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Activities

Employment (2)

Personalis Inc: Menlo Park, CA, US

2011-11-01 to present | Chief Medical Officer and EVP of R&D (Research and Development)
Employment
Source: Self-asserted source
Richard Chen

Stanford Medicine: Stanford, CA, US

2011-09-01 to present | Assistant Professor (Dermatology)
Employment
Source: Self-asserted source
Richard Chen

Education and qualifications (4)

Stanford University School of Medicine: Stanford, CA, US

MD (Medicine)
Education
Source: Self-asserted source
Richard Chen

Stanford University School of Medicine: Stanford, CA, US

(Dermatology Residency)
Education
Source: Self-asserted source
Richard Chen

Stanford University: Stanford, CA, US

MS (Biomedical Informatics)
Education
Source: Self-asserted source
Richard Chen

Stanford University: Stanford, CA, US

1988 to 1992 | BS (Computer Science)
Education
Source: Self-asserted source
Richard Chen

Works (39)

Immunologic signatures of response and resistance to nivolumab with ipilimumab in advanced metastatic cancer.

The Journal of experimental medicine
2024-10-07 | Journal article
Part of ISSN: 1540-9538
Contributors: Apostolia M Tsimberidou; Farah A Alayli; Kwame Okrah; Alexandra Drakaki; Danny N Khalil; Shivaani Kummar; Saad A Khan; F Stephen Hodi; David Y Oh; Christopher R Cabanski et al.
Source: check_circle
Stanford University

Circulating KRAS G12D but not G12V is associated with survival in metastatic pancreatic ductal adenocarcinoma.

Nature communications
2024-07-09 | Journal article
Part of ISSN: 2041-1723
Contributors: Jacob E Till; Lee McDaniel; Changgee Chang; Qi Long; Shannon M Pfeiffer; Jaclyn P Lyman; Lacey J Padrón; Deena M Maurer; Jia Xin Yu; Christine N Spencer et al.
Source: check_circle
Stanford University

Withdrawal of 'Precision Neoantigen Discovery Using Large-scale Immunopeptidomes and Composite Modeling of MHC Peptide Presentation'.

Molecular & cellular proteomics : MCP
2023-04-03 | Journal article
Part of ISSN: 1535-9484
Contributors: Rachel Marty Pyke; Dattatreya Mellacheruvu; Steven Dea; Charles W Abbott; Simo V Zhang; Nick A Phillips; Jason Harris; Gabor Bartha; Sejal Desai; Rena McClory et al.
Source: check_circle
Stanford University

Precision neoantigen discovery using large-scale immunopeptidomes and composite modeling of MHC peptide presentation.

Molecular & cellular proteomics : MCP
2023-02-13 | Journal article
Part of ISSN: 1535-9484
Contributors: Rachel Marty Pyke; Datta Mellacheruvu; Steven Dea; Charles Abbott; Simo V Zhang; Nick A Phillips; Jason Harris; Gabor Bartha; Sejal Desai; Rena McClory et al.
Source: check_circle
Stanford University

AMADEUS TRIAL: TUMOR AGNOSTIC PRE- AND ONTREATMENT BIOMARKERS OF RESPONSE TO NIVOLUMAB PLUS IPILIMUMAB CORRELATE WITH ONTREATMENT TUMORAL T CELL INFILTRATION

2022-11-01 | Conference paper
WOSUID:

WOS:000919423400550

Part of ISSN: 2051-1426
Contributors: Alayli, Farah; Okrah, Kwame; Tsimberidou, Apostolia; Drakaki, Alexandra; Khalil, Danny; Khan, Saad; Hodi, Stephen; Oh, David; Amouzgar, Meelad; Guatam, Shikha et al.
Source: check_circle
Stanford University

SENSITIVE PREDICTION OF IMMUNOTHERAPY RESPONSE BY INTEGRATING IMMUNE INFILTRATION AND NEOANTIGEN PRESENTATION SCORE IN LATE-STAGE MELANOMA

2022-11-01 | Conference paper
WOSUID:

WOS:000919423400118

Part of ISSN: 2051-1426
Contributors: Li, Bailiang; Abbott, Charles; McDaniel, Lee; Pyke, Rachel; Navarro, Fabio; Anbunathan, Hima; Synder, Michael; Jang, Sekwon; Boyle, Sean; Chen, Richard
Source: check_circle
Stanford University

Sotigalimab and/or nivolumab with chemotherapy in first-line metastatic pancreatic cancer: clinical and immunologic analyses from the randomized phase 2 PRINCE trial.

