-
2
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
1239896 16199517 10.1073/pnas.0506580102
-
Subramanian A Tamayo P Mootha VK Mukherjee S Ebert BL Gillette MA Paulovich A Pomeroy SL Golub TR Lander ES Mesirov JP Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles Proc Natl Acad Sci USA 2005, 102(43):15545-15550. 1239896 16199517 10.1073/pnas.0506580102
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, Issue.43
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
Mukherjee, S.4
Ebert, B.L.5
Gillette, M.A.6
Paulovich, A.7
Pomeroy, S.L.8
Golub, T.R.9
Lander, E.S.10
Mesirov, J.P.11
-
3
-
-
25444502609
-
PAGE: Parametric analysis of gene set enrichment
-
1183189 15941488 10.1186/1471-2105-6-144
-
Kim SY Volsky DJ PAGE: Parametric analysis of gene set enrichment BMC Bioinformatics 2005, 6:144. 1183189 15941488 10.1186/1471-2105-6-144
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 144
-
-
Kim, S.Y.1
Volsky, D.J.2
-
4
-
-
34547840192
-
GAzer: Gene Set Analyzer
-
Jul 1; 10.1093/bioinformatics/btm144
-
Kim SB Yang S Kim SK Kim SC Woo HG Volsky DJ Kim SY Chu IS GAzer: Gene Set Analyzer Bionformatics 23, 13:1697-9, 2007 Jul 1; 10.1093/ bioinformatics/btm144
-
(2007)
Bionformatics
, vol.23
, pp. 1697-1699
-
-
Kim, S.B.1
Yang, S.2
Kim, S.K.3
Kim, S.C.4
Woo, H.G.5
Volsky, D.J.6
Kim, S.Y.7
Chu, I.S.8
-
5
-
-
43149116763
-
Gene-set approach for expression pattern analysis
-
10.1093/bib/bbn001 18202032
-
Nam D Kim S-Y Gene-set approach for expression pattern analysis Briefings in Bioinformatics 2008, 9(3):189-197. 10.1093/bib/bbn001 18202032
-
(2008)
Briefings in Bioinformatics
, vol.9
, Issue.3
, pp. 189-197
-
-
Nam, D.1
Kim, S.-Y.2
-
6
-
-
33749335282
-
The connectivity map: Using gene-expression signatures to connect small molecules, genes, and disease
-
10.1126/science.1132939 17008526
-
Lamb J Crawford ED Peck D Modell JW Blat IC Wrobel MJ Lerner J Brunet JP Subramanian A Ross KN Reich M Hieronymus H Wei G Armstrong SA Haggarty SJ Clemons PA Wei R Carr SA Lander ES Golub TR The connectivity map: using gene-expression signatures to connect small molecules, genes, and disease Science 2006, 313(5795):1929-1935. 10.1126/science.1132939 17008526
-
(2006)
Science
, vol.313
, Issue.5795
, pp. 1929-1935
-
-
Lamb, J.1
Crawford, E.D.2
Peck, D.3
Modell, J.W.4
Blat, I.C.5
Wrobel, M.J.6
Lerner, J.7
Brunet, J.P.8
Subramanian, A.9
Ross, K.N.10
Reich, M.11
Hieronymus, H.12
Wei, G.13
Armstrong, S.A.14
Haggarty, S.J.15
Clemons, P.A.16
Wei, R.17
Carr, S.A.18
Lander, E.S.19
Golub, T.R.20
more..
