-
1
-
-
0033569406
-
Molecular classification of cancer: class discovery and class prediction by gene expression monitoring
-
10.1126/science.286.5439.531, 10521349
-
Golub TR, Slonim DK, Tamayo P, Huard C, Gaasenbeek M, Mesirov JP, Coller H, Loh ML, Downing JR, Caligiuri MA, Bloomfield CD, Lander ES. Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science 1999, 286(5439):531-7. 10.1126/science.286.5439.531, 10521349.
-
(1999)
Science
, vol.286
, Issue.5439
, pp. 531-537
-
-
Golub, T.R.1
Slonim, D.K.2
Tamayo, P.3
Huard, C.4
Gaasenbeek, M.5
Mesirov, J.P.6
Coller, H.7
Loh, M.L.8
Downing, J.R.9
Caligiuri, M.A.10
Bloomfield, C.D.11
Lander, E.S.12
-
2
-
-
0034616930
-
Functional discovery via a compendium of expression profiles
-
10.1016/S0092-8674(00)00015-5, 10929718
-
Hughes TR, Marton MJ, Jones AR, Roberts CJ, Stoughton R, Armour CD, Bennett HA, Coffey E, Dai H, He YD, Kidd MJ, King AM, Meyer MR, Slade D, Lum PY, Stepaniants SB, Shoemaker DD, Gachotte D, Chakraburtty K, Simon J, Bard M, Friend SH. Functional discovery via a compendium of expression profiles. Cell 2000, 102:109-26. 10.1016/S0092-8674(00)00015-5, 10929718.
-
(2000)
Cell
, vol.102
, pp. 109-126
-
-
Hughes, T.R.1
Marton, M.J.2
Jones, A.R.3
Roberts, C.J.4
Stoughton, R.5
Armour, C.D.6
Bennett, H.A.7
Coffey, E.8
Dai, H.9
He, Y.D.10
Kidd, M.J.11
King, A.M.12
Meyer, M.R.13
Slade, D.14
Lum, P.Y.15
Stepaniants, S.B.16
Shoemaker, D.D.17
Gachotte, D.18
Chakraburtty, K.19
Simon, J.20
Bard, M.21
Friend, S.H.22
more..
-
3
-
-
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):1929-35. 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..
-
4
-
-
47049105891
-
Discovery of agents that eradicate leukemia stem cells using an in silico screen of public gene expression data
-
10.1182/blood-2007-11-126003, 2424160, 18305216
-
Hassane DC, Guzman ML, Corbett C, Li X, Abboud R, Young F, Liesveld JL, Carroll M, Jordan CT. Discovery of agents that eradicate leukemia stem cells using an in silico screen of public gene expression data. Blood 2008, 111(12):5654-62. 10.1182/blood-2007-11-126003, 2424160, 18305216.
-
(2008)
Blood
, vol.111
, Issue.12
, pp. 5654-5662
-
-
Hassane, D.C.1
Guzman, M.L.2
Corbett, C.3
Li, X.4
Abboud, R.5
Young, F.6
Liesveld, J.L.7
Carroll, M.8
Jordan, C.T.9
-
5
-
-
70349330786
-
Disease signatures are robust across tissues and experiments
-
10.1038/msb.2009.66, 2758720, 19756046
-
Dudley JT, Tibshirani R, Deshpande T, Butte AJ. Disease signatures are robust across tissues and experiments. Mol Syst Biol 2009, 5:307. 10.1038/msb.2009.66, 2758720, 19756046.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 307
-
-
Dudley, J.T.1
Tibshirani, R.2
Deshpande, T.3
Butte, A.J.4
-
6
-
-
77649222972
-
Network-based elucidation of human disease similarities reveals common functional modules enriched for pluripotent drug targets
-
10.1371/journal.pcbi.1000662, 2816673, 20140234
-
Suthram S, Dudley JT, Chiang AP, Chen R, Hastie TJ, Butte AJ. Network-based elucidation of human disease similarities reveals common functional modules enriched for pluripotent drug targets. PLoS Comput Biol 2010, 6(2):e1000662. 10.1371/journal.pcbi.1000662, 2816673, 20140234.
-
(2010)
PLoS Comput Biol
, vol.6
, Issue.2
-
-
Suthram, S.1
Dudley, J.T.2
Chiang, A.P.3
Chen, R.4
Hastie, T.J.5
Butte, A.J.6
-
7
-
-
58149182724
-
NCBI GEO: archive for high-throughput functional genomic data
-
Database, 10.1093/nar/gkn764, 2686538, 18940857
-
Barrett T, Troup DB, Wilhite SE, Ledoux P, Rudnev D, Evangelista C, Kim IF, Soboleva A, Tomashevsky M, Marshall KA, Phillippy KH, Sherman PM, Muertter RN, Edgar R. NCBI GEO: archive for high-throughput functional genomic data. Nucleic Acids Res 2009, (37 Database):D885-90. 10.1093/nar/gkn764, 2686538, 18940857.