Nature medicine
2022-06-03 | Journal article
WOSUID:

MEDLINE:35662283

Part of ISSN: 1546-170X
Part of ISSN: 1078-8956
Contributors: Padron, Lacey J.; Maurer, Deena M.; O'Hara, Mark H.; O'Reilly, Eileen M.; Wolff, Robert A.; Wainberg, Zev A.; Ko, Andrew H.; Fisher, George; Rahma, Osama; Lyman, Jaclyn P. et al.
Source: check_circle
Stanford University

Distinct biosignatures associate with survival after chemoimmunotherapy in a randomized, three-arm phase II study in patients with metastatic pancreatic cancer.

2022-06-01 | Conference paper
WOSUID:

WOS:000863680301178

Part of ISSN: 1527-7755
Part of ISSN: 0732-183X
Contributors: Padron, Lacey J.; Maurer, Deena M.; O'Hara, Mark H.; O'Reilly, Eileen Mary; Wolff, Robert A.; Wainberg, Zev A.; Ko, Andrew H.; Fisher, George A.; Rahma, Osama E.; Lyman, Jaclyn P. et al.
Source: check_circle
Stanford University

A machine learning algorithm with subclonal sensitivity reveals widespread pan-cancer human leukocyte antigen loss of heterozygosity.

Nature communications
2022-04-12 | Journal article
WOSUID:

MEDLINE:35414054

Part of ISSN: 2041-1723
Contributors: Pyke, Rachel Marty; Mellacheruvu, Dattatreya; Dea, Steven; Abbott, Charles W.; McDaniel, Lee; Bhave, Devayani P.; Zhang, Simo V.; Levy, Eric; Bartha, Gabor; West, John et al.
Source: check_circle
Stanford University

EXTENSIVELY VALIDATED HLA LOH ALGORITHM DEMONSTRATES AN ASSOCIATION BETWEEN HLA LOH AND GENOMIC INSTABILITY

2021-11-01 | Conference paper
WOSUID:

WOS:000774877500079

Part of ISSN: 2051-1426
Contributors: Pyke, Rachel; Dea, Steven; Mellacheruvu, Dattatreya; Abbott, Charles; Zhang, Simo; McDaniel, Lee; Levy, Eric; Bartha, Gabor; West, John; Snyder, Michael et al.
Source: check_circle
Stanford University

TUMOR-INFORMED LIQUID BIOPSY MONITORING OF EVOLVING THERAPEUTIC RESISTANCE MECHANISMS IN HEAD AND NECK SQUAMOUS CELL CARCINOMA PATIENTS RECEIVING ANTI-PD-1 THERAPY

2021-11-01 | Conference paper
WOSUID:

WOS:000774877500021

Part of ISSN: 2051-1426
Contributors: Abbott, Charles; Bedi, Nikita; Wang, Jing; Northcott, Josette; Pyke, Rachel; Li, Robin; McDaniel, Lee; Levy, Eric; Mansour, Mena; Colevas, Dimitrios et al.
Source: check_circle
Stanford University

Prediction of Immunotherapy Response in Melanoma through Combined Modeling of Neoantigen Burden and Immune-Related Resistance Mechanisms.

Clinical cancer research : an official journal of the American Association for Cancer Research
2021-08-01 | Journal article
WOSUID:

MEDLINE:34341053

Part of ISSN: 1557-3265
Part of ISSN: 1078-0432
Contributors: Abbott, Charles W.; Boyle, Sean M.; Pyke, Rachel Marty; McDaniel, Lee D.; Levy, Eric; Navarro, Fabio C.; Mellacheruvu, Dattatreya; Zhang, Simo V.; Tan, Mengyao; Santiago, Rose et al.
Source: check_circle
Stanford University

Longitudinal exome-scale liquid biopsy monitoring of evolving therapeutic resistance mechanisms in head and neck squamous cell carcinoma patients receiving anti-PD-1 therapy.

