-
1
-
-
84863922124
-
Comprehensive molecular characterization of human colon and rectal cancer
-
10.1038/nature11252, 3401966, 22810696, Cancer Genome Atlas N
-
Cancer Genome Atlas N Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487(7407):330-337. 10.1038/nature11252, 3401966, 22810696, Cancer Genome Atlas N.
-
(2012)
Nature
, vol.487
, Issue.7407
, pp. 330-337
-
-
-
2
-
-
80051567157
-
Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development
-
10.1101/gr.120535.111, 3149493, 21712398
-
Pal S, Gupta R, Kim H, Wickramasinghe P, Baubet V, Showe LC, Dahmane N, Davuluri RV. Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development. Genome Res 2011, 21(8):1260-1272. 10.1101/gr.120535.111, 3149493, 21712398.
-
(2011)
Genome Res
, vol.21
, Issue.8
, pp. 1260-1272
-
-
Pal, S.1
Gupta, R.2
Kim, H.3
Wickramasinghe, P.4
Baubet, V.5
Showe, L.C.6
Dahmane, N.7
Davuluri, R.V.8
-
3
-
-
79960664962
-
IsoformEx: isoform level gene expression estimation using weighted non-negative least squares from mRNA-Seq data
-
Kim H, Bi Y, Pal S, Gupta R, Davuluri RV. IsoformEx: isoform level gene expression estimation using weighted non-negative least squares from mRNA-Seq data. BMC Bioinforma 2011, 12:305.
-
(2011)
BMC Bioinforma
, vol.12
, pp. 305
-
-
Kim, H.1
Bi, Y.2
Pal, S.3
Gupta, R.4
Davuluri, R.V.5
-
4
-
-
64549119707
-
Statistical inferences for isoform expression in RNA-Seq
-
10.1093/bioinformatics/btp113, 2666817, 19244387
-
Jiang H, Wong WH. Statistical inferences for isoform expression in RNA-Seq. Bioinformatics 2009, 25(8):1026-1032. 10.1093/bioinformatics/btp113, 2666817, 19244387.
-
(2009)
Bioinformatics
, vol.25
, Issue.8
, pp. 1026-1032
-
-
Jiang, H.1
Wong, W.H.2
-
5
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, Van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 28(5):511-515.
-
Nat Biotechnol
, vol.28
, Issue.5
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
Van Baren, M.J.6
Salzberg, S.L.7
Wold, B.J.8
Pachter, L.9
-
6
-
-
77949507153
-
RNA-Seq gene expression estimation with read mapping uncertainty
-
Li B, Ruotti V, Stewart RM, Thomson JA, Dewey CN. RNA-Seq gene expression estimation with read mapping uncertainty. Bioinformatics 26(4):493-500.
-
Bioinformatics
, vol.26
, Issue.4
, pp. 493-500
-
-
Li, B.1
Ruotti, V.2
Stewart, R.M.3
Thomson, J.A.4
Dewey, C.N.5
-
7
-
-
67249136028
-
A hierarchical Bayesian model for comparing transcriptomes at the individual transcript isoform level
-
10.1093/nar/gkp282, 2691848, 19417075
-
Zheng S, Chen L. A hierarchical Bayesian model for comparing transcriptomes at the individual transcript isoform level. Nucleic Acids Res 2009, 37(10):e75. 10.1093/nar/gkp282, 2691848, 19417075.
-
(2009)
Nucleic Acids Res
, vol.37
, Issue.10
-
-
Zheng, S.1
Chen, L.2
-
8
-
-
85052549687
-
A two-parameter generalized Poisson model to improve the analysis of RNA-seq data
-
Srivastava S, Chen L. A two-parameter generalized Poisson model to improve the analysis of RNA-seq data. Nucleic Acids Res 38(17):e170.
-
Nucleic Acids Res
, vol.38
, Issue.17
-
-
Srivastava, S.1
Chen, L.2
-
9
-
-
84867852880
-
Alternative transcription and alternative splicing in cancer
-
10.1016/j.pharmthera.2012.08.005, 22909788
-
Pal S, Gupta R, Davuluri RV. Alternative transcription and alternative splicing in cancer. Pharmacol Ther 2012, 136(3):283-294. 10.1016/j.pharmthera.2012.08.005, 22909788.
