Promise and reality of systems biology in elucidating cellular behavior: Studying global regulation in yeast

Maciek R. Antoniewicz , Gregory Stephanopoulos , Jens B. Nielsen , Joel F. Moxley
2008 AIChE Annual Meeting, AIChE 100; Philadelphia, PA; United States; 16 November 2008 through 21 November 2008

2008
2019
Transcriptional repression of IFNβ1 by ATF2 confers melanoma resistance to therapy

E Lau , J Sedy , C Sander , M A Shaw
Oncogene 34 ( 46) 5739 -5748

14
2015
On entropy and information in gene interaction networks.

ZS Wallace , Sara Brin Rosenthal , Kathleen M Fisch , Trey Ideker
Bioinformatics 35 ( 5) 815 -822

7
2019
SAE2 AND PPH3 COOPERATE TO PROMOTE DNA REPAIR AND CHECKPOINT RECOVERy

Aude Guénolé , Rohith Srivas , Kees Vreeken , Trey Ideker

IRC21 IS A GENERAL RESPONSE FACTOR IN CHECKPOINT CONTROL, REPAIR AND GENOME STAbILITy

Aude Guénolé , Rohith Srivas , Kees Vreeken , Trey Ideker

NeddylatioN affects cell cycle coNtrol aNd geNome iNtegrity

Aude Guénolé , Rohith Srivas , Kees Vreeken , Trey Ideker

Expression analysis of RNA

M Bittner , R Butow , J DeRisi , M Diehn
DNA Microarrays: a molecular cloning manual 101 288 -288

21
2003
Thorsson V, Ranish JA, Christmas R, Buhler J, Eng JK, Bumgarner R, Goodlett DR, Aebersold R, and Hood L

T Ideker
Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 292 929 -934

10
2001
Hybridization and posthybridization washing

T Ideker , S Ybarra , S Grimmond
DNA microarrays, 1st ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY 228 -239

9
2003
Science2001, 292, 929− 934

T Ideker , V Thorsson , JA Ranish , R Christmas
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5
HTRA1 regulates angiogenesis through TGF-beta family member GDF6

L Zhang , SL Lim , H Du , M Zhang
J Biol Chem 287 ( 2) 1520 -6

3
2011
NDEx IQuery: a multi-method network gene set analysis leveraging the Network Data Exchange

RT Pillich , J Chen , C Churas , D Fong
bioRxiv 2022.10. 24.513552 -2022.10. 24.513552

1
2022
Genome-Wide Dynamic Evaluation of the UV-Induced DNA Damage Response.

MH Michaca , EN Silva , T Ideker , E Winzeler
MOLECULAR BIOLOGY OF THE CELL 29 ( 26)

2018
Linking transcriptional regulation and high resolution metabolic fluxes in yeast modulated by the global regulator Gcn4p

JF Moxley , MC Jewett , MR Antoniewicz , SG Villas-Boas
Proceedings of the National Academy of Sciences 106 ( 16) 6477 -6482

2009
Integrative genomics analyses of molecular networks in cystic fibrosis

B Tanasa , A Su , T Ideker , W Balch
PEDIATRIC PULMONOLOGY 222 -222

2007
Discovery of function by comparitive network analysis

T Ideker , S Suthram
MOLECULAR BIOLOGY OF THE CELL 15 122A -122A

2004
Damage-recovery hot spots identified by genomic phenotyping and localization mapping

TJ Begley , AS Rosenbach , T Ideker , LD Samson
ENVIRONMENTAL AND MOLECULAR MUTAGENESIS 44 ( 3) 188 -188

2004