., Schroers-Martin, J., Lazzareschi, D., Shi, W., Chen, S. B., Esfahani, M. S., … Diehn, M. (2019). Detection and Surveillance of Bladder Cancer Using Urine Tumor DNA. CANCER DISCOVERY, 9(4), 500–509. -
Determining cell type abundance and expression from bulk tissues with digital cytometry.
Newman, A. M., Steen, C. B., Liu, C. L., Gentles, A. J., Chaudhuri, A. A., Scherer, F., … Alizadeh, A. A. (2019). Determining cell type abundance and expression from bulk tissues with digital cytometry. Nature Biotechnology. -
Combination Approach for Detecting Different Types of Alterations in Circulating Tumor DNA in Leiomyosarcoma
Przybyl, J., Chabon, J. J., Spans, L., Ganjoo, K. N., Vennam, S., Newman, A. M., … van de Rijn, M. (2018). Combination Approach for Detecting Different Types of Alterations in Circulating Tumor DNA in Leiomyosarcoma. CLINICAL CANCER RESEARCH, 24(11), 2688–99. -
Circulating Tumor DNA Measurements As Early Outcome Predictors in Diffuse Large B-Cell Lymphoma
Kurtz, D. M., Scherer, F., Jin, M. C., Soo, J., Craig, A. F. M., Esfahani, M. S., … Alizadeh, A. A. (2018). Circulating Tumor DNA Measurements As Early Outcome Predictors in Diffuse Large B-Cell Lymphoma. JOURNAL OF CLINICAL ONCOLOGY, 36(28), 2845-+. -
Circulating tumor DNA analysis for outcome prediction in localized esophageal cancer.
Azad, T. D., Chaudhuri, A., Newman, A. M., Stehr, H., Schroers-Martin, J., Chabon, J. J., … Diehn, M. (2017). Circulating tumor DNA analysis for outcome prediction in localized esophageal cancer. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
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Development of a Dynamic Model for Personalized Risk Assessment in Large B-Cell Lymphoma
Kurtz, D. M., Scherer, F., Jin, M., Soo, J., Craig, A., Esfahani, M. S., … Alizadeh, A. A. (2017). Development of a Dynamic Model for Personalized Risk Assessment in Large B-Cell Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Circulating Tumor DNA Is a Reliable Measure of Tumor Burden at Diagnosis of Diffuse Large B Cell Lymphoma: An International Reproducibility Study
Kurtz, D. M., Jin, M., Soo, J., Scherer, F., Craig, A., Chabon, J. J., … Alizadeh, A. A. (2017). Circulating Tumor DNA Is a Reliable Measure of Tumor Burden at Diagnosis of Diffuse Large B Cell Lymphoma: An International Reproducibility Study. BLOOD. AMER SOC HEMATOLOGY. -
Determinants of Circulating Tumor DNA Levels across Lymphoma Histologic Subtypes
Schroers-Martin, J. G., Kurtz, D. M., Soo, J., Jin, M., Scherer, F., Craig, A., … Alizadeh, A. A. (2017). Determinants of Circulating Tumor DNA Levels across Lymphoma Histologic Subtypes. BLOOD. AMER SOC HEMATOLOGY. -
Comparison of Circulating Tumor DNA Recovery from Plasma and Serum
Soo, J., Kurtz, D. M., Jin, M., Scherer, F., Schroers-Martin, J. G., Esfahani, M. S., … Alizadeh, A. A. (2017). Comparison of Circulating Tumor DNA Recovery from Plasma and Serum. BLOOD. AMER SOC HEMATOLOGY. -
Reproducibility of m7-FLIPI Risk Scores in Follicular Lymphoma Using Tumor Biopsies and Blood Specimens
Soo, J., Scherer, F., Kurtz, D. M., Schroers-Martin, J. G., Jin, M., Craig, A., … Alizadeh, A. A. (2017). Reproducibility of m7-FLIPI Risk Scores in Follicular Lymphoma Using Tumor Biopsies and Blood Specimens. BLOOD. AMER SOC HEMATOLOGY. -
Clinical Impact of Somatic Copy Number Alterations in Circulating Tumor DNA from Diverse Lymphoma Subtypes
Jin, M., Kurtz, D. M., Esfahani, M. S., Soo, J., Craig, A., Scherer, F., … Alizadeh, A. A. (2017). Clinical Impact of Somatic Copy Number Alterations in Circulating Tumor DNA from Diverse Lymphoma Subtypes. BLOOD. AMER SOC HEMATOLOGY. -
Early detection of post-transplant lymphoproliferative disorder using circulating tumor DNA.
Soo, J., Schroers-Martin, J., Garofalo, A., Kurtz, D. M., D'Emilio, N., & Grimm, D. R. (2018). Early detection of post-transplant lymphoproliferative disorder using circulating tumor DNA. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
Post-transplant head and neck cancers: A prospective analysis of clinical factors for risk stratification.
Soo, J., Schroers-Martin, J., Garofalo, A., Kurtz, D. M., D'Emilio, N., & Grimm, D. R. (2018). Post-transplant head and neck cancers: A prospective analysis of clinical factors for risk stratification. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
Hierarchy in Somatic Mutations Detected in Circulating and Tissue-Resident Follicular Lymphoma Precursors before Clinical Diagnosis
Schroers-Martin, J. G., Scherer, F., Soo, J., Kurtz, D. M., Liu, C. L., Stehr, H., … Alizadeh, A. A. (2017). Hierarchy in Somatic Mutations Detected in Circulating and Tissue-Resident Follicular Lymphoma Precursors before Clinical Diagnosis. BLOOD. AMER SOC HEMATOLOGY. -
Noninvasive molecular subtyping and risk stratification of DLBCL.
Scherer, F., Kurtz, D. M., Newman, A. M., Stehr, H., Craig, A. F. M., Esfahani, M. S., … Alizadeh, A. A. (2016). Noninvasive molecular subtyping and risk stratification of DLBCL. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
Dynamic Risk Profiling Using Serial Tumor Biomarkers for Personalized Outcome Prediction.
Kurtz, D. M., Esfahani, M. S., Scherer, F., Soo, J., Jin, M. C., Liu, C. L., … Alizadeh, A. A. (2019). Dynamic Risk Profiling Using Serial Tumor Biomarkers for Personalized Outcome Prediction. Cell. -
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Determining cell type abundance and expression from bulk tissues with digital cytometry
Newman, A. M., Steen, C. B., Liu, C. L., Gentles, A. J., Chaudhuri, A. A., Scherer, F., … Alizadeh, A. A. (2019). Determining cell type abundance and expression from bulk tissues with digital cytometry. NATURE BIOTECHNOLOGY, 37(7), 773-+. -
Integrated digital error suppression for noninvasive detection of circulating tumor DNA in NSCLC.
Newman, A. M., Lovejoy, A. F., Klass, D. M., Kurtz, D. M., Chabon, J. J., Scherer, F., … Diehn, M. (2016). Integrated digital error suppression for noninvasive detection of circulating tumor DNA in NSCLC. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
Spatial mapping of the immune microenvironment in primary triple-negative breast cancer (TNBC) and association with neoadjuvant therapy response
Telli, M. L., Vinayak, S., Khododoust, M. S., Gruber, J. J., Ford, J. M., Sanchez, P., … Alizadeh, A. A. (2019). Spatial mapping of the immune microenvironment in primary triple-negative breast cancer (TNBC) and association with neoadjuvant therapy response. CANCER RESEARCH, 79(4). -
Circulating Tumor DNA Changes During Chemoradiation for Lung Cancer Predict Patient Outcomes
Moding, E. J., Nabet, B. Y., Liu, Y., Chabon, J. J., Chaudhuri, A. A., Hui, A. B., … Diehn, M. (2019). Circulating Tumor DNA Changes During Chemoradiation for Lung Cancer Predict Patient Outcomes. INTERNATIONAL JOURNAL OF RADIATION ONCOLOGY BIOLOGY PHYSICS, 105(1), S113. -
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Predicting HLA class II antigen presentation through integrated deep learning.
Chen, B., Khodadoust, M. S., Olsson, N., Wagar, L. E., Fast, E., Liu, C. L., … Alizadeh, A. A. (2019). Predicting HLA class II antigen presentation through integrated deep learning. Nature Biotechnology. -
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Circulating tumor DNA analysis for detection of minimal residual disease after chemoradiotherapy for localized esophageal cancer.
Azad, T. D., Chaudhuri, A. A., Fang, P., Qiao, Y., Esfahani, M. S., Chabon, J. J., … Diehn, M. (2019). Circulating tumor DNA analysis for detection of minimal residual disease after chemoradiotherapy for localized esophageal cancer. Gastroenterology. -
Atlas of clinically-distinct cell states and cellular ecosystems across human solid tumors
Luca, B., Alizadeh, A., Diehn, M., Newman, A., Gentles, A., & Steen, C. (2019). Atlas of clinically-distinct cell states and cellular ecosystems across human solid tumors. JOURNAL FOR IMMUNOTHERAPY OF CANCER. BMC. -
HIGH PD-1 EXPRESSION AND SUPPRESSED EFFECTOR CYTOKINE SIGNALING DISTINGUISH T CELLS INFILTRATING FOLLICULAR LYMPHOMA TUMORS FROM PERIPHERAL T CELLS
Myklebust, J. H., Irish, J., Brody, J., Czerwinski, D., Houot, R., Kohrt, H., … Levy, R. (2012). HIGH PD-1 EXPRESSION AND SUPPRESSED EFFECTOR CYTOKINE SIGNALING DISTINGUISH T CELLS INFILTRATING FOLLICULAR LYMPHOMA TUMORS FROM PERIPHERAL T CELLS. HAEMATOLOGICA, 97, 121. -
Functional significance of U2AF1 S34F mutations in lung adenocarcinomas.