-
(2009)
Nucleic Acids Res
, Issue.37
-
-
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
Marshall, K.A.10
Phillippy, K.H.11
Sherman, P.M.12
Muertter, R.N.13
Edgar, R.14
-
8
-
-
58149204055
-
ArrayExpress update-from an archive of functional genomics experiments to the atlas of gene expression
-
Database, 10.1093/nar/gkn889, 2686529, 19015125
-
Parkinson H, Kapushesky M, Kolesnikov N, Rustici G, Shojatalab M, Abeygunawardena N, Berube H, Dylag M, Emam I, Farne A, Holloway E, Lukk M, Malone J, Mani R, Pilicheva E, Rayner TF, Rezwan F, Sharma A, Williams E, Bradley XZ, Adamusiak T, Brandizi M, Burdett T, Coulson R, Krestyaninova M, Kurnosov P, Maguire E, Neogi SG, Rocca-Serra P, Sansone SA, Sklyar N, Zhao M, Sarkans U, Brazma A. ArrayExpress update-from an archive of functional genomics experiments to the atlas of gene expression. Nucleic Acids Res 2009, (37 Database):D868-72. 10.1093/nar/gkn889, 2686529, 19015125.
-
(2009)
Nucleic Acids Res
, Issue.37
-
-
Parkinson, H.1
Kapushesky, M.2
Kolesnikov, N.3
Rustici, G.4
Shojatalab, M.5
Abeygunawardena, N.6
Berube, H.7
Dylag, M.8
Emam, I.9
Farne, A.10
Holloway, E.11
Lukk, M.12
Malone, J.13
Mani, R.14
Pilicheva, E.15
Rayner, T.F.16
Rezwan, F.17
Sharma, A.18
Williams, E.19
Bradley, X.Z.20
Adamusiak, T.21
Brandizi, M.22
Burdett, T.23
Coulson, R.24
Krestyaninova, M.25
Kurnosov, P.26
Maguire, E.27
Neogi, S.G.28
Rocca-Serra, P.29
Sansone, S.A.30
Sklyar, N.31
Zhao, M.32
Sarkans, U.33
Brazma, A.34
more..
-
9
-
-
58149199563
-
Implementation of GenePattern within the Stanford Microarray Database
-
Database, 10.1093/nar/gkn786, 2686537, 18953035
-
Hubble J, Demeter J, Jin H, Mao M, Nitzberg M, Reddy TBK, Wymore F, Zachariah ZK, Sherlock G, Ball CA. Implementation of GenePattern within the Stanford Microarray Database. Nucleic Acids Res 2009, (37 Database):D898-901. 10.1093/nar/gkn786, 2686537, 18953035.
-
(2009)
Nucleic Acids Res
, Issue.37
-
-
Hubble, J.1
Demeter, J.2
Jin, H.3
Mao, M.4
Nitzberg, M.5
Reddy, T.B.K.6
Wymore, F.7
Zachariah, Z.K.8
Sherlock, G.9
Ball, C.A.10
-
10
-
-
36448955001
-
CellMontage: similar expression profile search server
-
10.1093/bioinformatics/btm462, 17895274
-
Fujibuchi W, Kiseleva L, Taniguchi T, Harada H, Horton P. CellMontage: similar expression profile search server. Bioinformatics 2007, 23(22):3103-4. 10.1093/bioinformatics/btm462, 17895274.
-
(2007)
Bioinformatics
, vol.23
, Issue.22
, pp. 3103-3104
-
-
Fujibuchi, W.1
Kiseleva, L.2
Taniguchi, T.3
Harada, H.4
Horton, P.5
-
11
-
-
62349088493
-
GeneChaser: identifying all biological and clinical conditions in which genes of interest are differentially expressed
-
10.1186/1471-2105-9-548, 2629779, 19094235
-
Chen R, Mallelwar R, Thosar A, Venkatasubrahmanyam S, Butte AJ. GeneChaser: identifying all biological and clinical conditions in which genes of interest are differentially expressed. BMC Bioinformatics 2008, 9:548. 10.1186/1471-2105-9-548, 2629779, 19094235.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 548
-
-
Chen, R.1
Mallelwar, R.2
Thosar, A.3
Venkatasubrahmanyam, S.4
Butte, A.J.5
-
12
-
-
66349091744
-
Probabilistic retrieval and visualization of biologically relevant microarray experiments
-
10.1093/bioinformatics/btp215, 2687969, 19477980
-
Caldas J, Gehlenborg N, Faisal A, Brazma A, Kaski S. Probabilistic retrieval and visualization of biologically relevant microarray experiments. Bioinformatics 2009, 25(12):i145-53. 10.1093/bioinformatics/btp215, 2687969, 19477980.
-
(2009)
Bioinformatics
, vol.25
, Issue.12
-
-
Caldas, J.1
Gehlenborg, N.2
Faisal, A.3
Brazma, A.4
Kaski, S.5
-
13
-
-
75549085494
-
Gene expression atlas at the European bioinformatics institute
-
Database, 10.1093/nar/gkp936, 2808905, 19906730
-
Kapushesky M, Emam I, Holloway E, Kurnosov P, Zorin A, Malone J, Rustici G, Williams E, Parkinson H, Brazma A. Gene expression atlas at the European bioinformatics institute. Nucleic Acids Res 2010, (38 Database):D690-8. 10.1093/nar/gkp936, 2808905, 19906730.
