-
1
-
-
33344460411
-
Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins.
-
10.1186/gb-2005-6-7-r56, 1175987, 15998445
-
Freilich S, Massingham T, Bhattacharyya S, Ponsting H, Lyons PA, Freeman TC, Thornton JM. Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins. Genome Biology 2005, 6:R56. 10.1186/gb-2005-6-7-r56, 1175987, 15998445.
-
(2005)
Genome Biology
, vol.6
-
-
Freilich, S.1
Massingham, T.2
Bhattacharyya, S.3
Ponsting, H.4
Lyons, P.A.5
Freeman, T.C.6
Thornton, J.M.7
-
2
-
-
62549128139
-
A census of human transcription factors: function, expression and evolution.
-
10.1038/nrg2538, 19274049
-
Vaquerizas JM, Kummerfeld SK, Teichmann SA, Luscombe NM. A census of human transcription factors: function, expression and evolution. Nature reviews. Genetics 2009, 10:252-63. 10.1038/nrg2538, 19274049.
-
(2009)
Nature reviews. Genetics
, vol.10
, pp. 252-263
-
-
Vaquerizas, J.M.1
Kummerfeld, S.K.2
Teichmann, S.A.3
Luscombe, N.M.4
-
3
-
-
0034720002
-
Comparison of human adult and fetal expression and identification of 535 housekeeping/maintenance genes.
-
Warrington JA, Nair A, Mahadevappa M, Tsyganskaya M. Comparison of human adult and fetal expression and identification of 535 housekeeping/maintenance genes. Physiological genomics 2000, 2:143-7.
-
(2000)
Physiological genomics
, vol.2
, pp. 143-147
-
-
Warrington, J.A.1
Nair, A.2
Mahadevappa, M.3
Tsyganskaya, M.4
-
4
-
-
0035931097
-
Further defining housekeeping, or "maintenance," genes Focus on "A compendium of gene expression in normal human tissues".
-
Butte AJ, Dzau VJ, Glueck SB. Further defining housekeeping, or "maintenance," genes Focus on "A compendium of gene expression in normal human tissues". Physiological genomics 2001, 7:95-6.
-
(2001)
Physiological genomics
, vol.7
, pp. 95-96
-
-
Butte, A.J.1
Dzau, V.J.2
Glueck, S.B.3
-
5
-
-
33644872577
-
Limma: linear models for microarray data.
-
New York: Springer, Gentleman R, Carey V, Dudoit S, R Irizarry WH
-
Smyth GK. Limma: linear models for microarray data. Bioinformatics and Computational Biology Solutions using R and Bioconductor 2005, 397-420. New York: Springer, Gentleman R, Carey V, Dudoit S, R Irizarry WH.
-
(2005)
Bioinformatics and Computational Biology Solutions using R and Bioconductor
, pp. 397-420
-
-
Smyth, G.K.1
-
6
-
-
0035942271
-
Significance analysis of microarrays applied to the ionizing radiation response.
-
10.1073/pnas.091062498, 33173, 11309499
-
Tusher VG, Tibshirani R, Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proceedings of the National Academy of Sciences of the United States of America 2001, 98:5116-21. 10.1073/pnas.091062498, 33173, 11309499.
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, pp. 5116-5121
-
-
Tusher, V.G.1
Tibshirani, R.2
Chu, G.3
-
7
-
-
34547684291
-
A comprehensive evaluation of SAM, the SAM R-package and a simple modification to improve its performance.
-
10.1186/1471-2105-8-230, 1955751, 17603887
-
Zhang S. A comprehensive evaluation of SAM, the SAM R-package and a simple modification to improve its performance. BMC bioinformatics 2007, 8:230. 10.1186/1471-2105-8-230, 1955751, 17603887.
-
(2007)
BMC bioinformatics
, vol.8
, pp. 230
-
-
Zhang, S.1
-
8
-
-
78149454849
-
Systematical Detection of Significant Genes in Microarray Data by Incorporating Gene Interaction Relationship in Biological Systems.
-
10.1371/journal.pone.0013721, 2966410, 21060778
-
Wang J, Jia M, Zhu L, Yuan Z, Li P, Chang C, Luo J, Liu M, Shi T. Systematical Detection of Significant Genes in Microarray Data by Incorporating Gene Interaction Relationship in Biological Systems. PLoS ONE 2010, 5(10):e13721. 10.1371/journal.pone.0013721, 2966410, 21060778.
-
(2010)
PLoS ONE
, vol.5
, Issue.10
-
-
Wang, J.1
Jia, M.2
Zhu, L.3
Yuan, Z.4
Li, P.5
Chang, C.6
Luo, J.7
Liu, M.8
Shi, T.9
-
9
-
-
0036203115
-
A mixture model-based approach to the clustering of microarray expression data.
-
10.1093/bioinformatics/18.3.413, 11934740
-
McLachlan GJ, Bean RW, Peel D. A mixture model-based approach to the clustering of microarray expression data. Bioinformatics 2002, 18:413-422. 10.1093/bioinformatics/18.3.413, 11934740.