2021-07-01 | Conference paper
WOSUID:

WOS:000680263505282

Part of ISSN: 1538-7445
Part of ISSN: 0008-5472
Contributors: Abbott, Charles W.; Bedi, Nikita; Zhang, Simo V.; Northcott, Josette; Li, Robin; Pyke, Rachel Marty; Levy, Eric; Chernock, Rebecca; Mansour, Mena; Colevas, A. Dimitrios et al.
Source: check_circle
Stanford University

Pan-cancer survey of HLA loss of heterozygosity using a robustly validated NGS-based machine learning algorithm.

2021-07-01 | Conference paper
WOSUID:

WOS:000680263502451

Part of ISSN: 1538-7445
Part of ISSN: 0008-5472
Contributors: Pyke, Rachel Marty; Mellacheruvu, Datta; Abbott, Charles; Dea, Steven; Levy, Eric; Zhang, Simo V.; Bedi, Nikita; Colevas, A. Dimitrios; Bhave, Devayani; Chinnappa, Manju et al.
Source: check_circle
Stanford University

Precision neoantigen discovery using large-scale immunopeptidomes and composite modeling of MHC peptide presentation.

Molecular & cellular proteomics : MCP
2021-06-11 | Journal article
WOSUID:

MEDLINE:34126241

Part of ISSN: 1535-9484
Part of ISSN: 1535-9476
Contributors: Pyke, Rachel Marty; Mellacheruvu, Datta; Dea, Steven; Abbott, Charles; Zhang, Simo V.; Phillips, Nick A.; Harris, Jason; Bartha, Gabor; Desai, Sejal; McClory, Rena et al.
Source: check_circle
Stanford University

Association of HLA loss of heterozygosity with allele-specific neoantigen expansion in response to immunotherapy.

2021-05-20 | Conference paper
WOSUID:

WOS:000708120303080

Part of ISSN: 1527-7755
Part of ISSN: 0732-183X
Contributors: Pyke, Rachel Marty; Abbott, Charles; Dea, Steven; Bedi, Nikita; Colevas, A. Dimitrios; Levy, Eric; Zhang, Simo V.; Snyder, Michael; Mellacheruvu, Datta; Sunwoo, John B. et al.
Source: check_circle
Stanford University

Robust prediction of response to immunotherapy in a mixed cohort of previously treated and immunotherapy-naive melanoma patients.

2021-05-20 | Conference paper
WOSUID:

WOS:000708120305222

Part of ISSN: 1527-7755
Part of ISSN: 0732-183X
Contributors: Abbott, Charles; McDaniel, Lee; Pyke, Rachel; Levy, Eric; Navarro, Fabio; Wang, Simo V. Zhang Jing; McClory, Rena; Snyder, Michael; Jang, Sekwon; Boyle, Sean Michael et al.
Source: check_circle
Stanford University

CD40 agonistic monoclonal antibody APX005M (sotigalimab) and chemotherapy, with or without nivolumab, for the treatment of metastatic pancreatic adenocarcinoma: an open-label, multicentre, phase 1b study.

The Lancet. Oncology
2021-01-01 | Journal article
Contributors: O'Hara MH; O'Reilly EM; Varadhachary G; Wolff RA; Wainberg ZA; Ko AH; Fisher G; Rahma O; Lyman JP; Cabanski CR et al.
Source: Self-asserted source
Richard Chen

Sensitive HLA loss of heterozygosity detection reveals allele-specific neoantigen expansion as resistance mechanism to anti-PD-1 therapy

2020-08-01 | Conference paper
WOSUID:

WOS:000590059307315

Part of ISSN: 1538-7445
Part of ISSN: 0008-5472
Contributors: Pyke, Rachel Marty; Abbott, Charles; Mellacheruvu, Dattatreya; Zhang, Simo; Bedi, Nikita; Colevas, A. Dimitrios; Sunwoo, John; West, John; Chen, Richard; Boyle, Sean Michael
Source: check_circle
Stanford University

Exome scale liquid biopsy characterization of putative neoantigens and genomic biomarkers pre- and post anti-PD-1 therapy in squamous cell carcinoma of the head and neck.