Esfahani, M. S., Lee, L. J., Jeon, Y.-J. J., Flynn, R. A., Stehr, H., Hui, A. B., … Diehn, M. (2019). Functional significance of U2AF1 S34F mutations in lung adenocarcinomas. Nature Communications, 10(1), 5712. -
Short Diagnosis-to-Treatment Interval Is Associated with Higher Levels of Circulating Tumor DNA in Aggressive B-Cell Non-Hodgkin Lymphoma
Alig, S., Macaulay, C., Kurtz, D. M., Ulrich, D., Andreas, H., Jin, M. C., … Alizadeh, A. A. (2019). Short Diagnosis-to-Treatment Interval Is Associated with Higher Levels of Circulating Tumor DNA in Aggressive B-Cell Non-Hodgkin Lymphoma. Blood. -
Phased Variant Enrichment for Enhanced Minimal Residual Disease Detection from Cell-Free DNA
Kurtz, D. M., Soo, J., Alig, S., Keh, L. C. T., Macaulay, C., Jin, M. C., … Alizadeh, A. A. (2019). Phased Variant Enrichment for Enhanced Minimal Residual Disease Detection from Cell-Free DNA. Blood. -
Towards Non-Invasive Classification of DLBCL Genetic Subtypes By Ctdna Profiling
Esfahani, M. S., Alig, S., Kurtz, D. M., Soo, J., Jin, M. C., Macaulay, C., … Alizadeh, A. A. (2019). Towards Non-Invasive Classification of DLBCL Genetic Subtypes By Ctdna Profiling. Blood. -
Circulating DNA for Molecular Response Prediction, Characterization of Resistance Mechanisms and Quantification of CAR T-Cells during Axicabtagene Ciloleucel Therapy
Sworder, B., Kurtz, D. M., Macaulay, C., Frank, M. J., Alig, S., Garofalo, A., … Alizadeh, A. A. (2019). Circulating DNA for Molecular Response Prediction, Characterization of Resistance Mechanisms and Quantification of CAR T-Cells during Axicabtagene Ciloleucel Therapy. Blood. -
Interim Circulating Tumor DNA As a Prognostic Biomarker in the Setting of Interim PET-Based Adaptive Therapy for DLBCL
Macaulay, C., Alig, S., Kurtz, D. M., Jin, M. C., Opat, S., Soo, J., … Alizadeh, A. A. (2019). Interim Circulating Tumor DNA As a Prognostic Biomarker in the Setting of Interim PET-Based Adaptive Therapy for DLBCL. Blood. -
Profiling Cell Type Abundance and Expression in Bulk Tissues with CIBERSORTx.
Steen, C. B., Liu, C. L., Alizadeh, A. A., & Newman, A. M. (2020). Profiling Cell Type Abundance and Expression in Bulk Tissues with CIBERSORTx. Methods in Molecular Biology (Clifton, N.J.), 2117, 135–57. -
Circulating tumor DNA analysis to assess risk of progression after long-term response to PD-(L)1 blockade in NSCLC.
Hellmann, M. D., Nabet, B. Y., Rizvi, H., Chaudhuri, A. A., Wells, D. K., Dunphy, M. P., … Diehn, M. (2020). Circulating tumor DNA analysis to assess risk of progression after long-term response to PD-(L)1 blockade in NSCLC. Clinical Cancer Research : an Official Journal of the American Association for Cancer Research. -
Outcomes of Observation vs Stereotactic Ablative Radiation for Oligometastatic Prostate Cancer: The ORIOLE Phase 2 Randomized Clinical Trial.
Phillips, R., Shi, W. Y., Deek, M., Radwan, N., Lim, S. J., Antonarakis, E. S., … Tran, P. T. (2020). Outcomes of Observation vs Stereotactic Ablative Radiation for Oligometastatic Prostate Cancer: The ORIOLE Phase 2 Randomized Clinical Trial. JAMA Oncology. -
Integrating genomic features for non-invasive early lung cancer detection
Chabon, J. J., Hamilton, E. G., Kurtz, D. M., Esfahani, M. S., Moding, E. J., Stehr, H., … Diehn, M. (2020). Integrating genomic features for non-invasive early lung cancer detection. NATURE. -
Integrating genomic features for non-invasive early lung cancer detection.
Chabon, J. J., Hamilton, E. G., Kurtz, D. M., Esfahani, M. S., Moding, E. J., Stehr, H., … Diehn, M. (2020). Integrating genomic features for non-invasive early lung cancer detection. Nature, 580(7802), 245–251. -
Circulating tumor DNA dynamics predict benefit from consolidation immunotherapy in locally advanced non-small-cell lung cancer
Moding, E. J., Liu, Y., Nabet, B. Y., Chabon, J. J., Chaudhuri, A. A., Hui, A. B., … Diehn, M. (2020). Circulating tumor DNA dynamics predict benefit from consolidation immunotherapy in locally advanced non-small-cell lung cancer. NATURE CANCER, 1. -
Functional significance of U2AF1 S34F mutations in lung adenocarcinomas
Shahrokh Esfahani, M. (2019). Functional significance of U2AF1 S34F mutations in lung adenocarcinomas. Nature Communications, 10. -
Detection of circulating tumor DNA in pancreas cancer
King, D., Alizadeh, A. A., & Fisher, G. A. (2020). Detection of circulating tumor DNA in pancreas cancer. JOURNAL OF CLINICAL ONCOLOGY, 38(4). -
Circulating tumor DNA in Genetic Profiling and Monitoring of Pediatric Hodgkin Lymphoma
Shyam, R., Kurtz, D., Alig, S., Jin, M., Link, M., Marks, L., & Alizadeh, A. (2020). Circulating tumor DNA in Genetic Profiling and Monitoring of Pediatric Hodgkin Lymphoma. KLINISCHE PADIATRIE, 232(2), 81. -
ctDNA shedding dynamics dictate early lung cancer detection potential
Avanzini, S., Kurtz, D. M., Chabon, J. J., Hori, S. S., Alizadeh, A. A., Diehn, M., & Reiter, J. G. (2020). ctDNA shedding dynamics dictate early lung cancer detection potential. CLINICAL CANCER RESEARCH, 26(11), 25. -
Autologous tumor cell vaccine induces antitumor T cell immune responses in patients with mantle cell lymphoma: A phase I/II trial.
Frank, M. J., Khodadoust, M. S., Czerwinski, D. K., Haabeth, O. A., Chu, M. P., Miklos, D. B., … Levy, R. (2020). Autologous tumor cell vaccine induces antitumor T cell immune responses in patients with mantle cell lymphoma: A phase I/II trial. The Journal of Experimental Medicine, 217(9). -
An Atlas of Clinically-Distinct Tumor Cellular Ecosystems in Diffuse Large B Cell Lymphoma
Steen, C. B., Luca, B. A., Esfahani, M. S., Nabet, B. Y., Sworder, B., Farshidfar, F., … Alizadeh, A. A. (2019). An Atlas of Clinically-Distinct Tumor Cellular Ecosystems in Diffuse Large B Cell Lymphoma. BLOOD, 134. -
Deep Sequencing of Viral Cell-Free DNA for Noninvasive Detection of Immunosuppression-Related Lymphoid Malignancies
Garofalo, A., Schroers-Martin, J. G., Soo, J., Kurtz, D. M., Sworder, B., Liu, C. L., … Alizadeh, A. A. (2019). Deep Sequencing of Viral Cell-Free DNA for Noninvasive Detection of Immunosuppression-Related Lymphoid Malignancies. BLOOD. AMER SOC HEMATOLOGY. -
Maria-I: A Deep-Learning Approach for Accurate Prediction of MHC Class I Tumor Neoantigen Presentation
Kathuria, K. R., Chen, B., Khodadoust, M. S., Olsson, N., Davis, M. M., Elias, J. E., … Alizadeh, A. A. (2019). Maria-I: A Deep-Learning Approach for Accurate Prediction of MHC Class I Tumor Neoantigen Presentation. BLOOD. AMER SOC HEMATOLOGY. -
Molecular and immunological signatures are related to clinical benefit from treatment with Vocimagene amiretrorepvec (Toca 511) and 5-fluorocytosine (Toca FC) in patients with glioma.
Accomando, W. P., Rao, A. R., Hogan, D. J., Newman, A. M., Nakao, A., Alizadeh, A. A., … Ostertag, D. (2020). Molecular and immunological signatures are related to clinical benefit from treatment with Vocimagene amiretrorepvec (Toca 511) and 5-fluorocytosine (Toca FC) in patients with glioma. Clinical Cancer Research : an Official Journal of the American Association for Cancer Research. -
Evaluating upfront high-dose consolidation after R-CHOP for follicular lymphoma by clinical and genetic risk models.