-
(2002)
Bioinformatics
, vol.18
, pp. 413-422
-
-
McLachlan, G.J.1
Bean, R.W.2
Peel, D.3
-
10
-
-
33745606461
-
A simple implementation of a normal mixture approach to differential gene expression in multiclass microarrays.
-
10.1093/bioinformatics/btl148, 16632494
-
McLachlan GJ, Bean RW, Ben-Tovim Jones L. A simple implementation of a normal mixture approach to differential gene expression in multiclass microarrays. Bioinformatics 2006, 22:1608-1615. 10.1093/bioinformatics/btl148, 16632494.
-
(2006)
Bioinformatics
, vol.22
, pp. 1608-1615
-
-
McLachlan, G.J.1
Bean, R.W.2
Ben-Tovim Jones, L.3
-
11
-
-
33745951206
-
ROKU: a novel method for identification of tissue-specific genes.
-
10.1186/1471-2105-7-294, 1501047, 16764735
-
Kadota K, Ye J, Nakai Y, Terada T, Shimizu K. ROKU: a novel method for identification of tissue-specific genes. BMC bioinformatics 2006, 7:294. 10.1186/1471-2105-7-294, 1501047, 16764735.
-
(2006)
BMC bioinformatics
, vol.7
, pp. 294
-
-
Kadota, K.1
Ye, J.2
Nakai, Y.3
Terada, T.4
Shimizu, K.5
-
12
-
-
0037421634
-
Detection of genes with tissue-specific expression patterns using Akaike's information criterion procedure.
-
Kadota K, Nishimura S-I, Bono H, Nakamura S, Hayashizaki Y, Okazaki Y, Takahashi K. Detection of genes with tissue-specific expression patterns using Akaike's information criterion procedure. Physiological genomics 2003, 12:251-9.
-
(2003)
Physiological genomics
, vol.12
, pp. 251-259
-
-
Kadota, K.1
Nishimura, S.-.I.2
Bono, H.3
Nakamura, S.4
Hayashizaki, Y.5
Okazaki, Y.6
Takahashi, K.7
-
14
-
-
11144358198
-
A gene atlas of the mouse and human protein-encoding transcriptomes.
-
10.1073/pnas.0400782101, 395923, 15075390
-
Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G, Cooke MP, Walker JR, Hogenesch JB. A gene atlas of the mouse and human protein-encoding transcriptomes. Proceedings of the National Academy of Sciences of the United States of America 2004, 101:6062-7. 10.1073/pnas.0400782101, 395923, 15075390.
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, pp. 6062-6067
-
-
Su, A.I.1
Wiltshire, T.2
Batalov, S.3
Lapp, H.4
Ching, K.A.5
Block, D.6
Zhang, J.7
Soden, R.8
Hayakawa, M.9
Kreiman, G.10
Cooke, M.P.11
Walker, J.R.12
Hogenesch, J.B.13
-
17
-
-
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 Biology 2004, 5:R80. 10.1186/gb-2004-5-10-r80, 545600, 15461798.
-
(2004)
Genome Biology
, vol.5
-
-
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..
-
18
-
-
84855280477
-
SpeCond Bioconductor package.
-
SpeCond Bioconductor package. , http://bioconductor.org/packages/release/bioc/html/SpeCond.html
-
-
-
-
19
-
-
22844453564
-
MCLUST: Software for model-based cluster analysis.
-
Fraley C, Raftery AE. MCLUST: Software for model-based cluster analysis. Journal of Classification 1999, 16:297-306.
-
(1999)
Journal of Classification
, vol.16
, pp. 297-306
-
-
Fraley, C.1
Raftery, A.E.2
-
20
-
-
0742306126
-
Enhanced software for model-based clustering, density estimation, and discriminant analysis: MCLUST.
-
Fraley C, Raftery AE. Enhanced software for model-based clustering, density estimation, and discriminant analysis: MCLUST. Journal of Classification 2003, 20:263-286.
-
(2003)
Journal of Classification
, vol.20
, pp. 263-286
-
-
Fraley, C.1
Raftery, A.E.2
-
22
-
-
0035733108
-
The control of the false discovery rate in multiple testing under dependency.
-
Benjamini Y, Yekutieli D. The control of the false discovery rate in multiple testing under dependency. Annals of Statistics 2001, 29:1165-1188.
-
(2001)
Annals of Statistics
, vol.29
, pp. 1165-1188
-
-
Benjamini, Y.1
Yekutieli, D.2
-
23
-
-
34547571030
-
G:Profiler-a web-based toolset for functional profiling of gene lists from large-scale experiments.
-
10.1093/nar/gkm226, 1933153, 17478515
-
Reimand J, Kull M, Peterson H, Hansen J, Vilo J. g:Profiler-a web-based toolset for functional profiling of gene lists from large-scale experiments. Nucleic acids research 2007, 35:W193-200. 10.1093/nar/gkm226, 1933153, 17478515.
-
(2007)
Nucleic acids research
, vol.35
-
-
Reimand, J.1
Kull, M.2
Peterson, H.3
Hansen, J.4
Vilo, J.5
-
24
-
-
0037223832
-
The role of the nuclear receptor CAR as a coordinate regulator of hepatic gene expression in defense against chemical toxicity.