-
(2012)
Pharmacol Ther
, vol.136
, Issue.3
, pp. 283-294
-
-
Pal, S.1
Gupta, R.2
Davuluri, R.V.3
-
10
-
-
77953176036
-
A scaling normalization method for differential expression analysis of RNA-seq data
-
10.1186/gb-2010-11-3-r25, 2864565, 20196867
-
Robinson MD, Oshlack A. A scaling normalization method for differential expression analysis of RNA-seq data. Genome Biol 2010, 11(3):R25. 10.1186/gb-2010-11-3-r25, 2864565, 20196867.
-
(2010)
Genome Biol
, vol.11
, Issue.3
-
-
Robinson, M.D.1
Oshlack, A.2
-
11
-
-
83055192078
-
Differential expression in RNA-seq: a matter of depth
-
10.1101/gr.124321.111, 3227109, 21903743
-
Tarazona S, Garcia-Alcalde F, Dopazo J, Ferrer A, Conesa A. Differential expression in RNA-seq: a matter of depth. Genome res 2011, 21(12):2213-2223. 10.1101/gr.124321.111, 3227109, 21903743.
-
(2011)
Genome res
, vol.21
, Issue.12
, pp. 2213-2223
-
-
Tarazona, S.1
Garcia-Alcalde, F.2
Dopazo, J.3
Ferrer, A.4
Conesa, A.5
-
12
-
-
78650539308
-
From RNA-seq reads to differential expression results
-
10.1186/gb-2010-11-12-220, 3046478, 21176179
-
Oshlack A, Robinson MD, Young MD. From RNA-seq reads to differential expression results. Genome biol 2010, 11(12):220. 10.1186/gb-2010-11-12-220, 3046478, 21176179.
-
(2010)
Genome biol
, vol.11
, Issue.12
, pp. 220
-
-
Oshlack, A.1
Robinson, M.D.2
Young, M.D.3
-
13
-
-
84875582401
-
A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis
-
Sep 17. [Epub ahead of print]
-
Dillies MA, Rau A, Aubert J, Hennequet-Antier C, Jeanmougin M, Servant N, Keime C, Marot G, Castel D, Estelle J, et al. A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis. Briefings Bioinf 2012, Sep 17. [Epub ahead of print].
-
(2012)
Briefings Bioinf
-
-
Dillies, M.A.1
Rau, A.2
Aubert, J.3
Hennequet-Antier, C.4
Jeanmougin, M.5
Servant, N.6
Keime, C.7
Marot, G.8
Castel, D.9
Estelle, J.10
-
14
-
-
84859348203
-
A normalization strategy for comparing tag count data
-
10.1186/1748-7188-7-5, 3341196, 22475125
-
Kadota K, Nishiyama T, Shimizu K. A normalization strategy for comparing tag count data. Algorithms Mol Biol 2012, 7(1):5. 10.1186/1748-7188-7-5, 3341196, 22475125.
-
(2012)
Algorithms Mol Biol
, vol.7
, Issue.1
, pp. 5
-
-
Kadota, K.1
Nishiyama, T.2
Shimizu, K.3
-
15
-
-
77949481052
-
Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments
-
Bullard JH, Purdom E, Hansen KD, Dudoit S. Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments. BMC Bioinf 2010, 11:94.
-
(2010)
BMC Bioinf
, vol.11
, pp. 94
-
-
Bullard, J.H.1
Purdom, E.2
Hansen, K.D.3
Dudoit, S.4
-
16
-
-
68849123047
-
Methods for analyzing deep sequencing expression data: constructing the human and mouse promoterome with deepCAGE data
-
10.1186/gb-2009-10-7-r79, 2728533, 19624849
-
Balwierz PJ, Carninci P, Daub CO, Kawai J, Hayashizaki Y, Van Belle W, Beisel C, Van Nimwegen E. Methods for analyzing deep sequencing expression data: constructing the human and mouse promoterome with deepCAGE data. Genome biol 2009, 10(7):R79. 10.1186/gb-2009-10-7-r79, 2728533, 19624849.
-
(2009)
Genome biol
, vol.10
, Issue.7
-
-
Balwierz, P.J.1
Carninci, P.2
Daub, C.O.3
Kawai, J.4
Hayashizaki, Y.5
Van Belle, W.6
Beisel, C.7
Van Nimwegen, E.8
-
17
-
-
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 biol 2010, 11(10):R106. 10.1186/gb-2010-11-10-r106, 3218662, 20979621.
-
(2010)
Genome biol
, vol.11
, Issue.10
-
-
Anders, S.1
Huber, W.2
-
18
-
-
75249087100
-
EdgeR: a bioconductor package for differential expression analysis of digital gene expression data
-
10.1093/bioinformatics/btp616, 2796818, 19910308
-
Robinson MD, McCarthy DJ, Smyth GK. edgeR: a bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 2010, 26(1):139-140. 10.1093/bioinformatics/btp616, 2796818, 19910308.