Alig, S., Jurinovic, V., Shahrokh Esfahani, M., Haebe, S., Passerini, V., Hellmuth, J. C., … Weigert, O. (2020). Evaluating upfront high-dose consolidation after R-CHOP for follicular lymphoma by clinical and genetic risk models. Blood Advances, 4(18), 4451–62. -
Noninvasive Early Identification of Therapeutic Benefit from Immune Checkpoint Inhibition.
Nabet, B. Y., Esfahani, M. S., Moding, E. J., Hamilton, E. G., Chabon, J. J., Rizvi, H., … Diehn, M. (2020). Noninvasive Early Identification of Therapeutic Benefit from Immune Checkpoint Inhibition. Cell. -
KEAP1/NFE2L2 mutations to predict local recurrence after radiotherapy but not surgery in localized non-small cell lung cancer.
Binkley, M. S., Jeon, Y.-J., Nesselbush, M., Moding, E. J., Nabet, B., Almanza, D. S., … Diehn, M. (2020). KEAP1/NFE2L2 mutations to predict local recurrence after radiotherapy but not surgery in localized non-small cell lung cancer. JOURNAL OF CLINICAL ONCOLOGY, 38(15). -
Early ctDNA response assessment for prediction of platinum sensitivity in small cell lung cancer.
Murciano-Goroff, Y. R., Hui, A. B., Chabon, J. J., Moding, E. J., Lebow, E. S., Araujo-Filho, J. A., … Diehn, M. (2020). Early ctDNA response assessment for prediction of platinum sensitivity in small cell lung cancer. JOURNAL OF CLINICAL ONCOLOGY, 38(15). -
A mid-chemoradiation dynamic risk model integrating tumor features and ctDNA analysis for lung cancer outcome prediction.
Moding, E. J., Esfahani, M. S., Nabet, B., Liu, Y., Chabon, J. J., He, J., … Diehn, M. (2020). A mid-chemoradiation dynamic risk model integrating tumor features and ctDNA analysis for lung cancer outcome prediction. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
Analytical validation of digital cytometry (iSort) for leukocyte enumeration using stored blood.
Newman, A. M., Nakao, A., Li, K., Liu, C.-L., Mathi, K., Sigal, N., … Alizadeh, A. A. (2020). Analytical validation of digital cytometry (iSort) for leukocyte enumeration using stored blood. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
KEAP1/NFE2L2 mutations predict lung cancer radiation resistance that can be targeted by glutaminase inhibition.
Binkley, M. S., Jeon, Y.-J. J., Nesselbush, M., Moding, E. J., Nabet, B. Y., Almanza, D., … Diehn, M. (2020). KEAP1/NFE2L2 mutations predict lung cancer radiation resistance that can be targeted by glutaminase inhibition. Cancer Discovery. -
A mathematical model of ctDNA shedding predicts tumor detection size.
Avanzini, S., Kurtz, D. M., Chabon, J. J., Moding, E. J., Hori, S. S., Gambhir, S. S., … Reiter, J. G. (2020). A mathematical model of ctDNA shedding predicts tumor detection size. Science Advances, 6(50). -
Single cell analysis reveals distinct immune landscapes in transplant and primary sarcomas that determine response or resistance to immunotherapy.
Wisdom, A. J., Mowery, Y. M., Hong, C. S., Himes, J. E., Nabet, B. Y., Qin, X., … Kirsch, D. G. (2020). Single cell analysis reveals distinct immune landscapes in transplant and primary sarcomas that determine response or resistance to immunotherapy. Nature Communications, 11(1), 6410. -
Follicular Lymphoma Organoids for Investigating the Tumor Microenvironment
Wagar, L. E., Sworder, B., Khodadoust, M. S., Davis, M. M., & Alizadeh, A. A. (2019). Follicular Lymphoma Organoids for Investigating the Tumor Microenvironment. BLOOD. AMER SOC HEMATOLOGY. -
Atlas of clinically-distinct cell states and cellular ecosystems across human solid tumors
Luca, B. A., Steen, C. B., Azizi, A., Matusiak, M., Przybyl, J., Neishaboori, N., … Newman, A. M. (2020). Atlas of clinically-distinct cell states and cellular ecosystems across human solid tumors. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
A noninvasive approach for early prediction of therapeutic benefit from immune checkpoint inhibition for lung cancer
Nabet, B. Y., Esfahani, M. S., Hamilton, E. G., Chabon, J. J., Moding, E. J., Rizvi, H., … Diehn, M. (2020). A noninvasive approach for early prediction of therapeutic benefit from immune checkpoint inhibition for lung cancer. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
Chromatin accessibility patterns in cell-free DNA reveal tumor heterogeneity
Esfahani, M. S., Mehrmohamadi, M., Steen, C. B., Hamilton, E. G., King, D. A., Soo, J., … Alizadeh, A. A. (2020). Chromatin accessibility patterns in cell-free DNA reveal tumor heterogeneity. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
Analytical validation of iSort digital cytometry for leukocyte enumeration in clinical tumor specimens.
Newman, A. M., Nakao, A., Li, K., Wilson, D. C., Liu, C.-L., Diehn, M., & Alizadeh, A. A. (2020). Analytical validation of iSort digital cytometry for leukocyte enumeration in clinical tumor specimens. JOURNAL OF CLINICAL ONCOLOGY. LIPPINCOTT WILLIAMS & WILKINS. -
Short Diagnosis-to-Treatment Interval Is Associated With Higher Circulating Tumor DNA Levels in Diffuse Large B-Cell Lymphoma.
Alig, S., Macaulay, C. W., Kurtz, D. M., Dührsen, U., Hüttmann, A., Schmitz, C., … Alizadeh, A. A. (2021). Short Diagnosis-to-Treatment Interval Is Associated With Higher Circulating Tumor DNA Levels in Diffuse Large B-Cell Lymphoma. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology, JCO2002573. -
Investigating gene expression profiles associated with clinical radiation resistance in KEAP1/NFE2L2 wildtype lung cancer.
Binkley, M. S., Jeon, Y.-J., Nesselbush, M., Moding, E. J., Nabet, B., Almanza, D., … Diehn, M. (2021). Investigating gene expression profiles associated with clinical radiation resistance in KEAP1/NFE2L2 wildtype lung cancer. CLINICAL CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
Circulating tumor DNA kinetics to identify genomic predictors of rapid response to chemoradiation in non-small cell lung cancer.
Moding, E. J., Liu, Y., Hui, A. B., He, J., Qiao, Y., Xu, T., … Diehn, M. (2021). Circulating tumor DNA kinetics to identify genomic predictors of rapid response to chemoradiation in non-small cell lung cancer. CLINICAL CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
Higher-grade transformed follicle center lymphomas (FCL): Gene expression profiling comparison to pre-transformed FCL and to de novo diffuse large B-cell lymphomas (DLBCL).
Lossos, I. S., Alizadeh, A. A., Diehn, M., Warnke, R., Brown, P. O., Botstein, D., & Levy, R. (2001). Higher-grade transformed follicle center lymphomas (FCL): Gene expression profiling comparison to pre-transformed FCL and to de novo diffuse large B-cell lymphomas (DLBCL). BLOOD. AMER SOC HEMATOLOGY. -
Gene expression profiling of rheumatoid synovitis using cDNA microarrays.
Verweij, C. L., van der Kraan, C. T., Alizadeh, A. A., Fero, M., Huizinga, T. W., Pieterman, E., … Brown, P. O. (2000). Gene expression profiling of rheumatoid synovitis using cDNA microarrays. ARTHRITIS AND RHEUMATISM. LIPPINCOTT WILLIAMS & WILKINS. -
Distinct IL-4 intracellular signaling in germinal center B-cell like and activated B-cell like diffuse large B-cell lymphoma: Novel opportunities for therapeutic interventions.
Lossos, I. S., Lu, X. Q., Ding, F. Y., Rosado, M., Alizadeh, A. A., & Nechushtan, H. (2004). Distinct IL-4 intracellular signaling in germinal center B-cell like and activated B-cell like diffuse large B-cell lymphoma: Novel opportunities for therapeutic interventions. BLOOD. AMER SOC HEMATOLOGY. -
Next Generation Sequencing of Cerebrospinal Fluid to Improve Diagnostic Sensitivity, Detect Spatial Heterogeneity, and Predict Outcomes for Advanced Lung Cancer Patients with Leptomeningeal Carcinomatosis
Azad, T., Nanjo, S., Chabon, J., Jin, M., Connolly, I., Ko, R., … Diehn, M. (2020). Next Generation Sequencing of Cerebrospinal Fluid to Improve Diagnostic Sensitivity, Detect Spatial Heterogeneity, and Predict Outcomes for Advanced Lung Cancer Patients with Leptomeningeal Carcinomatosis. JOURNAL OF NEUROSURGERY. AMER ASSOC NEUROLOGICAL SURGEONS. -
Role of KEAP1/NRF2 and TP53 mutations in lung squamous cell carcinoma development and radiation resistance
Jeong, Y., Ngoc Hoang, Stehr, H., Lovejoy, A., Gentles, A., Chaudhuri, A., … Diehn, M. (2017). Role of KEAP1/NRF2 and TP53 mutations in lung squamous cell carcinoma development and radiation resistance. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
Maria: Accurate Prediction of MHC-II Peptide Presentation with Deep-Learning and Lymphoma Patient MHC-II Ligandome
Chen, B., Khodadoust, M., Olsson, N., Fast, E., Wagar, L. E., Liu, C. L., … Alizadeh, A. A. (2017). Maria: Accurate Prediction of MHC-II Peptide Presentation with Deep-Learning and Lymphoma Patient MHC-II Ligandome. BLOOD. AMER SOC HEMATOLOGY. -
Analysis of circulating tumor DNA in localized lung cancer for detection of molecular residual disease and personalization of adjuvant strategies.
