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Results: 1 to 20 of 139

1.

The Cancer Cell Map Initiative: Defining the Hallmark Networks of Cancer.

Krogan NJ, Lippman S, Agard DA, Ashworth A, Ideker T.

Mol Cell. 2015 May 21;58(4):690-698. doi: 10.1016/j.molcel.2015.05.008. Review.

PMID:
26000852
2.

Combined TP53 mutation/3p loss correlates with decreased radiosensitivity and increased matrix-metalloproteinase activity in head and neck carcinoma.

Raju SC, Hauff SJ, Lemieux AJ, Orosco RK, Gross AM, Nguyen LT, Savariar E, Moss W, Whitney M, Cohen EE, Lippman SM, Tsien RY, Ideker T, Advani SJ, Nguyen QT.

Oral Oncol. 2015 May;51(5):470-5. doi: 10.1016/j.oraloncology.2015.01.014. Epub 2015 Feb 27.

PMID:
25735654
3.

Transcriptional repression of IFNβ1 by ATF2 confers melanoma resistance to therapy.

Lau E, Sedy J, Sander C, Shaw MA, Feng Y, Scortegagna M, Claps G, Robinson S, Cheng P, Srivas R, Soonthornvacharin S, Ideker T, Bosenberg M, Gonzalez R, Robinson W, Chanda SK, Ware C, Dummer R, Hoon D, Kirkwood JM, Ronai ZA.

Oncogene. 2015 Mar 2. doi: 10.1038/onc.2015.22. [Epub ahead of print]

PMID:
25728676
4.

The Cytoscape app article collection.

Pico AR, Bader GD, Demchak B, Guitart Pla O, Hull T, Longabaugh W, Lopes C, Lotia S, Molenaar P, Montojo J, Morris JH, Ono K, Schwikowski B, Welker D, Ideker T.

F1000Res. 2014 Jul 1;3:138. doi: 10.12688/f1000research.4642.1. eCollection 2014.

5.

Phosphorylation of LC3 by the Hippo kinases STK3/STK4 is essential for autophagy.

Wilkinson DS, Jariwala JS, Anderson E, Mitra K, Meisenhelder J, Chang JT, Ideker T, Hunter T, Nizet V, Dillin A, Hansen M.

Mol Cell. 2015 Jan 8;57(1):55-68. doi: 10.1016/j.molcel.2014.11.019. Epub 2014 Dec 24.

PMID:
25544559
6.

Yeast PP4 interacts with ATR homolog Ddc2-Mec1 and regulates checkpoint signaling.

Hustedt N, Seeber A, Sack R, Tsai-Pflugfelder M, Bhullar B, Vlaming H, van Leeuwen F, Guénolé A, van Attikum H, Srivas R, Ideker T, Shimada K, Gasser SM.

Mol Cell. 2015 Jan 22;57(2):273-89. doi: 10.1016/j.molcel.2014.11.016. Epub 2014 Dec 18.

PMID:
25533186
7.

Cytoscape tools for the web age: D3.js and Cytoscape.js exporters.

Ono K, Demchak B, Ideker T.

Version 2. F1000Res. 2014 Jul 1 [revised 2014 Oct 28];3:143. doi: 10.12688/f1000research.4510.2. eCollection 2014.

8.

Cytoscape: the network visualization tool for GenomeSpace workflows.

Demchak B, Hull T, Reich M, Liefeld T, Smoot M, Ideker T, Mesirov JP.

Version 2. F1000Res. 2014 Jul 1 [revised 2014 Aug 26];3:151. doi: 10.12688/f1000research.4492.2. eCollection 2014.

9.

Mitochondria, energetics, epigenetics, and cellular responses to stress.

Shaughnessy DT, McAllister K, Worth L, Haugen AC, Meyer JN, Domann FE, Van Houten B, Mostoslavsky R, Bultman SJ, Baccarelli AA, Begley TJ, Sobol RW, Hirschey MD, Ideker T, Santos JH, Copeland WC, Tice RR, Balshaw DM, Tyson FL.

Environ Health Perspect. 2014 Dec;122(12):1271-8. doi: 10.1289/ehp.1408418. Epub 2014 Aug 15.

10.

Matrix-metalloproteinases in head and neck carcinoma-cancer genome atlas analysis and fluorescence imaging in mice.

Hauff SJ, Raju SC, Orosco RK, Gross AM, Diaz-Perez JA, Savariar E, Nashi N, Hasselman J, Whitney M, Myers JN, Lippman SM, Tsien RY, Ideker T, Nguyen QT.