-
7
-
-
35348890683
-
On testing the significance of sets of genes
-
10.1214/07-AOAS101
-
Efron B Tibshirani R On testing the significance of sets of genes Annals of Applied Statistics 2007, 1(1):107-129. 10.1214/07-AOAS101
-
(2007)
Annals of Applied Statistics
, vol.1
, Issue.1
, pp. 107-129
-
-
Efron, B.1
Tibshirani, R.2
-
8
-
-
0030585734
-
Evaluation of gene structure prediction programs
-
10.1006/geno.1996.0298 8786136
-
Burset M Guigo R Evaluation of gene structure prediction programs Genomics 1996, 34(3):353-367. 10.1006/geno.1996.0298 8786136
-
(1996)
Genomics
, vol.34
, Issue.3
, pp. 353-367
-
-
Burset, M.1
Guigo, R.2
-
9
-
-
1242341923
-
Incipient Alzheimer's disease: Microarray correlation analyses reveal major transcriptional and tumor suppressor responses
-
2004 Feb 17; 357071 14769913 10.1073/pnas.0308512100
-
Blalock EM Geddes JW Chen KC Porter NM Markesbery WR Landfield PW Incipient Alzheimer's disease: Microarray correlation analyses reveal major transcriptional and tumor suppressor responses Proc Natl Acad Sci USA 2004, 101(7):2173-8. 2004 Feb 17; 357071 14769913 10.1073/ pnas.0308512100
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, Issue.7
, pp. 2173-2178
-
-
Blalock, E.M.1
Geddes, J.W.2
Chen, K.C.3
Porter, N.M.4
Markesbery, W.R.5
Landfield, P.W.6
-
10
-
-
0012505191
-
Computational method for reducing variance with Affymetrix microarrays
-
Comparative Study. 126253 12204100 10.1186/1471-2105-3-23
-
Welle S Brooks AI Thornton CA Computational method for reducing variance with Affymetrix microarrays BMC Bioinformatics 2002, 3:23. Comparative Study. 126253 12204100 10.1186/1471-2105-3-23
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 23
-
-
Welle, S.1
Brooks, A.I.2
Thornton, C.A.3
-
11
-
-
0035827588
-
Improved statistical inference from DNA microarray data using analysis of variance and a Bayesian statistical framework. Analysis of global gene expression in Escherichia coli K12
-
10.1074/jbc.M010192200 11259426
-
Long AD Mangalam HJ Chan BY Tolleri L Hatfield GW Baldi P Improved statistical inference from DNA microarray data using analysis of variance and a Bayesian statistical framework. Analysis of global gene expression in Escherichia coli K12 J Biol Chem 2001, 276(23):19937-19944. 10.1074/jbc.M010192200 11259426
-
(2001)
J Biol Chem
, vol.276
, Issue.23
, pp. 19937-19944
-
-
Long, A.D.1
Mangalam, H.J.2
Chan, B.Y.3
Tolleri, L.4
Hatfield, G.W.5
Baldi, P.6
-
12
-
-
33846617322
-
A comparison of statistical tests for detecting differential expression using affymetrix oligonucleotide microarrays
-
10.1089/omi.2006.10.555 17233564
-
Vardhanabhuti S Blakemore SJ Clark SM Ghosh S Stephens RJ Rajagopalan D A comparison of statistical tests for detecting differential expression using affymetrix oligonucleotide microarrays OMICS 2006, 10(4):555-566. 10.1089/omi.2006.10.555 17233564
-
(2006)
OMICS
, vol.10
, Issue.4
, pp. 555-566
-
-
Vardhanabhuti, S.1
Blakemore, S.J.2
Clark, S.M.3
Ghosh, S.4
Stephens, R.J.5
Rajagopalan, D.6
-
13
-
-
0035942271
-
SSignificance analysis of microarrays applied to the ionizing radiation response
-
33173 11309499 10.1073/pnas.091062498
-
Tusher VG Tibshirani R Chu G SSignificance analysis of microarrays applied to the ionizing radiation response Proc Natl Acad Sci USA 2001, 98:5116-5121. 33173 11309499 10.1073/pnas.091062498
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 5116-5121
-
-
Tusher, V.G.1
Tibshirani, R.2
Chu, G.3
-
14
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium
-
10.1038/75556 10802651
-
Ashburner M Ball CA Blake JA Botstein D Butler H Cherry JM Davis AP Dolinski K Dwight SS Eppig JT Harris MA Hill DP Issel-Tarver L Kasarskis A Lewis S Matese JC Richardson JE Ringwald M Rubin GM Sherlock G Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium Nat Genet 2000, 25(1):25-29. 10.1038/75556 10802651
-
(2000)
Nat Genet
, vol.25
, Issue.1
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
