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Results: 1 to 20 of 26

1.

Individualized systems medicine strategy to tailor treatments for patients with chemorefractory acute myeloid leukemia.

Pemovska T, Kontro M, Yadav B, Edgren H, Eldfors S, Szwajda A, Almusa H, Bespalov MM, Ellonen P, Elonen E, Gjertsen BT, Karjalainen R, Kulesskiy E, Lagström S, Lehto A, Lepistö M, Lundán T, Majumder MM, Marti JM, Mattila P, Murumägi A, Mustjoki S, Palva A, Parsons A, Pirttinen T, Rämet ME, Suvela M, Turunen L, Västrik I, Wolf M, Knowles J, Aittokallio T, Heckman CA, Porkka K, Kallioniemi O, Wennerberg K.

Cancer Discov. 2013 Dec;3(12):1416-29. doi: 10.1158/2159-8290.CD-13-0350. Epub 2013 Sep 20.

PMID:
24056683
[PubMed - in process]
2.

The BioPAX community standard for pathway data sharing.

Demir E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P, Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z, Jimenez-Jacinto V, Joshi-Tope G, Kandasamy K, Lopez-Fuentes AC, Mi H, Pichler E, Rodchenkov I, Splendiani A, Tkachev S, Zucker J, Gopinath G, Rajasimha H, Ramakrishnan R, Shah I, Syed M, Anwar N, Babur O, Blinov M, Brauner E, Corwin D, Donaldson S, Gibbons F, Goldberg R, Hornbeck P, Luna A, Murray-Rust P, Neumann E, Ruebenacker O, Samwald M, van Iersel M, Wimalaratne S, Allen K, Braun B, Whirl-Carrillo M, Cheung KH, Dahlquist K, Finney A, Gillespie M, Glass E, Gong L, Haw R, Honig M, Hubaut O, Kane D, Krupa S, Kutmon M, Leonard J, Marks D, Merberg D, Petri V, Pico A, Ravenscroft D, Ren L, Shah N, Sunshine M, Tang R, Whaley R, Letovksy S, Buetow KH, Rzhetsky A, Schachter V, Sobral BS, Dogrusoz U, McWeeney S, Aladjem M, Birney E, Collado-Vides J, Goto S, Hucka M, Le Novère N, Maltsev N, Pandey A, Thomas P, Wingender E, Karp PD, Sander C, Bader GD.

Nat Biotechnol. 2010 Sep;28(9):935-42. doi: 10.1038/nbt.1666. Epub 2010 Sep 9. Erratum in: Nat Biotechnol. 2012 Apr;30(4):365. Reubenacker, Oliver [corrected to Ruebenacker, Oliver]. Nat Biotechnol. 2010 Dec;28(12):1308.

PMID:
20829833
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Reactome knowledgebase of human biological pathways and processes.

Matthews L, Gopinath G, Gillespie M, Caudy M, Croft D, de Bono B, Garapati P, Hemish J, Hermjakob H, Jassal B, Kanapin A, Lewis S, Mahajan S, May B, Schmidt E, Vastrik I, Wu G, Birney E, Stein L, D'Eustachio P.

Nucleic Acids Res. 2009 Jan;37(Database issue):D619-22. doi: 10.1093/nar/gkn863. Epub 2008 Nov 3.

PMID:
18981052
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Arabidopsis reactome: a foundation knowledgebase for plant systems biology.

Tsesmetzis N, Couchman M, Higgins J, Smith A, Doonan JH, Seifert GJ, Schmidt EE, Vastrik I, Birney E, Wu G, D'Eustachio P, Stein LD, Morris RJ, Bevan MW, Walsh SV.

Plant Cell. 2008 Jun;20(6):1426-36. doi: 10.1105/tpc.108.057976. Epub 2008 Jun 30. No abstract available.

PMID:
18591350
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Installing a local copy of the Reactome Web site and database.

Vastrik I.

Curr Protoc Bioinformatics. 2008 Mar;Chapter 9:Unit 9.10. doi: 10.1002/0471250953.bi0910s21.

PMID:
18428688
[PubMed - indexed for MEDLINE]
6.

Reactome: a knowledge base of biologic pathways and processes.

Vastrik I, D'Eustachio P, Schmidt E, Gopinath G, Croft D, de Bono B, Gillespie M, Jassal B, Lewis S, Matthews L, Wu G, Birney E, Stein L.

Genome Biol. 2007;8(3):R39. Erratum in: Genome Biol. 2009 Feb 4;10(2):402. Joshi-Tope, Geeta [removed].

PMID:
17367534
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Patterns of somatic mutation in human cancer genomes.

Greenman C, Stephens P, Smith R, Dalgliesh GL, Hunter C, Bignell G, Davies H, Teague J, Butler A, Stevens C, Edkins S, O'Meara S, Vastrik I, Schmidt EE, Avis T, Barthorpe S, Bhamra G, Buck G, Choudhury B, Clements J, Cole J, Dicks E, Forbes S, Gray K, Halliday K, Harrison R, Hills K, Hinton J, Jenkinson A, Jones D, Menzies A, Mironenko T, Perry J, Raine K, Richardson D, Shepherd R, Small A, Tofts C, Varian J, Webb T, West S, Widaa S, Yates A, Cahill DP, Louis DN, Goldstraw P, Nicholson AG, Brasseur F, Looijenga L, Weber BL, Chiew YE, DeFazio A, Greaves MF, Green AR, Campbell P, Birney E, Easton DF, Chenevix-Trench G, Tan MH, Khoo SK, Teh BT, Yuen ST, Leung SY, Wooster R, Futreal PA, Stratton MR.