Otolaryngol Head Neck Surg. 2014 Oct;151(4):612-8. doi: 10.1177/0194599814545083. Epub 2014 Aug 4.

PMID:
25091190
11.

Multi-tiered genomic analysis of head and neck cancer ties TP53 mutation to 3p loss.

Gross AM, Orosco RK, Shen JP, Egloff AM, Carter H, Hofree M, Choueiri M, Coffey CS, Lippman SM, Hayes DN, Cohen EE, Grandis JR, Nguyen QT, Ideker T.

Nat Genet. 2014 Sep;46(9):939-43. doi: 10.1038/ng.3051. Epub 2014 Aug 3.

12.

Proteome-wide remodeling of protein location and function by stress.

Lee K, Sung MK, Kim J, Kim K, Byun J, Paik H, Kim B, Huh WK, Ideker T.

Proc Natl Acad Sci U S A. 2014 Jul 29;111(30):E3157-66. doi: 10.1073/pnas.1318881111. Epub 2014 Jul 15.

13.

Inferring gene ontologies from pairwise similarity data.

Kramer M, Dutkowski J, Yu M, Bafna V, Ideker T.

Bioinformatics. 2014 Jun 15;30(12):i34-42. doi: 10.1093/bioinformatics/btu282.

14.

An integrated map of HIV-human protein complexes that facilitate viral infection.

Emig-Agius D, Olivieri K, Pache L, Shih HL, Pustovalova O, Bessarabova M, Young JA, Chanda SK, Ideker T.

PLoS One. 2014 May 9;9(5):e96687. doi: 10.1371/journal.pone.0096687. eCollection 2014.

15.

Rac2 controls tumor growth, metastasis and M1-M2 macrophage differentiation in vivo.

Joshi S, Singh AR, Zulcic M, Bao L, Messer K, Ideker T, Dutkowski J, Durden DL.

PLoS One. 2014 Apr 25;9(4):e95893. doi: 10.1371/journal.pone.0095893. eCollection 2014.

16.

Siri of the cell: what biology could learn from the iPhone.

Carvunis AR, Ideker T.

Cell. 2014 Apr 24;157(3):534-8. doi: 10.1016/j.cell.2014.03.009.

17.

Exome sequencing links corticospinal motor neuron disease to common neurodegenerative disorders.

Novarino G, Fenstermaker AG, Zaki MS, Hofree M, Silhavy JL, Heiberg AD, Abdellateef M, Rosti B, Scott E, Mansour L, Masri A, Kayserili H, Al-Aama JY, Abdel-Salam GM, Karminejad A, Kara M, Kara B, Bozorgmehri B, Ben-Omran T, Mojahedi F, Mahmoud IG, Bouslam N, Bouhouche A, Benomar A, Hanein S, Raymond L, Forlani S, Mascaro M, Selim L, Shehata N, Al-Allawi N, Bindu PS, Azam M, Gunel M, Caglayan A, Bilguvar K, Tolun A, Issa MY, Schroth J, Spencer EG, Rosti RO, Akizu N, Vaux KK, Johansen A, Koh AA, Megahed H, Durr A, Brice A, Stevanin G, Gabriel SB, Ideker T, Gleeson JG.

Science. 2014 Jan 31;343(6170):506-11. doi: 10.1126/science.1247363.

18.

Development of ultra-high-density screening tools for microbial "omics".

Bean GJ, Jaeger PA, Bahr S, Ideker T.

PLoS One. 2014 Jan 21;9(1):e85177. doi: 10.1371/journal.pone.0085177. eCollection 2014.

19.

A UV-induced genetic network links the RSC complex to nucleotide excision repair and shows dose-dependent rewiring.

Srivas R, Costelloe T, Carvunis AR, Sarkar S, Malta E, Sun SM, Pool M, Licon K, van Welsem T, van Leeuwen F, McHugh PJ, van Attikum H, Ideker T.

Cell Rep. 2013 Dec 26;5(6):1714-24. doi: 10.1016/j.celrep.2013.11.035. Epub 2013 Dec 19.

20.

NeXO Web: the NeXO ontology database and visualization platform.

Dutkowski J, Ono K, Kramer M, Yu M, Pratt D, Demchak B, Ideker T.

Nucleic Acids Res. 2014 Jan;42(Database issue):D1269-74. doi: 10.1093/nar/gkt1192. Epub 2013 Nov 23.

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