James A Eddy
James A Eddy
Director of Informatics & Biocomputing, Sage Bionetworks
Bestätigte E-Mail-Adresse bei sagebase.org - Startseite
Zitiert von
Zitiert von
The immune landscape of cancer
V Thorsson, DL Gibbs, SD Brown, D Wolf, DS Bortone, THO Yang, ...
Immunity 48 (4), 812-830. e14, 2018
IL-10 alters immunoproteostasis in APP mice, increasing plaque burden and worsening cognitive behavior
P Chakrabarty, A Li, C Ceballos-Diaz, JA Eddy, CC Funk, B Moore, ...
Neuron 85 (3), 519-533, 2015
Dynamic analysis of integrated signaling, metabolic, and regulatory networks
JM Lee, EP Gianchandani, JA Eddy, JA Papin
PLoS computational biology 4 (5), e1000086, 2008
Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE
Y Wang, JA Eddy, ND Price
BMC systems biology 6 (1), 153, 2012
Systems analysis of metabolism in the pathogenic trypanosomatid Leishmania major
AK Chavali, JD Whittemore, JA Eddy, KT Williams, JA Papin
Molecular systems biology 4 (1), 177, 2008
Behavior-specific changes in transcriptional modules lead to distinct and predictable neurogenomic states
S Chandrasekaran, SA Ament, JA Eddy, SL Rodriguez-Zas, BR Schatz, ...
Proceedings of the National Academy of Sciences 108 (44), 18020-18025, 2011
Human whole genome genotype and transcriptome data for Alzheimer’s and other neurodegenerative diseases
M Allen, MM Carrasquillo, C Funk, BD Heavner, F Zou, CS Younkin, ...
Scientific data 3, 160089, 2016
In silico models of cancer
LB Edelman, JA Eddy, ND Price
Wiley Interdisciplinary Reviews: Systems Biology and Medicine 2 (4), 438-459, 2010
Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB 8052
C Milne, J Eddy, R Raju, S Ardekani, PJ Kim, R Senger, YS Jin, ...
BMC systems biology 5 (1), 130, 2011
Relative expression analysis for molecular cancer diagnosis and prognosis
JA Eddy, J Sung, D Geman, ND Price
Technology in cancer research & treatment 9 (2), 149-159, 2010
Accomplishments in genome‐scale in silico modeling for industrial and medical biotechnology
CB Milne, PJ Kim, JA Eddy, ND Price
Biotechnology journal 4 (12), 1653-1670, 2009
Identifying tightly regulated and variably expressed networks by Differential Rank Conservation (DIRAC)
JA Eddy, L Hood, ND Price, D Geman
PLoS computational biology 6 (5), e1000792, 2010
Integrated proteomics and genomics analysis reveals a novel mesenchymal to epithelial reverting transition in leiomyosarcoma through regulation of slug
J Yang, JA Eddy, Y Pan, A Hategan, I Tabus, Y Wang, D Cogdell, ...
Molecular & Cellular Proteomics 9 (11), 2405-2413, 2010
Partial exhaustion of CD8 T cells and clinical response to teplizumab in new-onset type 1 diabetes
SA Long, J Thorpe, HA DeBerg, V Gersuk, J Eddy, KM Harris, M Ehlers, ...
Science immunology 1 (5), 2016
Cell type-specific genes show striking and distinct patterns of spatial expression in the mouse brain
Y Ko, SA Ament, JA Eddy, J Caballero, JC Earls, L Hood, ND Price
Proceedings of the National Academy of Sciences 110 (8), 3095-3100, 2013
A Pan-Cancer Analysis Reveals High-Frequency Genetic Alterations in Mediators of Signaling by the TGF-β Superfamily
A Korkut, S Zaidi, RS Kanchi, S Rao, NR Gough, A Schultz, X Li, ...
Cell systems, 2018
Mechanistic modeling of aberrant energy metabolism in human disease
V Sangar, JA Eddy, E Simeonidis, ND Price
Frontiers in physiology 3, 2012
Network reconstruction and systems analysis of plant cell wall deconstruction by Neurospora crassa
A Samal, JP Craig, ST Coradetti, JP Benz, JA Eddy, ND Price, NL Glass
Biotechnology for biofuels 10 (1), 225, 2017
Single-cell RNA sequencing reveals expanded clones of islet antigen-reactive CD4+ T cells in peripheral blood of subjects with type 1 diabetes
K Cerosaletti, F Barahmand-pour-Whitman, J Yang, HA DeBerg, ...
The Journal of Immunology 199 (1), 323-335, 2017
Graphics processing unit implementations of relative expression analysis algorithms enable dramatic computational speedup
AT Magis, JC Earls, YH Ko, JA Eddy, ND Price
Bioinformatics 27 (6), 872-873, 2011
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