J. Christopher Bare
J. Christopher Bare
Senior Software Engineer
Verified email at - Homepage
Cited by
Cited by
The mPower study, Parkinson disease mobile data collected using ResearchKit
ADT Brian M Bot, Christine Suver, Elias Chaibub Neto, Michael Kellen, Arno ...
Nature Scientific Data 3, 2016
A predictive model for transcriptional control of physiology in a free living cell
R Bonneau, MT Facciotti, DJ Reiss, AK Schmid, M Pan, A Kaur, ...
Cell 131 (7), 1354-1365, 2007
Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection
AD Ewing, KE Houlahan, Y Hu, K Ellrott, C Caloian, TN Yamaguchi, ...
Nature methods 12 (7), 623-630, 2015
Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open …
J Guinney, T Wang, TD Laajala, KK Winner, JC Bare, EC Neto, SA Khan, ...
The Lancet Oncology 18 (1), 132-142, 2017
Prevalence of transcription promoters within archaeal operons and coding sequences
T Koide, DJ Reiss, JC Bare, WL Pang, MT Facciotti, AK Schmid, M Pan, ...
Molecular systems biology 5 (1), 285, 2009
Prediction of human population responses to toxic compounds by a collaborative competition
F Eduati, LM Mangravite, T Wang, H Tang, JC Bare, R Huang, T Norman, ...
Nature biotechnology 33 (9), 933-940, 2015
Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease
GI Allen, N Amoroso, C Anghel, V Balagurusamy, CJ Bare, D Beaton, ...
Alzheimer's & Dementia 12 (6), 645-653, 2016
Open chromatin profiling of human postmortem brain infers functional roles for non-coding schizophrenia loci
JF Fullard, C Giambartolomei, ME Hauberg, K Xu, G Voloudakis, Z Shao, ...
Human molecular genetics 26 (10), 1942-1951, 2017
Parallel evolution of transcriptome architecture during genome reorganization
SH Yoon, DJ Reiss, JC Bare, D Tenenbaum, M Pan, J Slagel, RL Moritz, ...
Genome research 21 (11), 1892-1904, 2011
Niche adaptation by expansion and reprogramming of general transcription factors
S Turkarslan, DJ Reiss, G Gibbins, WL Su, M Pan, JC Bare, CL Plaisier, ...
Molecular systems biology 7 (1), 554, 2011
Integration and visualization of systems biology data in context of the genome
JC Bare, T Koide, DJ Reiss, D Tenenbaum, NS Baliga
BMC bioinformatics 11, 1-8, 2010
Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection
AY Lee, AD Ewing, K Ellrott, Y Hu, KE Houlahan, JC Bare, SMG Espiritu, ...
Genome biology 19, 1-15, 2018
Global optimization of somatic variant identification in cancer genomes with a global community challenge
PC Boutros, AD Ewing, K Ellrott, TC Norman, KK Dang, Y Hu, MR Kellen, ...
Nature genetics 46 (4), 318-319, 2014
The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications
JC Bare, PT Shannon, AK Schmid, NS Baliga
BMC bioinformatics 8, 1-12, 2007
Attestation and trusted computing
JC Bare
University of Washington, Washington, 2006
miRvestigator: web application to identify miRNAs responsible for co-regulated gene expression patterns discovered through transcriptome profiling
CL Plaisier, JC Bare, NS Baliga
Nucleic acids research 39 (suppl_2), W125-W131, 2011
DREAMTools: a Python package for scoring collaborative challenges
T Cokelaer, M Bansal, C Bare, E Bilal, BM Bot, EC Neto, F Eduati, ...
F1000Research 4, 2015
Network portal: a database for storage, analysis and visualization of biological networks
S Turkarslan, EJ Wurtmann, WJ Wu, N Jiang, JC Bare, K Foley, DJ Reiss, ...
Nucleic acids research 42 (D1), D184-D190, 2014
Simulation Studies as Designed Experiments: The Comparison of Penalized Regression Models in the “Large p, Small n” Setting
E Chaibub Neto, JC Bare, AA Margolin
PloS one 9 (10), e107957, 2014
Germline contamination and leakage in whole genome somatic single nucleotide variant detection
DH Sendorek, C Caloian, K Ellrott, JC Bare, TN Yamaguchi, AD Ewing, ...
BMC bioinformatics 19, 1-9, 2018
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