Chaudhuri, A., Chabon, J. J., Lovejoy, A. F., Newman, A. M., Stehr, H., Azad, T. D., … Diehn, M. (2017). Analysis of circulating tumor DNA in localized lung cancer for detection of molecular residual disease and personalization of adjuvant strategies. JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
Early prediction of clinical outcomes in resected stage II and III colorectal cancer (CRC) through deep sequencing of circulating tumor DNA (ctDNA).
Diehn, M., Alizadeh, A. A., Adams, H.-P., Lee, J. J., Klassen, S., Palma, J. F., … Pross, M. (2017). Early prediction of clinical outcomes in resected stage II and III colorectal cancer (CRC) through deep sequencing of circulating tumor DNA (ctDNA). JOURNAL OF CLINICAL ONCOLOGY. AMER SOC CLINICAL ONCOLOGY. -
Antigen presentation profiling reveals T-cell recognition of lymphoma imrnunoglobuhn neoantigens
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Prediction of therapeutic outcomes in DLBCL from circulating tumor DNA dynamics.
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A phase 2 study of glembatumumab vedotin (GV), an antibody-drug conjugate (ADC) targeting gpNMB, in advanced melanoma
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Fibroblast-like synoviocytes derived from patients with rheumatoid arthritis show the imprint of synovial tissue heterogeneity: evidence for the existence of distinctive pathways relevant to disease
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Prediction of survival in diffuse large B-Cell lymphoma (DLBCL) based on the expression of six genes.
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The chemoattractant chemerin suppresses melanoma by recruiting natural killer cell antitumor defenses.
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Potentiated B-Cell Antigen Receptor Signaling In Mantle Cell Lymphoma Is Associated With Overexpression Of Surface CD79B and IgM
Myklebust, J. H., Brody, J., Alizadeh, A. A., Czerwinski, D. K., Kolstad, A., Green, M. R., … Levy, R. (2013). Potentiated B-Cell Antigen Receptor Signaling In Mantle Cell Lymphoma Is Associated With Overexpression Of Surface CD79B and IgM. BLOOD. AMER SOC HEMATOLOGY. -
Genomic and molecular aberrations in malignant peripheral nerve sheath tumor and their roles in personalized target therapy
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Comparison of molecular abnormalities in bronchial brushings and tumor touch preps: The potential use of fluorescence in situ hybridization (FISH) as a predictive marker in early stage lung carcinomas
Barkan, G. A., Caraway, N. P., Zaidi, T., Alizadeh, A., Johnston, D., Jiang, F., & Katz, R. L. (2003). Comparison of molecular abnormalities in bronchial brushings and tumor touch preps: The potential use of fluorescence in situ hybridization (FISH) as a predictive marker in early stage lung carcinomas. MODERN PATHOLOGY. NATURE PUBLISHING GROUP. -
GAL is a novel IL-4-inducible gene that strongly predicts survival in diffuse large B-cell lymphoma.
Lossos, I. S., Alizadeh, A. A., Rajapaksa, R., Tibshirani, R., & Levy, R. (2002). GAL is a novel IL-4-inducible gene that strongly predicts survival in diffuse large B-cell lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Distinctive gene expression profiles in synovial tissue from rheumatoid arthritis patients by cDNA microarray analysis.
Kraan, T. C., van Gaalen, F. A., Alizadeh, A. A., Fero, M., Huizinga, T. W., Pieterman, E., … Verweij, C. L. (2002). Distinctive gene expression profiles in synovial tissue from rheumatoid arthritis patients by cDNA microarray analysis. ARTHRITIS AND RHEUMATISM. WILEY. -
Rheumatoid arthritis is a heterogeneous disease: Discovery of distinctive gene expression profiles in rheumatoid synovia.
Verweij, C. L., Kraan, T. T., van Gaalen, F. A., Kasperkovitz, P. V., Smeets, T. J., Alizadeh, A. A., … Brown, P. O. (2002). Rheumatoid arthritis is a heterogeneous disease: Discovery of distinctive gene expression profiles in rheumatoid synovia. ARTHRITIS AND RHEUMATISM. WILEY. -
Expression of CD137 Protein in Select Hematopoietic Tumors: Implications for Anti-CD137 Immunomodulatory Therapy
Anderson, M. W., Freud, A. G., Zhao, S., Alizadeh, A. A., Kohrt, H. E., Warnke, R., … Natkunam, Y. (2011). Expression of CD137 Protein in Select Hematopoietic Tumors: Implications for Anti-CD137 Immunomodulatory Therapy. LABORATORY INVESTIGATION. NATURE PUBLISHING GROUP. -
Expression of CD137 Protein in Select Hematopoietic Tumors: Implications for Anti-CD137 Immunomodulatory Therapy
Anderson, M. W., Freud, A. G., Zhao, S., Alizadeh, A. A., Kohrt, H. E., Warnke, R., … Natkunam, Y. (2011). Expression of CD137 Protein in Select Hematopoietic Tumors: Implications for Anti-CD137 Immunomodulatory Therapy. MODERN PATHOLOGY. NATURE PUBLISHING GROUP. -
Discovery of distinctive gene expression profiles in human arthritides by cDNA microarray analysis.
Verweij, C. L., Kraan, T. C., van Galen, F., Alizadeh, A. A., Fero, M., Huizinga, T. W., … Brown, P. O. (2001). Discovery of distinctive gene expression profiles in human arthritides by cDNA microarray analysis. ARTHRITIS AND RHEUMATISM. WILEY-LISS. -
Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation
Yang, Y. H., Dudoit, S., Luu, P., Lin, D. M., Peng, Ngai, J., & Speed, T. P. (2002). Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. NUCLEIC ACIDS RESEARCH, 30(4), e15. -
Genomic expression programs and the integration of the CD28 costimulatory signal in T cell activation (vol 99, pg 11796, 2002)
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Enhanced detection of minimal residual disease by targeted sequencing of phased variants in circulating tumor DNA.
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A comprehensive circulating tumor DNA assay for detection of translocation and copy number changes in pediatric sarcomas.
Shah, A. T., Azad, T. D., Breese, M. R., Chabon, J. J., Hamilton, E. G., Straessler, K., … Sweet-Cordero, E. A. (2021). A comprehensive circulating tumor DNA assay for detection of translocation and copy number changes in pediatric sarcomas. Molecular Cancer Therapeutics. -
Circulating Tumor DNA Dynamics Predict Benefit from Consolidation Immunotherapy in Locally Advanced Non-Small Cell Lung Cancer.
Moding, E. J., Liu, Y., Nabet, B. Y., Chabon, J. J., Chaudhuri, A. A., Hui, A. B., … Diehn, M. (2020). Circulating Tumor DNA Dynamics Predict Benefit from Consolidation Immunotherapy in Locally Advanced Non-Small Cell Lung Cancer. Nature Cancer, 1(2), 176–183. -
Atlas of clinically distinct cell states and ecosystems across human solid tumors.
Luca, B. A., Steen, C. B., Matusiak, M., Azizi, A., Varma, S., Zhu, C., … Newman, A. M. (2021). Atlas of clinically distinct cell states and ecosystems across human solid tumors. Cell. -
The landscape of tumor cell states and ecosystems in diffuse large B cell lymphoma.
Steen, C. B., Luca, B. A., Esfahani, M. S., Azizi, A., Sworder, B. J., Nabet, B. Y., … Alizadeh, A. A. (2021). The landscape of tumor cell states and ecosystems in diffuse large B cell lymphoma. Cancer Cell. -
SWOG 1918: A phase II/III randomized study of R-miniCHOP with or without oral azacitidine (CC-486) in participants age 75years or older with newly diagnosed aggressive non-Hodgkin lymphomas - Aiming to improve therapy, outcomes, and validate a prospective frailty tool.
Brem, E. A., Li, H., Beaven, A. W., Caimi, P. F., Cerchietti, L., Alizadeh, A. A., … Smith, S. M. (2021). SWOG 1918: A phase II/III randomized study of R-miniCHOP with or without oral azacitidine (CC-486) in participants age 75years or older with newly diagnosed aggressive non-Hodgkin lymphomas - Aiming to improve therapy, outcomes, and validate a prospective frailty tool. Journal of Geriatric Oncology. -
Detecting Liquid Remnants of Solid Tumors: Circulating Tumor DNA Minimal Residual Disease.