-
(2010)
Nucleic Acids Res
, Issue.38
-
-
Kapushesky, M.1
Emam, I.2
Holloway, E.3
Kurnosov, P.4
Zorin, A.5
Malone, J.6
Rustici, G.7
Williams, E.8
Parkinson, H.9
Brazma, A.10
-
14
-
-
77951082777
-
Bayesian approach to transforming public gene expression repositories into disease diagnosis databases
-
10.1073/pnas.0912043107, 2872390, 20360561
-
Huang H, Liu CC, Zhou XJ. Bayesian approach to transforming public gene expression repositories into disease diagnosis databases. Proc Natl Acad Sci USA 2010, 107(15):6823-8. 10.1073/pnas.0912043107, 2872390, 20360561.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, Issue.15
, pp. 6823-6828
-
-
Huang, H.1
Liu, C.C.2
Zhou, X.J.3
-
15
-
-
35748950713
-
Exploring the functional landscape of gene expression: directed search of large microarray compendia
-
10.1093/bioinformatics/btm403, 17724061
-
Hibbs MA, Hess DC, Myers CL, Huttenhower C, Li K, Troyanskaya OG. Exploring the functional landscape of gene expression: directed search of large microarray compendia. Bioinformatics 2007, 23(20):2692-9. 10.1093/bioinformatics/btm403, 17724061.
-
(2007)
Bioinformatics
, vol.23
, Issue.20
, pp. 2692-2699
-
-
Hibbs, M.A.1
Hess, D.C.2
Myers, C.L.3
Huttenhower, C.4
Li, K.5
Troyanskaya, O.G.6
-
16
-
-
27344435774
-
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
-
10.1073/pnas.0506580102, 1239896, 16199517
-
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):15545-50. 10.1073/pnas.0506580102, 1239896, 16199517.
-
(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
-
17
-
-
29244448340
-
Microarray data analysis: from disarray to consolidation and consensus
-
10.1038/nrg1749, 16369572
-
Allison DB, Cui X, Page GP, Sabripour M. Microarray data analysis: from disarray to consolidation and consensus. Nat Rev Genet 2006, 7:55-65. 10.1038/nrg1749, 16369572.
-
(2006)
Nat Rev Genet
, vol.7
, pp. 55-65
-
-
Allison, D.B.1
Cui, X.2
Page, G.P.3
Sabripour, M.4
-
18
-
-
0035342091
-
Basic microarray analysis: grouping and feature reduction
-
10.1016/S0167-7799(01)01599-2, 11301132
-
Raychaudhuri S, Sutphin PD, Chang JT, Altman RB. Basic microarray analysis: grouping and feature reduction. Trends Biotechnol 2001, 19(5):189-93. 10.1016/S0167-7799(01)01599-2, 11301132.
-
(2001)
Trends Biotechnol
, vol.19
, Issue.5
, pp. 189-193
-
-
Raychaudhuri, S.1
Sutphin, P.D.2
Chang, J.T.3
Altman, R.B.4
-
19
-
-
37549029793
-
The properties of high-dimensional data spaces: implications for exploring gene and protein expression data
-
10.1038/nrc2294, 2238676, 18097463
-
Clarke R, Ressom HW, Wang A, Xuan J, Liu MC, Gehan EA, Wang Y. The properties of high-dimensional data spaces: implications for exploring gene and protein expression data. Nat Rev Cancer 2008, 8:37-49. 10.1038/nrc2294, 2238676, 18097463.
-
(2008)
Nat Rev Cancer
, vol.8
, pp. 37-49
-
-
Clarke, R.1
Ressom, H.W.2
Wang, A.3
Xuan, J.4
Liu, M.C.5
Gehan, E.A.6
Wang, Y.7
-
20
-
-
0034730140
-
Singular value decomposition for genome-wide expression data processing and modeling
-
10.1073/pnas.97.18.10101, 27718, 10963673
-
Alter O, Brown PO, Botstein D. Singular value decomposition for genome-wide expression data processing and modeling. Proc Natl Acad Sci USA 2000, 97(18):10101-6. 10.1073/pnas.97.18.10101, 27718, 10963673.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, Issue.18
, pp. 10101-10106
-
-
Alter, O.1
Brown, P.O.2
Botstein, D.3
-
21
-
-
0036166753
-
Linear modes of gene expression determined by independent component analysis
-
10.1093/bioinformatics/18.1.51, 11836211
-
Liebermeister W. Linear modes of gene expression determined by independent component analysis. Bioinformatics 2002, 18:51-60. 10.1093/bioinformatics/18.1.51, 11836211.