-
10.1016/S0003-9861(02)00456-3, 12464260
-
Yamamoto Y, Kawamoto T, Negishi M. The role of the nuclear receptor CAR as a coordinate regulator of hepatic gene expression in defense against chemical toxicity. Archives of biochemistry and biophysics 2003, 409:207-11. 10.1016/S0003-9861(02)00456-3, 12464260.
-
(2003)
Archives of biochemistry and biophysics
, vol.409
, pp. 207-211
-
-
Yamamoto, Y.1
Kawamoto, T.2
Negishi, M.3
-
25
-
-
0031213639
-
Cloning, human chromosomal assignment, and adipose and hepatic expression of the CL-6/INSIG1 gene.
-
10.1006/geno.1997.4821, 9268630
-
Peng Y, Schwarz EJ, Lazar MA, Genin A, Spinner NB, Taub R. Cloning, human chromosomal assignment, and adipose and hepatic expression of the CL-6/INSIG1 gene. Genomics 1997, 43:278-84. 10.1006/geno.1997.4821, 9268630.
-
(1997)
Genomics
, vol.43
, pp. 278-284
-
-
Peng, Y.1
Schwarz, E.J.2
Lazar, M.A.3
Genin, A.4
Spinner, N.B.5
Taub, R.6
-
26
-
-
44149094808
-
ATF5 Is a Highly Abundant Liver-Enriched Transcription Factor that Cooperates with Constitutive Androstane Receptor in the Transactivation of CYP2B6: Implications in Hepatic Stress Responses.
-
Pascual M, Jose M, Castell V, Jover R. ATF5 Is a Highly Abundant Liver-Enriched Transcription Factor that Cooperates with Constitutive Androstane Receptor in the Transactivation of CYP2B6: Implications in Hepatic Stress Responses. Pharmacology 2008, 36:1063-1072.
-
(2008)
Pharmacology
, vol.36
, pp. 1063-1072
-
-
Pascual, M.1
Jose, M.2
Castell, V.3
Jover, R.4
-
27
-
-
0027965106
-
The Mouse and Human Excitatory Amino Acid Transporter Gene (EAAT1) Maps to Mouse Chromosome 15 and a Region of Syntenic Homology on Human Chromosome 5.
-
10.1006/geno.1994.1437, 8001975
-
Kirschner MA, Arriza JL, Copeland NG, Gilbert DJ, Jenkins NA, Magenis E, Amara SG. The Mouse and Human Excitatory Amino Acid Transporter Gene (EAAT1) Maps to Mouse Chromosome 15 and a Region of Syntenic Homology on Human Chromosome 5. Genomics 1994, 22:631-633. 10.1006/geno.1994.1437, 8001975.
-
(1994)
Genomics
, vol.22
, pp. 631-633
-
-
Kirschner, M.A.1
Arriza, J.L.2
Copeland, N.G.3
Gilbert, D.J.4
Jenkins, N.A.5
Magenis, E.6
Amara, S.G.7
-
28
-
-
77950644737
-
A global map of human gene expression.
-
10.1038/nbt0410-322, 2974261, 20379172
-
Lukk M, Kapushesky M, Nikkilä J, Parkinson H, Goncalves A, Huber W, Ukkonen E, Brazma A. A global map of human gene expression. Nature biotechnology 2010, 28:322-4. 10.1038/nbt0410-322, 2974261, 20379172.
-
(2010)
Nature biotechnology
, vol.28
, pp. 322-324
-
-
Lukk, M.1
Kapushesky, M.2
Nikkilä, J.3
Parkinson, H.4
Goncalves, A.5
Huber, W.6
Ukkonen, E.7
Brazma, A.8
-
29
-
-
77958471357
-
Differential expression analysis for sequence count data.
-
10.1186/gb-2010-11-10-r106, 3218662, 20979621
-
Anders S, Huber W. Differential expression analysis for sequence count data. Genome Biology 2010, 11:R106. 10.1186/gb-2010-11-10-r106, 3218662, 20979621.
-
(2010)
Genome Biology
, vol.11
-
-
Anders, S.1
Huber, W.2
-
30
-
-
35748952199
-
A gene expression bar code for microarray data.
-
10.1038/nmeth1102, 3154617, 17906632
-
Zilliox MJ, Irizarry RA. A gene expression bar code for microarray data. Nature Methods 2007, 4:911-3. 10.1038/nmeth1102, 3154617, 17906632.
-
(2007)
Nature Methods
, vol.4
, pp. 911-913
-
-
Zilliox, M.J.1
Irizarry, R.A.2
-
31
-
-
78651271261
-
The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes.
-
10.1093/nar/gkq1259, 3013751, 21177656
-
McCall MN, Uppal K, Jaffee HA, Zilliox MJ, Irizarry RA. The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes. Nucleic Acids Research 2011, 39:D1011-5. 10.1093/nar/gkq1259, 3013751, 21177656.
-
(2011)
Nucleic Acids Research
, vol.39
-
-
McCall, M.N.1
Uppal, K.2
Jaffee, H.A.3
Zilliox, M.J.4
Irizarry, R.A.5
|