Moding, E. J., Nabet, B. Y., Alizadeh, A. A., & Diehn, M. (2021). Detecting Liquid Remnants of Solid Tumors: Circulating Tumor DNA Minimal Residual Disease. Cancer Discovery. -
Phased variants improve DLBCL minimal residual disease detection at the end of therapy.
Kurtz, D. M., Chabon, J. J., Soo, J., Keh, L. C. T., Alig, S., Schultz, A., … Alizadeh, A. A. (2021). Phased variants improve DLBCL minimal residual disease detection at the end of therapy. JOURNAL OF CLINICAL ONCOLOGY. LIPPINCOTT WILLIAMS & WILKINS. -
Noninvasive identification of emergent mutations following cytotoxic therapy for lung cancer.
Moding, E. J., Hui, A. B., Murciano-Goroff, Y. R., Nabet, B., Schultz, A., Qiao, Y., … Diehn, M. (2021). Noninvasive identification of emergent mutations following cytotoxic therapy for lung cancer. JOURNAL OF CLINICAL ONCOLOGY. LIPPINCOTT WILLIAMS & WILKINS. -
CD20-Targeted Therapy Ablates De Novo Antibody Response to Vaccination but Spares Pre-Established Immunity.
Shree, T., Shankar, V., Lohmeyer, J. J., Czerwinski, D. K., Schroers-Martin, J. G., Rodriguez, G. M., … Levy, R. (2022). CD20-Targeted Therapy Ablates De Novo Antibody Response to Vaccination but Spares Pre-Established Immunity. Blood Cancer Discovery. -
Circulating Tumor DNA in Lymphoma: Principles and Future Directions.
Roschewski, M., Rossi, D., Kurtz, D. M., Alizadeh, A. A., & Wilson, W. H. (1800). Circulating Tumor DNA in Lymphoma: Principles and Future Directions. Blood Cancer Discovery, 3(1), 5–15. -
Circulating tumor DNA profiling for noninvasive detection, classification, and risk stratification of patients with CNS lymphomas
Mutter, J. A., Alig, S., Lauer, E. M., Esfahani, M. S., Mitschke, J., Kurtz, D. M., … Scherer, F. (2021). Circulating tumor DNA profiling for noninvasive detection, classification, and risk stratification of patients with CNS lymphomas. ONCOLOGY RESEARCH AND TREATMENT. KARGER. -
Inferring gene expression from cell-free DNA fragmentation profiles.
Esfahani, M. S., Hamilton, E. G., Mehrmohamadi, M., Nabet, B. Y., Alig, S. K., King, D. A., … Alizadeh, A. A. (2022). Inferring gene expression from cell-free DNA fragmentation profiles. Nature Biotechnology. -
Leveraging phased variants for personalized minimal residual disease detection in localized non-small cell lung cancer.
Kurtz, D. M., Chabon, J. J., Sworder, B., Keh, L. C. T., Soo, J., Alig, S., … Diehn, M. (2021). Leveraging phased variants for personalized minimal residual disease detection in localized non-small cell lung cancer. JOURNAL OF CLINICAL ONCOLOGY. LIPPINCOTT WILLIAMS & WILKINS. -
Heterogeneity of Regulatory T Cells in B-Cell Non-Hodgkin Lymphoma
Spasevska, I., Josefsson, S., Blaker, Y. N., Steen, C. B., Sharma, A., Kushekhar, K., … Myklebust, J. H. (2020). Heterogeneity of Regulatory T Cells in B-Cell Non-Hodgkin Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Recurrent Crebbp Mutations in Follicular Lymphoma Appear Localized to the Committed B-Cell Lineage
Schroers-Martin, J. G., Soo, J., Brisou, G., Scherer, F., Kurtz, D. M., Sworder, B., … Alizadeh, A. A. (2020). Recurrent Crebbp Mutations in Follicular Lymphoma Appear Localized to the Committed B-Cell Lineage. BLOOD. AMER SOC HEMATOLOGY. -
Bendamustine, Obinutuzumab and Venetoclax As Induction Therapy for Untreated Mantle Cell Lymphoma
Greenwell, I. B., Switchenko, J. M., Maddocks, K. J., Kahl, B. S., Craig, A. F. M., Alizadeh, A. A., … Cohen, J. B. (2020). Bendamustine, Obinutuzumab and Venetoclax As Induction Therapy for Untreated Mantle Cell Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Profiling T-Cell Receptor Diversity and Dynamics during Lymphoma Immunotherapy Using Cell-Free DNA (cfDNA)
Shukla, N. D., Craig, A. F. M., Sworder, B., Kurtz, D. M., Macaulay, C., Garofalo, A., … Alizadeh, A. A. (2020). Profiling T-Cell Receptor Diversity and Dynamics during Lymphoma Immunotherapy Using Cell-Free DNA (cfDNA). BLOOD. AMER SOC HEMATOLOGY. -
CD58 Aberrations Limit Durable Responses to CD19 CAR in Large B Cell Lymphoma Patients Treated with Axicabtagene Ciloleucel but Can be Overcome through Novel CAR Engineering
Majzner, R. G., Frank, M. J., Mount, C., Tousley, A., Kurtz, D. M., Sworder, B., … Mackall, C. L. (2020). CD58 Aberrations Limit Durable Responses to CD19 CAR in Large B Cell Lymphoma Patients Treated with Axicabtagene Ciloleucel but Can be Overcome through Novel CAR Engineering. BLOOD. AMER SOC HEMATOLOGY. -
Early Assessment of Chemotherapy Response in Advanced Non-Small Cell Lung Cancer with Circulating Tumor DNA.
Yaung, S. J., Woestmann, C., Ju, C., Ma, X. M., Gattam, S., Zhou, Y., … Muley, T. (2022). Early Assessment of Chemotherapy Response in Advanced Non-Small Cell Lung Cancer with Circulating Tumor DNA. Cancers, 14(10). -
Cellular and humoral immune response to SARS-CoV-2 vaccination and booster dose in immunosuppressed patients: An observational cohort study.
Yang, L. M., Costales, C., Ramanathan, M., Bulterys, P. L., Murugesan, K., Schroers-Martin, J., … Banaei, N. (2022). Cellular and humoral immune response to SARS-CoV-2 vaccination and booster dose in immunosuppressed patients: An observational cohort study. Journal of Clinical Virology : the Official Publication of the Pan American Society for Clinical Virology, 153, 105217. -
Genomic Profiling of Bronchoalveolar Lavage Fluid in Lung Cancer.
Nair, V. S., Hui, A. B., Chabon, J. J., Shahrokh Esfahani, M., Stehr, H., Nabet, B. Y., … Diehn, M. (2022). Genomic Profiling of Bronchoalveolar Lavage Fluid in Lung Cancer. Cancer Research. -
Genomic Profiling for Clinical Decision Making in Lymphoid Neoplasms.
de Leval, L., Alizadeh, A. A., Bergsagel, P. L., Campo, E., Davies, A. J., Dogan, A., … Scott, D. W. (2022). Genomic Profiling for Clinical Decision Making in Lymphoid Neoplasms. Blood. -
Time Since Last Anti-CD20 Treatment Is a Major Determinant of Sars-Cov-2 Vaccine Response in a Large Cohort of Patients with B-Cell Lymphoma
Shree, T., Shankar, V., Czerwinski, D. K., Rodriguez, G., Beygi, S., Schroers-Martin, J. G., … Levy, R. (2021). Time Since Last Anti-CD20 Treatment Is a Major Determinant of Sars-Cov-2 Vaccine Response in a Large Cohort of Patients with B-Cell Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Concurrent Pembrolizumab with AVD for Untreated Classical Hodgkin Lymphoma
Lynch, R. C., Ujjani, C. S., Poh, C., Warren, E. H., Smith, S. D., Shadman, M., … Gopal, A. K. (2021). Concurrent Pembrolizumab with AVD for Untreated Classical Hodgkin Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Noninvasive Cell-of-Origin Classification of Diffuse Large B-Cell Lymphoma Using Inferred Gene Expression from Cell-Free DNA Sequencing
Esfahani, M. S., Alig, S., Mehrmohamadi, M., Hamilton, E. G., King, D. A., Schultz, A., … Alizadeh, A. A. (2021). Noninvasive Cell-of-Origin Classification of Diffuse Large B-Cell Lymphoma Using Inferred Gene Expression from Cell-Free DNA Sequencing. BLOOD. AMER SOC HEMATOLOGY. -
S1918: A Phase II/III Randomized Study of R-Minichop with or without Oral Azacitidine (CC-486) in Participants Age 75 Years or Older with Newly Diagnosed Diffuse Large B Cell Lymphoma, Grade IIIb Follicular Lymphoma, Transformed Lymphoma, and High-Grade B-Cell Lymphomas with MYC and BCL2 and/or BCL6 Rearrangements
Brem, E. A., Li, H., Beaven, A. W., Caimi, P. F., Cerchietti, L., Alizadeh, A. A., … Smith, S. M. (2021). S1918: A Phase II/III Randomized Study of R-Minichop with or without Oral Azacitidine (CC-486) in Participants Age 75 Years or Older with Newly Diagnosed Diffuse Large B Cell Lymphoma, Grade IIIb Follicular Lymphoma, Transformed Lymphoma, and High-Grade B-Cell Lymphomas with MYC and BCL2 and/or BCL6 Rearrangements. BLOOD. AMER SOC HEMATOLOGY. -
Phase 2 Study of Acalabrutinib Window Prior to Frontline Therapy in Untreated Aggressive B-Cell Lymphoma: Preliminary Results and Correlatives of Response to Acalabrutinib
Roschewski, M., Phelan, J. D., Pittaluga, S., Melani, C., Lakhotia, R., Chabon, J. J., … Wilson, W. H. (2021). Phase 2 Study of Acalabrutinib Window Prior to Frontline Therapy in Untreated Aggressive B-Cell Lymphoma: Preliminary Results and Correlatives of Response to Acalabrutinib. BLOOD. AMER SOC HEMATOLOGY. -
Diversity of Intratumoral Regulatory T Cells in Non-Hodgkin Lymphoma
Spasevska, I., Sharma, A., Steen, C. B., Josefsson, S., Blaker, Y. N., Rustad, E. H., … Myklebust, J. H. (2021). Diversity of Intratumoral Regulatory T Cells in Non-Hodgkin Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Tumor-Confirmed Follicular Lymphoma Mutations Are Detectable in Peripheral Blood Years Prior to Clinical Diagnosis
Schroers-Martin, J. G., Soo, J., Brisou, G., Scherer, F., Kurtz, D. M., Sworder, B., … Alizadeh, A. A. (2021). Tumor-Confirmed Follicular Lymphoma Mutations Are Detectable in Peripheral Blood Years Prior to Clinical Diagnosis. BLOOD. AMER SOC HEMATOLOGY. -
Molecular Monitoring of Lymphomas.