-
(2002)
Bioinformatics
, vol.18
, pp. 51-60
-
-
Liebermeister, W.1
-
22
-
-
35748932917
-
A review of feature selection techniques in bioinformatics
-
10.1093/bioinformatics/btm344, 17720704
-
Saeys Y, Inza I, Larrañaga P. A review of feature selection techniques in bioinformatics. Bioinformatics 2007, 23(19):2507-17. 10.1093/bioinformatics/btm344, 17720704.
-
(2007)
Bioinformatics
, vol.23
, Issue.19
, pp. 2507-2517
-
-
Saeys, Y.1
Inza, I.2
Larrañaga, P.3
-
23
-
-
34548400259
-
A systems biology approach for pathway level analysis
-
10.1101/gr.6202607, 1987343, 17785539
-
Draghici S, Khatri P, Tarca AL, Amin K, Done A, Voichita C, Georgescu C, Romero R. A systems biology approach for pathway level analysis. Genome Res 2007, 17(10):1537-45. 10.1101/gr.6202607, 1987343, 17785539.
-
(2007)
Genome Res
, vol.17
, Issue.10
, pp. 1537-1545
-
-
Draghici, S.1
Khatri, P.2
Tarca, A.L.3
Amin, K.4
Done, A.5
Voichita, C.6
Georgescu, C.7
Romero, R.8
-
24
-
-
60849135116
-
Integrative disease classification based on cross-platform microarray data
-
10.1186/1471-2105-10-S1-S25, 2648756, 19208125
-
Liu CC, Hu J, Kalakrishnan M, Huang H, Zhou XJ. Integrative disease classification based on cross-platform microarray data. BMC Bioinformatics 2009, 10(Suppl 1):S25. 10.1186/1471-2105-10-S1-S25, 2648756, 19208125.
-
(2009)
BMC Bioinformatics
, vol.10
, Issue.SUPPL 1
-
-
Liu, C.C.1
Hu, J.2
Kalakrishnan, M.3
Huang, H.4
Zhou, X.J.5
-
25
-
-
0037667290
-
Clustering gene-expression data with repeated measurements
-
10.1186/gb-2003-4-5-r34, 156590, 12734014
-
Yeung KY, Medvedovic M, Bumgarner RE. Clustering gene-expression data with repeated measurements. Genome Biol 2003, 4(5):R34. 10.1186/gb-2003-4-5-r34, 156590, 12734014.
-
(2003)
Genome Biol
, vol.4
, Issue.5
-
-
Yeung, K.Y.1
Medvedovic, M.2
Bumgarner, R.E.3
-
26
-
-
37049036087
-
Weighted analysis of general microarray experiments
-
2175522, 17937807
-
Sjögren A, Kristiansson E, Rudemo M, Nerman O. Weighted analysis of general microarray experiments. BMC Bioinformatics 2007, 8:387. 2175522, 17937807.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 387
-
-
Sjögren, A.1
Kristiansson, E.2
Rudemo, M.3
Nerman, O.4
-
27
-
-
78649334862
-
Independent component analysis: Mining microarray data for fundamental human gene modules
-
10.1016/j.jbi.2010.07.001, 20619355
-
Engreitz JM, Daigle BJ, Marshall JJ, Altman RB. Independent component analysis: Mining microarray data for fundamental human gene modules. J Biomed Inform 2010, 43:932-44. 10.1016/j.jbi.2010.07.001, 20619355.
-
(2010)
J Biomed Inform
, vol.43
, pp. 932-944
-
-
Engreitz, J.M.1
Daigle, B.J.2
Marshall, J.J.3
Altman, R.B.4
-
28
-
-
12344329357
-
Profiling gene expression during the differentiation and development of the murine embryonic gonad
-
10.1095/biolreprod.104.033696, 15496517
-
Small CL, Shima JE, Uzumcu M, Skinner MK, Griswold MD. Profiling gene expression during the differentiation and development of the murine embryonic gonad. Biol Reprod 2005, 72(2):492-501. 10.1095/biolreprod.104.033696, 15496517.
-
(2005)
Biol Reprod
, vol.72
, Issue.2
, pp. 492-501
-
-
Small, C.L.1
Shima, J.E.2
Uzumcu, M.3
Skinner, M.K.4
Griswold, M.D.5
-
29
-
-
33846829951
-
Sex determination and gonadal development in mammals
-
10.1152/physrev.00009.2006, 17237341
-
Wilhelm D, Palmer S, Koopman P. Sex determination and gonadal development in mammals. Physiol Rev 2007, 87:1-28. 10.1152/physrev.00009.2006, 17237341.
-
(2007)
Physiol Rev
, vol.87
, pp. 1-28
-
-
Wilhelm, D.1
Palmer, S.2
Koopman, P.3
-
30
-
-
33645381936
-
The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells
-
10.1038/ng1760, 16518401
-
Loh YH, Wu Q, Chew JL, Vega VB, Zhang W, Chen X, Bourque G, George J, Leong B, Liu J, Wong KY, Sung KW, Lee CWH, Zhao XD, Chiu KP, Lipovich L, Kuznetsov VA, Robson P, Stanton LW, Wei CL, Ruan Y, Lim B, Ng HH. The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells. Nat Genet 2006, 38(4):431-40. 10.1038/ng1760, 16518401.