15
-
-
0036578644
-
GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways
-
10.1038/ng0502-19 11984561
-
Dahlquist KD Salomonis N Vranizan K Lawlor SC Conklin BR GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways Nat Genet 2002, 31(1):19-20. 10.1038/ng0502-19 11984561
-
(2002)
Nat Genet
, vol.31
, Issue.1
, pp. 19-20
-
-
Dahlquist, K.D.1
Salomonis, N.2
Vranizan, K.3
Lawlor, S.C.4
Conklin, B.R.5
-
16
-
-
14844326483
-
Computational prediction of human metabolic pathways from the complete human genome
-
549063 15642094 10.1186/gb-2004-6-1-r2
-
Romero P Wagg J Green ML Kaiser D Krummenacker M Karp PD Computational prediction of human metabolic pathways from the complete human genome Genome Biol 2005, 6(1):R2. 549063 15642094 10.1186/gb-2004-6-1-r2
-
(2005)
Genome Biol
, vol.6
, Issue.1
-
-
Romero, P.1
Wagg, J.2
Green, M.L.3
Kaiser, D.4
Krummenacker, M.5
Karp, P.D.6
-
17
-
-
0037208166
-
TRANSFAC: Transcriptional regulation, from patterns to profiles
-
Jan 1; 165555 12520026 10.1093/nar/gkg108
-
Matys V Fricke E Geffers R Gössling E Haubrock M Hehl R Hornischer K Karas D Kel AE Kel-Margoulis OV Kloos DU Land S Lewicki-Potapov B Michael H Münch R Reuter I Rotert S Saxel H Scheer M Thiele S Wingender E TRANSFAC: Transcriptional regulation, from patterns to profiles Nucleic Acids Res 31, 1:374-8. 2003 Jan 1; 165555 12520026 10.1093/nar/gkg108
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 374-378
-
-
Matys, V.1
Fricke, E.2
Geffers, R.3
Gössling, E.4
Haubrock, M.5
Hehl, R.6
Hornischer, K.7
Karas, D.8
Kel, A.E.9
Kel-Margoulis, O.V.10
Kloos, D.U.11
Land, S.12
Lewicki-Potapov, B.13
Michael, H.14
Münch, R.15
Reuter, I.16
Rotert, S.17
Saxel, H.18
Scheer, M.19
Thiele, S.20
Wingender, E.21
more..
-
19
-
-
33747884345
-
Gene expression omnibus: Microarray data storage, submission, retrieval, and analysis
-
1619900 16939800 10.1016/S0076-6879(06)11019-8
-
Barrett T Edgar R Gene expression omnibus: Microarray data storage, submission, retrieval, and analysis Methods Enzymol 2006, 411:352-369. 1619900 16939800 10.1016/S0076-6879(06)11019-8
-
(2006)
Methods Enzymol
, vol.411
, pp. 352-369
-
-
Barrett, T.1
Edgar, R.2
-
20
-
-
33846064113
-
NCBI GEO: Mining tens of millions of expression profiles-database and tools update
-
(Database) 10.1093/nar/gkl887
-
Barrett T Troup DB Wilhite SE Ledoux P Rudnev D Evangelista C Kim IF Soboleva A Tomashevsky M Edgar R NCBI GEO: Mining tens of millions of expression profiles-database and tools update Nucleic Acids Res 2007, 35(Database):760-765. 10.1093/nar/gkl887
-
(2007)
Nucleic Acids Res
, pp. 760-765
-
-
Barrett, T.1
Troup, D.B.2
Wilhite, S.E.3
Ledoux, P.4
Rudnev, D.5
Evangelista, C.6
Kim, I.F.7
Soboleva, A.8
Tomashevsky, M.9
Edgar, R.10
-
22
-
-
33645772227
-
Neuronal and glioma-derived stem cell factor induces angiogenesis within the brain
-
10.1016/j.ccr.2006.03.003 16616334
-
Sun L Hui AM Su Q Vortmeyer A Kotliarov Y Pastorino S Passanti A Menon J Walling J Bailey R Rosenblum M Mikkelsen T Fine HA Neuronal and glioma-derived stem cell factor induces angiogenesis within the brain Cancer Cell 2006, 9(4):287-300. 10.1016/j.ccr.2006.03.003 16616334
-
(2006)
Cancer Cell
, vol.9
, Issue.4
, pp. 287-300
-
-
Sun, L.1
Hui, A.M.2
Su, Q.3
Vortmeyer, A.4
Kotliarov, Y.5
Pastorino, S.6
Passanti, A.7
Menon, J.8
Walling, J.9
Bailey, R.10
Rosenblum, M.11
Mikkelsen, T.12
Fine, H.A.13
-
23
-
-
33846917548
-
GRB14, GPD1, and GDF8 as potential network collaborators in weight loss-induced improvements in insulin action in human skeletal muscle
-
2006 Oct 11; 16849634
-
Park JJ Berggren JR Hulver MW Houmard JA Hoffman EP GRB14, GPD1, and GDF8 as potential network collaborators in weight loss-induced improvements in insulin action in human skeletal muscle Physiol Genomics 27, 2:114-21. 2006 Oct 11; 16849634
-
Physiol Genomics
, vol.27
, pp. 114-121
-
-
Park, J.J.1
Berggren, J.R.2
Hulver, M.W.3
Houmard, J.A.4
Hoffman, E.P.5
|