Schroers-Martin, J. G., Alig, S., Garofalo, A., Tessoulin, B., Sugio, T., & Alizadeh, A. A. (2022). Molecular Monitoring of Lymphomas. Annual Review of Pathology. -
Analysis of circulating tumor DNA in the phase 2 BTCRC LUN 16-081 trial of consolidation nivolumab with or without ipilimumab after chemoradiation in stage III non-small cell lung cancer.
Jun, S., Shukla, N., Durm, G. A., Hui, A. B., Cao, S., Kunder, C., … Diehn, M. (2022). Analysis of circulating tumor DNA in the phase 2 BTCRC LUN 16-081 trial of consolidation nivolumab with or without ipilimumab after chemoradiation in stage III non-small cell lung cancer. JOURNAL OF CLINICAL ONCOLOGY. LIPPINCOTT WILLIAMS & WILKINS. -
Long-term outcomes and circulating tumor DNA analysis from a phase I/II study of lenalidomide and obinutuzumab with CHOP for newly diagnosed diffuse large B-cell lymphoma.
Cherng, H.-J. J., Alig, S., Oki, Y., Nastoupil, L. J., Fayad, L., Neelapu, S. S., … Westin, J. (2022). Long-term outcomes and circulating tumor DNA analysis from a phase I/II study of lenalidomide and obinutuzumab with CHOP for newly diagnosed diffuse large B-cell lymphoma. JOURNAL OF CLINICAL ONCOLOGY. LIPPINCOTT WILLIAMS & WILKINS. -
A phase 1/2 study of lenalidomide and obinutuzumab with CHOP for newly diagnosed DLBCL.
Cherng, H.-J. J., Alig, S., Oki, Y., Nastoupil, L. J., Fayad, L. E., Neelapu, S. S., … Westin, J. R. (2022). A phase 1/2 study of lenalidomide and obinutuzumab with CHOP for newly diagnosed DLBCL. Blood Advances. -
Polatuzumab vedotin with infusional chemotherapy (Pola-DA-EPCH-R) for untreated aggressive B-cell non-Hodgkin lymphomas.
Lynch, R. C., Poh, C., Ujjani, C. S., Warren, E. H., Smith, S. D., Shadman, M., … Gopal, A. K. (2022). Polatuzumab vedotin with infusional chemotherapy (Pola-DA-EPCH-R) for untreated aggressive B-cell non-Hodgkin lymphomas. Blood Advances. -
Circulating Tumor DNA Profiling for Detection, Risk Stratification, and Classification of Brain Lymphomas.
Mutter, J. A., Alig, S. K., Esfahani, M. S., Lauer, E. M., Mitschke, J., Kurtz, D. M., … Scherer, F. (2022). Circulating Tumor DNA Profiling for Detection, Risk Stratification, and Classification of Brain Lymphomas. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology, JCO2200826. -
Determinants of resistance to engineered T cell therapies targeting CD19 in large B cell lymphomas.
Sworder, B. J., Kurtz, D. M., Alig, S. K., Frank, M. J., Shukla, N., Garofalo, A., … Alizadeh, A. A. (2022). Determinants of resistance to engineered T cell therapies targeting CD19 in large B cell lymphomas. Cancer Cell. -
Investigating and modeling positron emission tomography factors associated with large cell transformation from low-grade lymphomas.
Obeid, J.-P. P., Hiniker, S. M., Schroers-Martin, J., Guo, H. H., No, H. J., Moding, E. J., … Binkley, M. S. (2023). Investigating and modeling positron emission tomography factors associated with large cell transformation from low-grade lymphomas. EJHaem, 4(1), 90–99. -
Mixed Phenotype Acute Leukemia A Study of 61 Cases Using World Health Organization and European Group for the Immunological Classification of Leukaemias Criteria
Weinberg, O. K., Seetharam, M., Ren, L., Alizadeh, A., & Arber, D. A. (2014). Mixed Phenotype Acute Leukemia A Study of 61 Cases Using World Health Organization and European Group for the Immunological Classification of Leukaemias Criteria. AMERICAN JOURNAL OF CLINICAL PATHOLOGY, 142(6), 803–808. -
Activating Immune Effectors and Dampening Immune Suppressors Generates Successful Therapeutic Cancer Vaccination in Patients with Lymphoma
Shree, T., Haebe, S., Czerwinski, D. K., Eckhert, E., Day, G., Sathe, A., … Levy, R. (2022). Activating Immune Effectors and Dampening Immune Suppressors Generates Successful Therapeutic Cancer Vaccination in Patients with Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Viral cfDNA Profiling Reveals Distinct EBV Subtypes and Stratifies Risk in Hodgkin Lymphomas
Garofalo, A., Alig, S. K., Schroers-Martin, J., Shyam, R. M., Olsen, M., Kurtz, D. M., … Alizadeh, A. A. (2022). Viral cfDNA Profiling Reveals Distinct EBV Subtypes and Stratifies Risk in Hodgkin Lymphomas. BLOOD. AMER SOC HEMATOLOGY. -
Distinct Molecular Subtypes of Classic Hodgkin Lymphoma Identified By Comprehensive Noninvasive Profiling
Alig, S. K., Esfahani, M. S., Li, M. Y., Adams, R. M., Garofalo, A., Jin, M. C., … Alizadeh, A. A. (2022). Distinct Molecular Subtypes of Classic Hodgkin Lymphoma Identified By Comprehensive Noninvasive Profiling. BLOOD. AMER SOC HEMATOLOGY. -
Circulating Tumor DNA in Untreated Classical Hodgkin Lymphoma Patients Treated with Pembrolizumab and Chemotherapy: Dynamic Response Assessment and Correlation with Baseline Metabolic Tumor Volume
Lynch, R. C., Alig, S. K., Ujjani, C. S., Poh, C., Warren, E. H., Smith, S. D., … Gopal, A. K. (2022). Circulating Tumor DNA in Untreated Classical Hodgkin Lymphoma Patients Treated with Pembrolizumab and Chemotherapy: Dynamic Response Assessment and Correlation with Baseline Metabolic Tumor Volume. BLOOD. AMER SOC HEMATOLOGY. -
Tumor Microenvironment Determinants of Immunotherapy Response Identified By Integrated Host & Viral Analysis of Post-Transplant Lymphoproliferative Disorders
Schroers-Martin, J., Garofalo, A., Soo, J., Boegeholz, J., Alig, S. K., Sworder, B., … Alizadeh, A. A. (2022). Tumor Microenvironment Determinants of Immunotherapy Response Identified By Integrated Host & Viral Analysis of Post-Transplant Lymphoproliferative Disorders. BLOOD. AMER SOC HEMATOLOGY. -
Specificity & Precision of Minimal Residual Disease Monitoring in DLBCL Using Ig-HTS
Shukla, N. D., Schroers-Martin, J., Kathuria, K. R., Sworder, B., Alig, S. K., Frank, M. J., … Alizadeh, A. A. (2022). Specificity & Precision of Minimal Residual Disease Monitoring in DLBCL Using Ig-HTS. BLOOD. AMER SOC HEMATOLOGY. -
Determinants of Resistance to Engineered T-Cell Therapies Targeting CD19 in Large B-Cell Lymphomas
Sworder, B., Kurtz, D. M., Alig, S. K., Frank, M. J., Shukla, N. D., Garofalo, A., … Alizadeh, A. A. (2022). Determinants of Resistance to Engineered T-Cell Therapies Targeting CD19 in Large B-Cell Lymphomas. BLOOD. AMER SOC HEMATOLOGY. -
Ultrasensitive MRD Profiling Predicts Outcomes in DLBCL after Frontline Therapy with Tafasitamab in Combination with Lenalidomide and R-CHOP
Kurtz, D. M., Hogan, G. J., Schultz, A., Kopeckova, K., Kuffer, C., Blair, D., … Westin, J. (2022). Ultrasensitive MRD Profiling Predicts Outcomes in DLBCL after Frontline Therapy with Tafasitamab in Combination with Lenalidomide and R-CHOP. BLOOD. AMER SOC HEMATOLOGY. -
MRD-Negativity As a Potential Surrogate Endpoint after Frontline DLBCL Therapy: Pooled Analysis of Trials & Implications for Clinical Trial Design
Roschewski, M., Kurtz, D. M., Westin, J., Lynch, R. C., Macaulay, C., Kuffer, C., … Schultz, A. (2022). MRD-Negativity As a Potential Surrogate Endpoint after Frontline DLBCL Therapy: Pooled Analysis of Trials & Implications for Clinical Trial Design. BLOOD. AMER SOC HEMATOLOGY. -