-
(2006)
Nat Genet
, vol.38
, Issue.4
, pp. 431-440
-
-
Loh, Y.H.1
Wu, Q.2
Chew, J.L.3
Vega, V.B.4
Zhang, W.5
Chen, X.6
Bourque, G.7
George, J.8
Leong, B.9
Liu, J.10
Wong, K.Y.11
Sung, K.W.12
Lee, C.W.H.13
Zhao, X.D.14
Chiu, K.P.15
Lipovich, L.16
Kuznetsov, V.A.17
Robson, P.18
Stanton, L.W.19
Wei, C.L.20
Ruan, Y.21
Lim, B.22
Ng, H.H.23
more..
-
31
-
-
0037806031
-
The homeoprotein Nanog is required for maintenance of pluripotency in mouse epiblast and ES cells
-
10.1016/S0092-8674(03)00393-3, 12787504
-
Mitsui K, Tokuzawa Y, Itoh H, Segawa K, Murakami M, Takahashi K, Maruyama M, Maeda M, Yamanaka S. The homeoprotein Nanog is required for maintenance of pluripotency in mouse epiblast and ES cells. Cell 2003, 113(5):631-42. 10.1016/S0092-8674(03)00393-3, 12787504.
-
(2003)
Cell
, vol.113
, Issue.5
, pp. 631-642
-
-
Mitsui, K.1
Tokuzawa, Y.2
Itoh, H.3
Segawa, K.4
Murakami, M.5
Takahashi, K.6
Maruyama, M.7
Maeda, M.8
Yamanaka, S.9
-
32
-
-
0038143611
-
Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells
-
10.1016/S0092-8674(03)00392-1, 12787505
-
Chambers I, Colby D, Robertson M, Nichols J, Lee S, Tweedie S, Smith A. Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells. Cell 2003, 113(5):643-55. 10.1016/S0092-8674(03)00392-1, 12787505.
-
(2003)
Cell
, vol.113
, Issue.5
, pp. 643-655
-
-
Chambers, I.1
Colby, D.2
Robertson, M.3
Nichols, J.4
Lee, S.5
Tweedie, S.6
Smith, A.7
-
33
-
-
34147197561
-
Gene function in early mouse embryonic stem cell differentiation
-
10.1186/1471-2164-8-85, 1851713, 17394647
-
Hailesellasse Sene K, Porter CJ, Palidwor G, Perez-Iratxeta C, Muro EM, Campbell PA, Rudnicki MA, Andrade-Navarro MA. Gene function in early mouse embryonic stem cell differentiation. BMC Genomics 2007, 8:85. 10.1186/1471-2164-8-85, 1851713, 17394647.
-
(2007)
BMC Genomics
, vol.8
, pp. 85
-
-
Hailesellasse Sene, K.1
Porter, C.J.2
Palidwor, G.3
Perez-Iratxeta, C.4
Muro, E.M.5
Campbell, P.A.6
Rudnicki, M.A.7
Andrade-Navarro, M.A.8
-
34
-
-
0024205842
-
Myeloid leukaemia inhibitory factor maintains the developmental potential of embryonic stem cells
-
10.1038/336684a0, 3143916
-
Williams RL, Hilton DJ, Pease S, Willson TA, Stewart CL, Gearing DP, Wagner EF, Metcalf D, Nicola NA, Gough NM. Myeloid leukaemia inhibitory factor maintains the developmental potential of embryonic stem cells. Nature 1988, 336(6200):684-7. 10.1038/336684a0, 3143916.
-
(1988)
Nature
, vol.336
, Issue.6200
, pp. 684-687
-
-
Williams, R.L.1
Hilton, D.J.2
Pease, S.3
Willson, T.A.4
Stewart, C.L.5
Gearing, D.P.6
Wagner, E.F.7
Metcalf, D.8
Nicola, N.A.9
Gough, N.M.10
-
35
-
-
0026318821
-
Coexpression of the stem cell factor and the c-kit genes in small-cell lung cancer
-
Hibi K, Takahashi T, Sekido Y, Ueda R, Hida T, Ariyoshi Y, Takagi H, Takahashi T. Coexpression of the stem cell factor and the c-kit genes in small-cell lung cancer. Oncogene 1991, 6(12):2291-6.
-
(1991)
Oncogene
, vol.6
, Issue.12
, pp. 2291-2296
-
-
Hibi, K.1
Takahashi, T.2
Sekido, Y.3
Ueda, R.4
Hida, T.5
Ariyoshi, Y.6
Takagi, H.7
Takahashi, T.8
-
36
-
-
0242669237
-
Hedgehog signalling within airway epithelial progenitors and in small-cell lung cancer
-
10.1038/nature01493, 12629553
-
Watkins DN, Berman DM, Burkholder SG, Wang B, Beachy PA, Baylin SB. Hedgehog signalling within airway epithelial progenitors and in small-cell lung cancer. Nature 2003, 422(6929):313-7. 10.1038/nature01493, 12629553.