2020-05-20 | Conference paper
WOSUID:

WOS:000560368303058

Part of ISSN: 1527-7755
Part of ISSN: 0732-183X
Contributors: Abbott, Charles; Bedi, Nikita; Zhang, Simo; Li, Robin; Pyke, Rachel; Levy, Eric; Chernock, Rebecca; Mansour, Mena; Sunwoo, John B.; Colevas, A. Dimitrios et al.
Source: check_circle
Stanford University

Exome scale liquid biopsy monitoring of putative neoantigens and genomic biomarkers in patients on anti-PD-1 therapy in squamous cell carcinoma of the head and neck.

2020-03-01 | Conference paper
WOSUID:

WOS:000518188200159

Part of ISSN: 2326-6074
Part of ISSN: 2326-6066
Contributors: Abbott, Charles W.; Bedi, Nikita; Zhang, Simo V.; Li, Robin; Pyke, Rachel Marty; Levy, Eric; Chernock, Rebecca; Mansour, Mena; Sunwoo, John B.; Colevas, A. Dimitrios et al.
Source: check_circle
Stanford University

High prevalence of focal and multi-focal somatic genetic variants in the human brain.

Nature communications
2018-10-15 | Journal article
Contributors: Keogh MJ; Wei Wei; Aryaman J; Lauren Walker; Jelle van den Ameele; Coxhead J; Wilson I; Matthew Bashton; Beck J; West J et al.
Source: Self-asserted source
Richard Chen

Are minor alleles more likely to be risk alleles?

BMC MEDICAL GENOMICS
2018-01-19 | Journal article
WOSUID:

WOS:000423365100001

Part of ISSN: 1755-8794
Contributors: Kido, Takashi; Sikora-Wohlfeld, Weronika; Kawashima, Minae; Kikuchi, Shinichi; Kamatani, Naoyuki; Patwardhan, Anil; Chen, Richard; Sirota, Marina; Kodama, Keiichi; Hadley, Dexter et al.
Source: check_circle
Stanford University

A variant by any name: quantifying annotation discordance across tools and clinical databases.

Genome medicine
2017-01-26 | Journal article
Contributors: Yen JL; Garcia S; Aldrin Montana; Harris J; Chervitz S; Morra M; West J; Chen R; Church DM
Source: Self-asserted source
Richard Chen

Early somatic mosaicism is a rare cause of long-QT syndrome

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
2016-10-11 | Journal article
Part of ISSN: 0027-8424
Contributors: Priest, James Rush; Gawad, Charles; Kahlig, Kristopher M.; Yu, Joseph K.; O'Hara, Thomas; Boyle, Patrick M.; Rajamani, Sridharan; Clark, Michael J.; Garcia, Sarah TK; Ceresnak, Scott et al.
Source: check_circle
Stanford University

Constraints on Biological Mechanism from Disease Comorbidity Using Electronic Medical Records and Database of Genetic Variants

PLOS COMPUTATIONAL BIOLOGY
2016-04-01 | Journal article
Part of ISSN: 1553-734X
Contributors: Bagley, Steven C.; Sirota, Marina; Chen, Richard; Butte, Atul J.; Altman, Russ B.
Source: check_circle
Stanford University

Genetic analysis in a patient with nine primary malignant neoplasms: A rare case of Li-Fraumeni syndrome

ONCOLOGY REPORTS
2016-03-01 | Journal article
Part of ISSN: 1021-335X
Contributors: Li, Xiaoyuan; Kang, Juan; Pan, Qi; Sikora-Wohlfeld, Weronika; Zhao, Dachun; Meng, Changting; Bai, Chunmei; Patwardhan, Anil; Chen, Richard; Ren, Hong et al.
Source: check_circle
Stanford University

Disease Variant Landscape of a Large Multiethnic Population of Moyamoya Patients by Exome Sequencing

G3-GENES GENOMES GENETICS
2016-01-01 | Journal article
Part of ISSN: 2160-1836
Contributors: Shoemaker, Lorelei D.; Clark, Michael J.; Patwardhan, Anil; Chandratillake, Gemma; Garcia, Sarah; Chen, Rong; Morgan, Alexander A.; Leng, Nan; Kirk, Scott; Chen, Richard et al.
Source: check_circle
Stanford University

Achieving high-sensitivity for clinical applications using augmented exome sequencing.