Ultrasensitive Circulating Tumor DNA (ctDNA) Dynamics after Autologous CD30.CAR-T Cell Therapy for Relapsed or Refractory (r/r) Classical Hodgkin Lymphoma (CHARIOT Trial)
Kurtz, D. M., Ahmed, S., Tong, C. K., Mei, M., Ding, C., Flinn, I. W., … Horak, I. D. (2022). Ultrasensitive Circulating Tumor DNA (ctDNA) Dynamics after Autologous CD30.CAR-T Cell Therapy for Relapsed or Refractory (r/r) Classical Hodgkin Lymphoma (CHARIOT Trial). BLOOD. AMER SOC HEMATOLOGY. -
Higher Rates of Severe Infection and Persistent Cytopenias in Long-Term CAR19 Responders Than after Autologous HCT: A Single Institution Study of 139 Subjects
Hamilton, M. P., Liu-Fei, F. C., Alig, S. K., Tamaresis, J., Esfahani, M. S., Good, Z., … Alizadeh, A. A. (2022). Higher Rates of Severe Infection and Persistent Cytopenias in Long-Term CAR19 Responders Than after Autologous HCT: A Single Institution Study of 139 Subjects. BLOOD. AMER SOC HEMATOLOGY. -
Accurate Detection of Clinically Actionable Copy Number Variants in Diverse Hematological Neoplasms By Routine Targeted Sequencing: A Comparative Performance Study
Mosquera, A. P., Hosoya, H., Jin, M. C., Esfahani, M. S., Schroers-Martin, J., Sworder, B., … Alizadeh, A. A. (2022). Accurate Detection of Clinically Actionable Copy Number Variants in Diverse Hematological Neoplasms By Routine Targeted Sequencing: A Comparative Performance Study. BLOOD. AMER SOC HEMATOLOGY. -
Concurrent pembrolizumab with AVD for untreated classical Hodgkin lymphoma.
Lynch, R. C., Ujjani, C. S., Poh, C., Warren, E. H., Smith, S. D., Shadman, M., … Gopal, A. K. (2023). Concurrent pembrolizumab with AVD for untreated classical Hodgkin lymphoma. Blood. -
Clonal Hematopoiesis Driven By Recurrent Somatic Mutations but Not with Recurrent Copy Number Alterations Is Associated with Inferior Outcomes in DLBCL after Induction Chemotherapy, but Not CAR19 Therapy
Boegeholz, J., Alig, S. K., Sworder, B., Schroers-Martin, J., Macaulay, C., Craig, A. F. M., … Alizadeh, A. A. (2022). Clonal Hematopoiesis Driven By Recurrent Somatic Mutations but Not with Recurrent Copy Number Alterations Is Associated with Inferior Outcomes in DLBCL after Induction Chemotherapy, but Not CAR19 Therapy. BLOOD. AMER SOC HEMATOLOGY. -
Bendamustine, Obinutuzumab and Venetoclax Results in High Complete Response Rates in Untreated Mantle Cell Lymphoma
Greenwell, I. B., Switchenko, J. M., Craig, A. F. M., Alizadeh, A. A., Allen, P. B., Escobar, A., … Algave, M. (2022). Bendamustine, Obinutuzumab and Venetoclax Results in High Complete Response Rates in Untreated Mantle Cell Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
From patterns to patients: Advances in clinical machine learning for cancer diagnosis, prognosis, and treatment.
Swanson, K., Wu, E., Zhang, A., Alizadeh, A. A., & Zou, J. (2023). From patterns to patients: Advances in clinical machine learning for cancer diagnosis, prognosis, and treatment. Cell. -
Profiling Cellular Ecosystems at Single-Cell Resolution and at Scale with EcoTyper.
Steen, C. B., Luca, B. A., Alizadeh, A. A., Gentles, A. J., & Newman, A. M. (2023). Profiling Cellular Ecosystems at Single-Cell Resolution and at Scale with EcoTyper. Methods in Molecular Biology (Clifton, N.J.), 2629, 43–71. -
Tracing founder mutations in circulating and tissue-resident follicular lymphoma precursors.
Schroers-Martin, J. G., Soo, J., Brisou, G., Scherer, F., Kurtz, D. M., Sworder, B. J., … Alizadeh, A. A. (2023). Tracing founder mutations in circulating and tissue-resident follicular lymphoma precursors. Cancer Discovery. -
Identification and confirmation via in situ hybridization of Merkel cell polyomavirus in rare cases of posttransplant cutaneous T-cell lymphoma.
Lawrence, L., Wang, A., Charville, G., Liu, C. L., Garofalo, A., Alizadeh, A., … Stehr, H. (2023). Identification and confirmation via in situ hybridization of Merkel cell polyomavirus in rare cases of posttransplant cutaneous T-cell lymphoma. Journal of Cutaneous Pathology. -
Outcome prediction by interim positron emission tomography and IgM monoclonal gammopathy in diffuse large B-cell lymphoma.
Johansson, P., Alig, S., Richter, J., Hanoun, C., Rekowski, J., Durig, J., … Huttmann, A. (2023). Outcome prediction by interim positron emission tomography and IgM monoclonal gammopathy in diffuse large B-cell lymphoma. Annals of Hematology. -
Cell-of-Origin Subtypes and Therapeutic Benefit from Polatuzumab Vedotin.
Palmer, A. C., Kurtz, D. M., & Alizadeh, A. A. (2023). Cell-of-Origin Subtypes and Therapeutic Benefit from Polatuzumab Vedotin. The New England Journal of Medicine, 389(8), 764–766. -
Diversity of intratumoral regulatory T cells in B-cell non-Hodgkin lymphoma.
Spasevska, I., Sharma, A., Steen, C. B., Josefsson, S. E., Blaker, Y. N., Kolstad, A., … Myklebust, J. H. (2023). Diversity of intratumoral regulatory T cells in B-cell non-Hodgkin lymphoma. Blood Advances. -
Improved early outcome prediction by MRI-based 3D tumor volume assessment in patients with CNS lymphomas.
Lauer, E. M., Riegler, E., Mutter, J. A., Alig, S. K., Bleul, S., Kuehn, J., … Scherer, F. (2023). Improved early outcome prediction by MRI-based 3D tumor volume assessment in patients with CNS lymphomas. Neuro-Oncology. -
A clinical trial of therapeutic vaccination in lymphoma with serial tumor sampling and single cell analysis.
Shree, T., Haebe, S. E., Czerwinski, D. K., Eckhert, E., Day, G., Sathe, A., … Levy, R. (2023). A clinical trial of therapeutic vaccination in lymphoma with serial tumor sampling and single cell analysis. Blood Advances. -
Ultrasensitive ctDNA minimal residual disease monitoring in early NSCLC with PhasED-Seq
Isbell, J. M., Li, B. T., Razavi, P., Reis-Filo, J., Liu, S.-Y., Selenica, P., … Diehn, M. (2023). Ultrasensitive ctDNA minimal residual disease monitoring in early NSCLC with PhasED-Seq. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
Improved cfDNA methylation profiling through correction of misrepaired jagged-ends
Wang, R., Hamilton, E. G., Hui, A., Almanza, D., Esfahani, M. S., Diehn, M., & Alizadeh, A. A. (2023). Improved cfDNA methylation profiling through correction of misrepaired jagged-ends. CANCER RESEARCH. AMER ASSOC CANCER RESEARCH. -
Distinct Hodgkin lymphoma subtypes defined by noninvasive genomic profiling.
Alig, S. K., Esfahani, M. S., Garofalo, A., Li, M. Y., Rossi, C., Flerlage, T., … Alizadeh, A. A. (2023). Distinct Hodgkin lymphoma subtypes defined by noninvasive genomic profiling. Nature. -
Specificity of Immunoglobulin High-Throughput Sequencing Minimal Residual Disease Monitoring in Non-Hodgkin Lymphomas.
Shukla, N., Schroers-Martin, J., Sworder, B., Kathuria, K. R., Alig, S., Frank, M. J., … Alizadeh, A. A. (2023). Specificity of Immunoglobulin High-Throughput Sequencing Minimal Residual Disease Monitoring in Non-Hodgkin Lymphomas. Blood Advances. -
A human lymphoma organoid model for evaluating and targeting the follicular lymphoma tumor immune microenvironment.