-
(2003)
Nature
, vol.422
, Issue.6929
, pp. 313-317
-
-
Watkins, D.N.1
Berman, D.M.2
Burkholder, S.G.3
Wang, B.4
Beachy, P.A.5
Baylin, S.B.6
-
37
-
-
0036219265
-
Differential expression and biodistribution of cytokeratin 18 and desmoplakins in non-small cell lung carcinoma subtypes
-
10.1016/S0169-5002(01)00486-X, 11955647
-
Young GD, Winokur TS, Cerfolio RJ, Van Tine BA, Chow LT, Okoh V, Garver RI. differential expression and biodistribution of cytokeratin 18 and desmoplakins in non-small cell lung carcinoma subtypes. Lung Cancer 2002, 36(2):133-41. 10.1016/S0169-5002(01)00486-X, 11955647.
-
(2002)
Lung Cancer
, vol.36
, Issue.2
, pp. 133-141
-
-
Young, G.D.1
Winokur, T.S.2
Cerfolio, R.J.3
Van Tine, B.A.4
Chow, L.T.5
Okoh, V.6
Garver, R.I.7
-
38
-
-
57749198043
-
Markers that define stemness in ESC are unable to identify the totipotent cells in human preimplantation embryos
-
10.1093/humrep/den351, 18824471
-
Cauffman G, De Rycke M, Sermon K, Liebaers I, Van de Velde H. Markers that define stemness in ESC are unable to identify the totipotent cells in human preimplantation embryos. Hum Reprod 2009, 24:63-70. 10.1093/humrep/den351, 18824471.
-
(2009)
Hum Reprod
, vol.24
, pp. 63-70
-
-
Cauffman, G.1
De Rycke, M.2
Sermon, K.3
Liebaers, I.4
Van de Velde, H.5
-
39
-
-
34147191990
-
FXYD6 is a novel regulator of Na, K-ATPase expressed in the inner ear
-
10.1074/jbc.M609872200, 17209044
-
Delprat B, Schaer D, Roy S, Wang J, Puel JL, Geering K. FXYD6 is a novel regulator of Na, K-ATPase expressed in the inner ear. J Biol Chem 2007, 282(10):7450-6. 10.1074/jbc.M609872200, 17209044.
-
(2007)
J Biol Chem
, vol.282
, Issue.10
, pp. 7450-7456
-
-
Delprat, B.1
Schaer, D.2
Roy, S.3
Wang, J.4
Puel, J.L.5
Geering, K.6
-
40
-
-
70350506802
-
FoxO3 regulates neural stem cell homeostasis
-
10.1016/j.stem.2009.09.014, 2775802, 19896443
-
Renault VM, Rafalski VA, Morgan AA, Salih DAM, Brett JO, Webb AE, Villeda SA, Thekkat PU, Guillerey C, Denko NC, Palmer TD, Butte AJ, Brunet A. FoxO3 regulates neural stem cell homeostasis. Cell Stem Cell 2009, 5(5):527-39. 10.1016/j.stem.2009.09.014, 2775802, 19896443.
-
(2009)
Cell Stem Cell
, vol.5
, Issue.5
, pp. 527-539
-
-
Renault, V.M.1
Rafalski, V.A.2
Morgan, A.A.3
Salih, D.A.M.4
Brett, J.O.5
Webb, A.E.6
Villeda, S.A.7
Thekkat, P.U.8
Guillerey, C.9
Denko, N.C.10
Palmer, T.D.11
Butte, A.J.12
Brunet, A.13
-
41
-
-
34547660196
-
FoxO transcription factors and stem cell homeostasis: insights from the hematopoietic system
-
10.1016/j.stem.2007.07.017, 18371346
-
Tothova Z, Gilliland DG. FoxO transcription factors and stem cell homeostasis: insights from the hematopoietic system. Cell Stem Cell 2007, 1(2):140-52. 10.1016/j.stem.2007.07.017, 18371346.
-
(2007)
Cell Stem Cell
, vol.1
, Issue.2
, pp. 140-152
-
-
Tothova, Z.1
Gilliland, D.G.2
-
42
-
-
41549135942
-
FoxO transcription factors in the maintenance of cellular homeostasis during aging
-
10.1016/j.ceb.2008.02.005, 2387118, 18394876
-
Salih DAM, Brunet A. FoxO transcription factors in the maintenance of cellular homeostasis during aging. Curr Opin Cell Biol 2008, 20(2):126-36. 10.1016/j.ceb.2008.02.005, 2387118, 18394876.
-
(2008)
Curr Opin Cell Biol
, vol.20
, Issue.2
, pp. 126-136
-
-
Salih, D.A.M.1
Brunet, A.2
-
43
-
-
37349025432
-
FOXO3a is activated in response to hypoxic stress and inhibits HIF1-induced apoptosis via regulation of CITED2
-
10.1016/j.molcel.2007.10.035, 18158893
-
Bakker WJ, Harris IS, Mak TW. FOXO3a is activated in response to hypoxic stress and inhibits HIF1-induced apoptosis via regulation of CITED2. Mol Cell 2007, 28(6):941-53. 10.1016/j.molcel.2007.10.035, 18158893.
