Brian Bot
Seattle, Washington, United States
Research field: Biological Sciences - Biotechnology
challenging the scientific status quo
Publications
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Journal Article (14)
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Jonathan M J Derry, Lara M Mangravite, Christine Suver et al. (2012) Developing predictive molecular maps of human disease through community-based modeling, 127-130. In Nature Genetics 44 (2).
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Ann L Oberg, Brian M Bot, Diane E Grill et al. (2012) Technical and biological variance structure in mRNA-Seq data: life in the real world., 304. In BMC genomics 13 (1).Download PDF (2.13 MB)
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Qian Shi, Lindsay A. Renfro, Brian M. Bot et al. (2011) Comparative assessment of trial-level surrogacy measures for candidate time-to-event surrogate endpoints in clinical trials, 2748-2757. In Computational Statistics & Data Analysis 55 (9).
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Daniel J Sargent, Murray B Resnick, Michael O Meyers et al. (2011) Evaluation of Guanylyl Cyclase C Lymph Node Status for Colon Cancer Staging and Prognosis., 1-10. In Annals of surgical oncology.
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Brian M Bot, Jeanette E Eckel-Passow, Shauna N Legrand et al. (2011) Expression of endothelin 2 and localized clear cell renal cell carcinoma.. In Human pathology.
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Charles D Blanke, Brian M Bot, David M Thomas et al. (2011) Impact of Young Age on Treatment Efficacy and Safety in Advanced Colorectal Cancer: A Pooled Analysis of Patients From Nine First-Line Phase III Chemotherapy Trials., 2781-6. In Journal of clinical oncology : official journal of the American Society of Clinical Oncology 29 (20).Download PDF (187.83 KB)
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Zhifu Sun, Yan W Asmann, Krishna R Kalari et al. (2011) Integrated analysis of gene expression, CpG island methylation, and gene copy number in breast cancer cells by deep sequencing., e17490. In PloS one 6 (2).Download PDF (5.36 MB)
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D Sargent, Q Shi, G Yothers et al. (2011) Two or three year disease-free survival (DFS) as a primary end-point in stage III adjuvant colon cancer trials with fluoropyrimidines with or without oxaliplatin or irinotecan: data from 12,676 patients from MOSAIC, X-ACT, PETACC-3, C-06, C-07 and C89803., 990-6. In European journal of cancer (Oxford, England : 1990) 47 (7).
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Aimery de Gramont, Joleen Hubbard, Qian Shi et al. (2010) Association between disease-free survival and overall survival when survival is prolonged after recurrence in patients receiving cytotoxic adjuvant therapy for colon cancer: simulations based on the 20,800 patient ACCENT data set., 460-5. In Journal of clinical oncology : official journal of the American Society of Clinical Oncology 28 (3).Download PDF (136.34 KB)
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Shauna L Hillman, Sumithra J Mandrekar, Brian Bot et al. (2010) Evaluation of the value of attribution in the interpretation of adverse event data: a North Central Cancer Treatment Group and American College of Surgeons Oncology Group investigation., 3002-7. In Journal of clinical oncology : official journal of the American Society of Clinical Oncology 28 (18).Download PDF (203.97 KB)
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Biographical Information
I am currently a Senior Scientist at Sage Bionetworks working with large genetic, genomic and phenotypic datasets. This role requires advanced knowledge of a wide variety of subject matters including computational biology, biostatistics, bioinformatics, and a number of biological endpoints. Endpoints of particular interest are genetic mutations (SNP, CNV, etc.), RNA expression (miRNA, exon, gene-level), and protein production. Methods to integrate these endpoints are of particular interest and importance. We are currently working to create standardized open-source data structures and formats which will aid in increasing the accessibility and ease of analysis of biological data.
In providing open access to a large number of integrated datasets, we hope to stimulate the discovery and validation of biological networks that will help to explain disease specific etiology.
In providing open access to a large number of integrated datasets, we hope to stimulate the discovery and validation of biological networks that will help to explain disease specific etiology.
CV
Professional Experience
2011 - Present
Jun 2011 - Dec 2011
Jul 2008 - Jun 2011
Senior Statistical Analyst at Mayo Clinic
Rochester, Minnesota, United States
Classes taught:
High Dimensional Data Analysis
Rochester, Minnesota, United States
Classes taught:
High Dimensional Data Analysis
Aug 2006 - Jun 2008
May 2004 - Aug 2006
Education
Sep 2000 - Dec 2003
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