Kastenschmidt, J. M., Schroers-Martin, J. G., Sworder, B. J., Sureshchandra, S., Khodadoust, M. S., Liu, C. L., … Alizadeh, A. A. (2024). A human lymphoma organoid model for evaluating and targeting the follicular lymphoma tumor immune microenvironment. Cell Stem Cell. -
CAR19 Therapy Drives Expansion of Clonal Hematopoiesis and Associated Cytopenias
Hamilton, M. P., Sworder, B. J., Alig, S. K., Good, Z., Boegeholz, J., Schroers-Martin, J., … Alizadeh, A. A. (2023). CAR19 Therapy Drives Expansion of Clonal Hematopoiesis and Associated Cytopenias. BLOOD. AMER SOC HEMATOLOGY. -
Genomic, Transcriptional, and Immunological Validation of Distinct Molecular Subtypes of Classic Hodgkin Lymphoma through Tissue-Based and Noninvasive Methods
Alig, S. K., Esfahani, M. S., Garofalo, A., Li, M. Y., Rossi, C., Flerlage, T., … Alizadeh, A. A. (2023). Genomic, Transcriptional, and Immunological Validation of Distinct Molecular Subtypes of Classic Hodgkin Lymphoma through Tissue-Based and Noninvasive Methods. BLOOD. AMER SOC HEMATOLOGY. -
Phased Variants Allow Robust Profiling of Circulating Tumor DNA in Untreated Follicular Lymphomas
Nagy, A., Batai, B., Hogan, G., Chabon, J. J., Troke, M., Riley, L., … Bodor, C. (2023). Phased Variants Allow Robust Profiling of Circulating Tumor DNA in Untreated Follicular Lymphomas. BLOOD. AMER SOC HEMATOLOGY. -
An Integrated Multimodal Framework for Noninvasive TCL Disease Detection and Monitoring
Sugio, T., Shukla, N., Khodadoust, M. S., Nesselbush, M., Kato, K., Alig, S. K., … Alizadeh, A. A. (2023). An Integrated Multimodal Framework for Noninvasive TCL Disease Detection and Monitoring. BLOOD. AMER SOC HEMATOLOGY. -
End-of-Treatment Response Assessment after Frontline Therapy for Aggressive B-Cell Lymphoma: Landmark Comparison of a Singular PET/CT Scan Versus Ultrasensitive Circulating Tumor DNA
Roschewski, M., Lindenberg, L., Mena, E., Lakhotia, R., Melani, C., Steinberg, S. M., … Wilson, W. H. (2023). End-of-Treatment Response Assessment after Frontline Therapy for Aggressive B-Cell Lymphoma: Landmark Comparison of a Singular PET/CT Scan Versus Ultrasensitive Circulating Tumor DNA. BLOOD. AMER SOC HEMATOLOGY. -
Inferred Gene Expression By Cell-Free DNA Profiling Allows Noninvasive Lymphoma Classification
Mutter, J. A., Esfahani, M. S., Schroers-Martin, J., Alig, S. K., Hamilton, M. P., Sworder, B. J., … Alizadeh, A. A. (2023). Inferred Gene Expression By Cell-Free DNA Profiling Allows Noninvasive Lymphoma Classification. BLOOD. AMER SOC HEMATOLOGY. -
Prognostic Utility of Minimal Residual Disease (MRD) after Curative Intent Induction Therapy for DLBCL: A Prospective Real-World Ctdna Study
Sworder, B. J., Yoon, S. E., Kim, S. J., Schultz, A., Hogan, G., Close, S., … Kim, W. S. (2023). Prognostic Utility of Minimal Residual Disease (MRD) after Curative Intent Induction Therapy for DLBCL: A Prospective Real-World Ctdna Study. BLOOD. AMER SOC HEMATOLOGY. -
Optimizing Circulating Tumor DNA Limits of Detection for DLBCL during First Line Therapy
Goldstein, J., Kim, W. S., Yoon, S. E., Kim, S. J., Roschewski, M., Westin, J., … Kurtz, D. M. (2023). Optimizing Circulating Tumor DNA Limits of Detection for DLBCL during First Line Therapy. BLOOD. AMER SOC HEMATOLOGY. -
Longitudinal Noninvasive Surveillance & Fragmentomic Characterization of Follicular Lymphoma
Schroers-Martin, J., Mutter, J. A., Esfahani, M. S., Scherer, F., Soo, J., Alig, S. K., … Alizadeh, A. A. (2023). Longitudinal Noninvasive Surveillance & Fragmentomic Characterization of Follicular Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Circulating Tumor DNA Dynamics as Early Outcome Predictors for Lisocabtagene Maraleucel as Second-Line Therapy for Large B-Cell Lymphoma from the Phase 3 TRANSFORM Study
Stepan, L., Ansari, S., Okal, A., Dell'Aringa, J., Thompson, E., Crotta, A., … Peiser, L. (2023). Circulating Tumor DNA Dynamics as Early Outcome Predictors for Lisocabtagene Maraleucel as Second-Line Therapy for Large B-Cell Lymphoma from the Phase 3 TRANSFORM Study. BLOOD. AMER SOC HEMATOLOGY. -
Investigating the Cell States and Prognostic Impact of Tumor Microenvironment Ecosystems in Classic Hodgkin Lymphoma
Su, S., Subramanian, A., Flerlage, T., Flerlage, J. E., Alig, S. K., Moding, E. J., … Binkley, M. S. (2023). Investigating the Cell States and Prognostic Impact of Tumor Microenvironment Ecosystems in Classic Hodgkin Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
Durable Remissions in Advanced Stage and Molecularly High Risk Untreated Classic Hodgkin Lymphoma with Pembrolizumab plus AVD
Lynch, R. C., Alig, S. K., Ujjani, C. S., Poh, C., Warren, E. H., Smith, S. D., … Gopal, A. K. (2023). Durable Remissions in Advanced Stage and Molecularly High Risk Untreated Classic Hodgkin Lymphoma with Pembrolizumab plus AVD. BLOOD. AMER SOC HEMATOLOGY. -
Distinct Circulating Genomic Features of Classical Hodgkin Lymphoma of Older Adults
Rossi, C., Boegeholz, J., Alig, S. K., Garofalo, A., Esfahani, M. S., Schroers-Martin, J., … Alizadeh, A. A. (2023). Distinct Circulating Genomic Features of Classical Hodgkin Lymphoma of Older Adults. BLOOD. AMER SOC HEMATOLOGY. -
Early and Sustained Circulating Tumor DNA Response Dynamics after Loncastuximab Tesirine for Relapsed/Refractory Diffuse Large B-Cell Lymphoma
Kurtz, D. M., Hogan, G., Schultz, A., Chabon, J. J., Alizadeh, A. A., Havenith, K., … Pantano, S. (2023). Early and Sustained Circulating Tumor DNA Response Dynamics after Loncastuximab Tesirine for Relapsed/Refractory Diffuse Large B-Cell Lymphoma. BLOOD. AMER SOC HEMATOLOGY. -
CAR19 monitoring by peripheral blood immunophenotyping reveals histology-specific expansion and toxicity.
Hamilton, M. P., Craig, E., Gentille Sanchez, C., Mina, A., Tamaresis, J., Kirmani, N., … Miklos, D. B. (2024). CAR19 monitoring by peripheral blood immunophenotyping reveals histology-specific expansion and toxicity. Blood Advances.
Clinical Trials
Clinical trials are research studies that evaluate a new medical approach, device, drug, or other treatment. As a Stanford Health Care patient, you may have access to the latest, advanced clinical trials.
Open trials refer to studies currently accepting participants. Closed trials are not currently enrolling, but may open in the future.
- A Study Of PF-05082566 As A Single Agent And In Combination With Rituximab »
- VTX-2337 in Combination With Radiotherapy in Patients Low-Grade B-cell Lymphomas »
- Oxaliplatin, Leucovorin Calcium, and Fluorouracil With or Without Bevacizumab in Treating Patients Who Have Undergone Surgery for Stage II Colon Cancer »
- A Study of PCI-32765 (Ibrutinib) in Patients With Refractory Follicular Lymphoma »
- An Extension Study for Subjects Who Are Deriving Benefit With Idelalisib (GS-1101; CAL-101) Following Completion of a Prior Idelalisib Study »
- Efficacy and Safety of Idelalisib (GS-1101) in Combination With Bendamustine and Rituximab for Previously Treated Indolent Non-Hodgkin Lymphomas »
- Genes in Predicting Outcome of Patients With DLBCL Treated With Rituximab and Combination Chemotherapy (R-CHOP) »
- Efficacy and Safety of Idelalisib (GS-1101) in Combination With Rituximab for Previously Treated Indolent Non-Hodgkin Lymphomas »
Practice Locations
Lymphoma Program Palo Alto, CA
Palo Alto, CALymphoma Program
875 Blake Wilbur Drive
Palo Alto , CA 94304
Make An Appointment More Clinic Information » Getting Here »Lymphoma Program in Palo Alto Palo Alto, CA
Palo Alto, CALymphoma Program in Palo Alto
875 Blake Wilbur Drive
Palo Alto , CA 94304
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