-
(2007)
Mol Cell
, vol.28
, Issue.6
, pp. 941-953
-
-
Bakker, W.J.1
Harris, I.S.2
Mak, T.W.3
-
44
-
-
0033525830
-
Regulation of the hypoxia-inducible transcription factor 1alpha by the ubiquitin-proteasome pathway
-
10.1074/jbc.274.10.6519, 10037745
-
Kallio PJ, Wilson WJ, O'Brien S, Makino Y, Poellinger L. Regulation of the hypoxia-inducible transcription factor 1alpha by the ubiquitin-proteasome pathway. J Biol Chem 1999, 274(10):6519-25. 10.1074/jbc.274.10.6519, 10037745.
-
(1999)
J Biol Chem
, vol.274
, Issue.10
, pp. 6519-6525
-
-
Kallio, P.J.1
Wilson, W.J.2
O'Brien, S.3
Makino, Y.4
Poellinger, L.5
-
45
-
-
1842861743
-
Human neuroblastoma cells exposed to hypoxia: induction of genes associated with growth, survival, and aggressive behavior
-
Jögi A, Vallon-Christersson J, Holmquist L, Axelson H, Borg A, Påhlman S. Human neuroblastoma cells exposed to hypoxia: induction of genes associated with growth, survival, and aggressive behavior. Exp Cell Res 2004, 295(2):469-87.
-
(2004)
Exp Cell Res
, vol.295
, Issue.2
, pp. 469-487
-
-
Jögi, A.1
Vallon-Christersson, J.2
Holmquist, L.3
Axelson, H.4
Borg, A.5
Påhlman, S.6
-
46
-
-
0036118562
-
Identification of a novel hypoxia-inducible factor 1-responsive gene, RTP801, involved in apoptosis
-
10.1128/MCB.22.7.2283-2293.2002, 133671, 11884613
-
Shoshani T, Faerman A, Mett I, Zelin E, Tenne T, Gorodin S, Moshel Y, Elbaz S, Budanov A, Chajut A, Kalinski H, Kamer I, Rozen A, Mor O, Keshet E, Leshkowitz D, Einat P, Skaliter R, Feinstein E. Identification of a novel hypoxia-inducible factor 1-responsive gene, RTP801, involved in apoptosis. Mol Cell Biol 2002, 22(7):2283-93. 10.1128/MCB.22.7.2283-2293.2002, 133671, 11884613.
-
(2002)
Mol Cell Biol
, vol.22
, Issue.7
, pp. 2283-2293
-
-
Shoshani, T.1
Faerman, A.2
Mett, I.3
Zelin, E.4
Tenne, T.5
Gorodin, S.6
Moshel, Y.7
Elbaz, S.8
Budanov, A.9
Chajut, A.10
Kalinski, H.11
Kamer, I.12
Rozen, A.13
Mor, O.14
Keshet, E.15
Leshkowitz, D.16
Einat, P.17
Skaliter, R.18
Feinstein, E.19
-
47
-
-
0037094096
-
The forkhead transcription factor FoxO regulates transcription of p27Kip1 and Bim in response to IL-2
-
Stahl M, Dijkers PF, Kops GJPL, Lens SMA, Coffer PJ, Burgering BMT, Medema RH. The forkhead transcription factor FoxO regulates transcription of p27Kip1 and Bim in response to IL-2. J Immunol 2002, 168(10):5024-31.
-
(2002)
J Immunol
, vol.168
, Issue.10
, pp. 5024-5031
-
-
Stahl, M.1
Dijkers, P.F.2
Kops, G.J.P.L.3
Lens, S.M.A.4
Coffer, P.J.5
Burgering, B.M.T.6
Medema, R.H.7
-
48
-
-
34347219009
-
Metagene projection for cross-platform, cross-species characterization of global transcriptional states
-
10.1073/pnas.0701068104, 1838404, 17389406
-
Tamayo P, Scanfeld D, Ebert BL, Gillette MA, Roberts CWM, Mesirov JP. Metagene projection for cross-platform, cross-species characterization of global transcriptional states. Proc Natl Acad Sci USA 2007, 104(14):5959-64. 10.1073/pnas.0701068104, 1838404, 17389406.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, Issue.14
, pp. 5959-5964
-
-
Tamayo, P.1
Scanfeld, D.2
Ebert, B.L.3
Gillette, M.A.4
Roberts, C.W.M.5
Mesirov, J.P.6
-
49
-
-
33846295218
-
FoxOs are lineage-restricted redundant tumor suppressors and regulate endothelial cell homeostasis
-
10.1016/j.cell.2006.12.029, 1855089, 17254969
-
Paik JH, Kollipara R, Chu G, Ji H, Xiao Y, Ding Z, Miao L, Tothova Z, Horner JW, Carrasco DR, Jiang S, Gilliland DG, Chin L, Wong WH, Castrillon DH, DePinho RA. FoxOs are lineage-restricted redundant tumor suppressors and regulate endothelial cell homeostasis. Cell 2007, 128(2):309-23. 10.1016/j.cell.2006.12.029, 1855089, 17254969.