Nature. 2007 Mar 8;446(7132):153-8.

PMID:
17344846
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Reactome: a knowledgebase of biological pathways.

Joshi-Tope G, Gillespie M, Vastrik I, D'Eustachio P, Schmidt E, de Bono B, Jassal B, Gopinath GR, Wu GR, Matthews L, Lewis S, Birney E, Stein L.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D428-32.

PMID:
15608231
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

The Genome Knowledgebase: a resource for biologists and bioinformaticists.

Joshi-Tope G, Vastrik I, Gopinath GR, Matthews L, Schmidt E, Gillespie M, D'Eustachio P, Jassal B, Lewis S, Wu G, Birney E, Stein L.

Cold Spring Harb Symp Quant Biol. 2003;68:237-43. No abstract available.

PMID:
15338623
[PubMed - indexed for MEDLINE]
10.

Ensembl 2002: accommodating comparative genomics.

Clamp M, Andrews D, Barker D, Bevan P, Cameron G, Chen Y, Clark L, Cox T, Cuff J, Curwen V, Down T, Durbin R, Eyras E, Gilbert J, Hammond M, Hubbard T, Kasprzyk A, Keefe D, Lehvaslaiho H, Iyer V, Melsopp C, Mongin E, Pettett R, Potter S, Rust A, Schmidt E, Searle S, Slater G, Smith J, Spooner W, Stabenau A, Stalker J, Stupka E, Ureta-Vidal A, Vastrik I, Birney E.

Nucleic Acids Res. 2003 Jan 1;31(1):38-42.

PMID:
12519943
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Screening for microsatellite instability target genes in colorectal cancers.

Vilkki S, Launonen V, Karhu A, Sistonen P, Västrik I, Aaltonen LA.

J Med Genet. 2002 Nov;39(11):785-9.

PMID:
12414815
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

[Comparison of genomes and phenotypes between species].

Västrik I, Mäkelä T.

Duodecim. 2002;118(11):1167-75. Review. Finnish. No abstract available.

PMID:
12239850
[PubMed - indexed for MEDLINE]
13.

The Ensembl genome database project.

Hubbard T, Barker D, Birney E, Cameron G, Chen Y, Clark L, Cox T, Cuff J, Curwen V, Down T, Durbin R, Eyras E, Gilbert J, Hammond M, Huminiecki L, Kasprzyk A, Lehvaslaiho H, Lijnzaad P, Melsopp C, Mongin E, Pettett R, Pocock M, Potter S, Rust A, Schmidt E, Searle S, Slater G, Smith J, Spooner W, Stabenau A, Stalker J, Stupka E, Ureta-Vidal A, Vastrik I, Clamp M.

Nucleic Acids Res. 2002 Jan 1;30(1):38-41.

PMID:
11752248
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Sema3A-induced growth-cone collapse is mediated by Rac1 amino acids 17-32.

Västrik I, Eickholt BJ, Walsh FS, Ridley A, Doherty P.

Curr Biol. 1999 Sep 23;9(18):991-8.

PMID:
10508610
[PubMed - indexed for MEDLINE]
Free Article
15.

Bmx tyrosine kinase is specifically expressed in the endocardium and the endothelium of large arteries.

Ekman N, Lymboussaki A, Västrik I, Sarvas K, Kaipainen A, Alitalo K.

Circulation. 1997 Sep 16;96(6):1729-32.

PMID:
9323053
[PubMed - indexed for MEDLINE]
Free Article
16.

Expression of Mad, an antagonist of Myc oncoprotein function, in differentiating keratinocytes during tumorigenesis of the skin.

Lymboussaki A, Kaipainen A, Hatva E, Västrik I, Jeskanen L, Jalkanen M, Werner S, Stenbäck F, Alitalo R.

Br J Cancer. 1996 Jun;73(11):1347-55.

PMID:
8645578
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Determination of sequences responsible for the differential regulation of Myc function by delta Max and Max.

Västrik I, Mäkelä TP, Koskinen PJ, Alitalo K.

Oncogene. 1995 Aug 3;11(3):553-60.

PMID:
7630640
[PubMed - indexed for MEDLINE]
18.

Expression of the mad gene during cell differentiation in vivo and its inhibition of cell growth in vitro.

Västrik I, Kaipainen A, Penttilä TL, Lymboussakis A, Alitalo R, Parvinen M, Alitalo K.

J Cell Biol. 1995 Mar;128(6):1197-208.

PMID:
7896882
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

c-Myc induces cellular susceptibility to the cytotoxic action of TNF-alpha.

Klefstrom J, Västrik I, Saksela E, Valle J, Eilers M, Alitalo K.

EMBO J. 1994 Nov 15;13(22):5442-50.

PMID:
7957110
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Max activity is affected by phosphorylation at two NH2-terminal sites.

Koskinen PJ, Västrik I, Mäkelä TP, Eisenman RN, Alitalo K.

Cell Growth Differ. 1994 Mar;5(3):313-20.

PMID:
8018564
[PubMed - indexed for MEDLINE]
Free Article

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