-
(2010)
Bioinformatics
, vol.26
, Issue.1
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
19
-
-
77955298482
-
BaySeq: empirical Bayesian methods for identifying differential expression in sequence count data
-
Hardcastle TJ, Kelly KA. baySeq: empirical Bayesian methods for identifying differential expression in sequence count data. BMC Bioinf 2010, 11:422.
-
(2010)
BMC Bioinf
, vol.11
, pp. 422
-
-
Hardcastle, T.J.1
Kelly, K.A.2
-
20
-
-
84868017347
-
GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data
-
10.1093/bioinformatics/bts515, 22923299
-
Feng J, Meyer CA, Wang Q, Liu JS, Liu XS, Zhang Y. GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data. Bioinformatics 2012, 28(21):2782-2788. 10.1093/bioinformatics/bts515, 22923299.
-
(2012)
Bioinformatics
, vol.28
, Issue.21
, pp. 2782-2788
-
-
Feng, J.1
Meyer, C.A.2
Wang, Q.3
Liu, J.S.4
Liu, X.S.5
Zhang, Y.6
-
21
-
-
84871184589
-
Bayesian analysis of RNA sequencing data by estimating multiple shrinkage priors
-
10.1093/biostatistics/kxs031, 22988280
-
Van De Wiel MA, Leday GG, Pardo L, Rue H, Van DerVaart AW, Van Wieringen WN. Bayesian analysis of RNA sequencing data by estimating multiple shrinkage priors. Biostatistics 2013, 14(1):113-128. 10.1093/biostatistics/kxs031, 22988280.
-
(2013)
Biostatistics
, vol.14
, Issue.1
, pp. 113-128
-
-
Van De Wiel, M.A.1
Leday, G.G.2
Pardo, L.3
Rue, H.4
Van DerVaart, A.W.5
Van Wieringen, W.N.6
-
22
-
-
84876263777
-
EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments
-
10.1093/bioinformatics/btt087, 23428641
-
Leng N, Dawson JA, Thomson JA, Ruotti V, Rissman AI, Smits BM, Haag JD, Gould MN, Stewart RM, Kendziorski C. EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments. Bioinformatics 2013, 29(8):1035-1043. 10.1093/bioinformatics/btt087, 23428641.
-
(2013)
Bioinformatics
, vol.29
, Issue.8
, pp. 1035-1043
-
-
Leng, N.1
Dawson, J.A.2
Thomson, J.A.3
Ruotti, V.4
Rissman, A.I.5
Smits, B.M.6
Haag, J.D.7
Gould, M.N.8
Stewart, R.M.9
Kendziorski, C.10
-
23
-
-
77950640840
-
Analyzing 'omics data using hierarchical models
-
10.1038/nbt.1619, 2904972, 20379180
-
Ji HK, Liu XS. Analyzing 'omics data using hierarchical models. Nat Biotechnol 2010, 28(4):337-340. 10.1038/nbt.1619, 2904972, 20379180.
-
(2010)
Nat Biotechnol
, vol.28
, Issue.4
, pp. 337-340
-
-
Ji, H.K.1
Liu, X.S.2
-
24
-
-
84972543992
-
Methods for approximating integrals in statistics with special emphasis on Bayesian integration problems
-
Evans M, Swartz T. Methods for approximating integrals in statistics with special emphasis on Bayesian integration problems. Stat Sci 1995, 10(3):254-272.
-
(1995)
Stat Sci
, vol.10
, Issue.3
, pp. 254-272
-
-
Evans, M.1
Swartz, T.2
-
25
-
-
79957882567
-
RNA-seq: technical variability and sampling
-
10.1186/1471-2164-12-293, 3141664, 21645359
-
McIntyre LM, Lopiano KK, Morse AM, Amin V, Oberg AL, Young LJ, Nuzhdin SV. RNA-seq: technical variability and sampling. BMC genomics 2011, 12:293. 10.1186/1471-2164-12-293, 3141664, 21645359.
-
(2011)
BMC genomics
, vol.12
, pp. 293
-
-
McIntyre, L.M.1
Lopiano, K.K.2
Morse, A.M.3
Amin, V.4
Oberg, A.L.5
Young, L.J.6
Nuzhdin, S.V.7
-
26
-
-
0037469123
-
Tests and diagnostics for heterogeneity in the species problem
-
Mao CX, Lindsay BG. Tests and diagnostics for heterogeneity in the species problem. Comput Stat Data An 2003, 41(3-4):389-398.