-
(2007)
Cell
, vol.128
, Issue.2
, pp. 309-323
-
-
Paik, J.H.1
Kollipara, R.2
Chu, G.3
Ji, H.4
Xiao, Y.5
Ding, Z.6
Miao, L.7
Tothova, Z.8
Horner, J.W.9
Carrasco, D.R.10
Jiang, S.11
Gilliland, D.G.12
Chin, L.13
Wong, W.H.14
Castrillon, D.H.15
DePinho, R.A.16
-
50
-
-
63049123830
-
Ontology-driven indexing of public datasets for translational bioinformatics
-
10.1186/1471-2105-10-S2-S1, 2646250, 19208184
-
Shah NH, Jonquet C, Chiang AP, Butte AJ, Chen R, Musen MA. Ontology-driven indexing of public datasets for translational bioinformatics. BMC Bioinformatics 2009, 10(Suppl 2):S1. 10.1186/1471-2105-10-S2-S1, 2646250, 19208184.
-
(2009)
BMC Bioinformatics
, vol.10
, Issue.SUPPL 2
-
-
Shah, N.H.1
Jonquet, C.2
Chiang, A.P.3
Butte, A.J.4
Chen, R.5
Musen, M.A.6
-
51
-
-
70449389289
-
Integrating phenotype and gene expression data for predicting gene function
-
10.1186/1471-2105-10-S11-S20, 19811686
-
Malone BM, Perkins AD, Bridges SM. Integrating phenotype and gene expression data for predicting gene function. BMC Bioinformatics 2009, 10(Suppl 11):S20. 10.1186/1471-2105-10-S11-S20, 19811686.
-
(2009)
BMC Bioinformatics
, vol.10
, Issue.SUPPL 11
-
-
Malone, B.M.1
Perkins, A.D.2
Bridges, S.M.3
-
52
-
-
35748982114
-
AILUN: reannotating gene expression data automatically
-
10.1038/nmeth1107-879, 2716375, 17971777
-
Chen R, Li L, Butte AJ. AILUN: reannotating gene expression data automatically. Nat Methods 2007, 4(11):879. 10.1038/nmeth1107-879, 2716375, 17971777.
-
(2007)
Nat Methods
, vol.4
, Issue.11
, pp. 879
-
-
Chen, R.1
Li, L.2
Butte, A.J.3
-
53
-
-
28744458859
-
Bioconductor: open software development for computational biology and bioinformatics
-
10.1186/gb-2004-5-10-r80, 545600, 15461798
-
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol 2004, 5(10):R80. 10.1186/gb-2004-5-10-r80, 545600, 15461798.
-
(2004)
Genome Biol
, vol.5
, Issue.10
-
-
Gentleman, R.C.1
Carey, V.J.2
Bates, D.M.3
Bolstad, B.4
Dettling, M.5
Dudoit, S.6
Ellis, B.7
Gautier, L.8
Ge, Y.9
Gentry, J.10
Hornik, K.11
Hothorn, T.12
Huber, W.13
Iacus, S.14
Irizarry, R.15
Leisch, F.16
Li, C.17
Maechler, M.18
Rossini, A.J.19
Sawitzki, G.20
Smith, C.21
Smyth, G.22
Tierney, L.23
Yang, J.Y.H.24
Zhang, J.25
more..
-
54
-
-
18844392338
-
Combining Affymetrix microarray results
-
10.1186/1471-2105-6-57, 1274254, 15774008
-
Stevens JR, Doerge RW. Combining Affymetrix microarray results. BMC Bioinformatics 2005, 6:57. 10.1186/1471-2105-6-57, 1274254, 15774008.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 57
-
-
Stevens, J.R.1
Doerge, R.W.2
-
55
-
-
4544341015
-
Linear models and empirical bayes methods for assessing differential expression in microarray experiments
-
Smyth GK. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004, 3:Article 3.
-
(2004)
Stat Appl Genet Mol Biol
, vol.3
-
-
Smyth, G.K.1
-
56
-
-
0001677717
-
Controlling the false discovery rate: a practical and powerful approach to multiple testing
-
Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J Roy Statist Soc 1995, B(57):289-300.
-
(1995)
J Roy Statist Soc
, vol.B
, Issue.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
59
-
-
27544491192
-
ROCR: visualizing classifier performance in R
-
10.1093/bioinformatics/bti623, 16096348
-
Sing T, Sander O, Beerenwinkel N, Lengauer T. ROCR: visualizing classifier performance in R. Bioinformatics 2005, 21(20):3940-1. 10.1093/bioinformatics/bti623, 16096348.
-
(2005)
Bioinformatics
, vol.21
, Issue.20
, pp. 3940-3941
-
-
Sing, T.1
Sander, O.2
Beerenwinkel, N.3
Lengauer, T.4
|