Genome medicine
2015-01-01 | Journal article
Part of ISSN: 1756-994X
Contributors: Patwardhan, Anil; Harris, Jason; Leng, Nan; Bartha, Gabor; Church, Deanna M.; Luo, Shujun; Haudenschild, Christian; Pratt, Mark; Zook, Justin; Salit, Marc et al.
Source: check_circle
Stanford University

Transcriptome sequencing in Sezary syndrome identifies Sezary cell and mycosis fungoides-associated lncRNAs and novel transcripts

BLOOD
2012-10-18 | Journal article
Part of ISSN: 0006-4971
Contributors: Lee, Carolyn S.; Ungewickell, Alexander; Bhaduri, Aparna; Qu, Kun; Webster, Dan E.; Armstrong, Randall; Weng, Wen-Kai; Aros, Cody J.; Mah, Angela; Chen, Richard O. et al.
Source: check_circle
Stanford University

The direct cellular target of topically applied pimecrolimus may not be infiltrating lymphocytes

BRITISH JOURNAL OF DERMATOLOGY
2011-05-01 | Journal article
Part of ISSN: 0007-0963
Contributors: Fiorentino, D. F.; Chen, R. O.; STEWART, D. B.; Brown, K. K.; Sundram, U. N.
Source: check_circle
Stanford University

A network-based analysis of systemic inflammation in humans.

Nature
2005-08-31 | Journal article
Contributors: Calvano SE; wenzhong xiao; Richards DR; Felciano RM; Henry V. Baker; Raymond Jaihyun Cho; Chen RO; Brownstein BH; Cobb JP; Tschoeke SK et al.
Source: Self-asserted source
Richard Chen

Computational knowledge integration in biopharmaceutical research.

Briefings in bioinformatics
2003-09-01 | Journal article
Contributors: Ficenec D; Osborne M; Pradines J; Richards D; Felciano R; Raymond Jaihyun Cho; Chen RO; Liefeld T; Owen J; Alan Ruttenberg et al.
Source: Self-asserted source
Richard Chen

Automated diagnosis of data-model conflicts using metadata

JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION
1999-09-01 | Journal article
Part of ISSN: 1067-5027
Contributors: Chen, R. O.; Altman, R. B.
Source: check_circle
Stanford University

RIBOWEB: Linking structural computations to a knowledge base of published experimental data

5th International Conference on Intelligent Systems for Molecular Biology (ISMB-97)
1997-01-01 | Conference paper
PMID: 9322019
Contributors: Chen, R. O.; Felciano, R.; Altman, R. B.
Source: check_circle
Stanford University

RNA secondary structure as a reusable interface to biological information resources

GENE-COMBIS
1997-01-01 | Journal article
PMID: 9197551
Part of ISSN: 0378-1119
Contributors: Felciano, R. M.; Chen, R. O.; Altman, R. B.
Source: check_circle
Stanford University

Standardized representations of the literature: Combining diverse sources of ribosomal data

5th International Conference on Intelligent Systems for Molecular Biology (ISMB-97)
1997-01-01 | Conference paper
PMID: 9322010
Contributors: Altman, R. B.; Abernethy, N. F.; Chen, R. O.
Source: check_circle
Stanford University

Computational methods for defining the allowed conformational space of 16S rRNA based on chemical footprinting data

RNA-A PUBLICATION OF THE RNA SOCIETY
1996-09-01 | Journal article
PMID: 8809013
Part of ISSN: 1355-8382
Contributors: Fink, D. L.; Chen, R. O.; Noller, H. F.; Altman, R. B.
Source: check_circle
Stanford University

Constraining volume by matching the moments of a distance distribution

COMPUTER APPLICATIONS IN THE BIOSCIENCES
1996-08-01 | Journal article
PMID: 8902359
Part of ISSN: 0266-7061
Contributors: Chen, C. C.; Chen, R. O.; Altman, R. B.
Source: check_circle
Stanford University