-
(2003)
Comput Stat Data An
, vol.41
, Issue.3-4
, pp. 389-398
-
-
Mao, C.X.1
Lindsay, B.G.2
-
27
-
-
50649089207
-
RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays
-
10.1101/gr.079558.108, 2527709, 18550803
-
Marioni JC, Mason CE, Mane SM, Stephens M, Gilad Y. RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. Genome res 2008, 18(9):1509-1517. 10.1101/gr.079558.108, 2527709, 18550803.
-
(2008)
Genome res
, vol.18
, Issue.9
, pp. 1509-1517
-
-
Marioni, J.C.1
Mason, C.E.2
Mane, S.M.3
Stephens, M.4
Gilad, Y.5
-
28
-
-
46249106990
-
Mapping and quantifying mammalian transcriptomes by RNA-Seq
-
10.1038/nmeth.1226, 18516045
-
Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B. Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nature methods 2008, 5(7):621-628. 10.1038/nmeth.1226, 18516045.
-
(2008)
Nature methods
, vol.5
, Issue.7
, pp. 621-628
-
-
Mortazavi, A.1
Williams, B.A.2
McCue, K.3
Schaeffer, L.4
Wold, B.5
-
29
-
-
33846104461
-
Inference on the number of species through geometric lower bounds
-
Mao CX. Inference on the number of species through geometric lower bounds. J Am Stat Assoc 2006, 101(476):1663-1670.
-
(2006)
J Am Stat Assoc
, vol.101
, Issue.476
, pp. 1663-1670
-
-
Mao, C.X.1
-
30
-
-
24644461134
-
A penalized nonparametric maximum likelihood approach to species richness estimation
-
Wang JPZ, Lindsay BG. A penalized nonparametric maximum likelihood approach to species richness estimation. J Am Stat Assoc 2005, 100(471):942-959.
-
(2005)
J Am Stat Assoc
, vol.100
, Issue.471
, pp. 942-959
-
-
Wang, J.P.Z.1
Lindsay, B.G.2
-
31
-
-
84863562292
-
Normalization, testing, and false discovery rate estimation for RNA-sequencing data
-
10.1093/biostatistics/kxr031, 3372940, 22003245
-
Li J, Witten DM, Johnstone IM, Tibshirani R. Normalization, testing, and false discovery rate estimation for RNA-sequencing data. Biostatistics 2012, 13(3):523-538. 10.1093/biostatistics/kxr031, 3372940, 22003245.
-
(2012)
Biostatistics
, vol.13
, Issue.3
, pp. 523-538
-
-
Li, J.1
Witten, D.M.2
Johnstone, I.M.3
Tibshirani, R.4
-
32
-
-
77950458649
-
Transcriptome genetics using second generation sequencing in a Caucasian population
-
10.1038/nature08903, 20220756
-
Montgomery SB, Sammeth M, Gutierrez-Arcelus M, Lach RP, Ingle C, Nisbett J, Guigo R, Dermitzakis ET. Transcriptome genetics using second generation sequencing in a Caucasian population. Nature 2010, 464(7289):773-777. 10.1038/nature08903, 20220756.
-
(2010)
Nature
, vol.464
, Issue.7289
, pp. 773-777
-
-
Montgomery, S.B.1
Sammeth, M.2
Gutierrez-Arcelus, M.3
Lach, R.P.4
Ingle, C.5
Nisbett, J.6
Guigo, R.7
Dermitzakis, E.T.8
-
33
-
-
79955550445
-
A user's guide to the encyclopedia of DNA elements (ENCODE)
-
10.1371/journal.pbio.1001046, 3079585, 21526222
-
Consortium EP. A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS biol 2011, 9(4):e1001046. 10.1371/journal.pbio.1001046, 3079585, 21526222.
-
(2011)
PLoS biol
, vol.9
, Issue.4
-
-
Consortium, E.P.1
-
34
-
-
84866894408
-
Comprehensive genomic characterization of squamous cell lung cancers
-
10.1038/nature11404, 3466113, 22960745, Cancer Genome Atlas Research N
-
Hammerman PS, Hayes DN, Wilkerson MD, Schultz N, Bose R, Chu A, Collisson EA, Cope L, Creighton CJ, , et al. Cancer Genome Atlas Research N Comprehensive genomic characterization of squamous cell lung cancers. Nature 2012, 489(7417):519-525. 10.1038/nature11404, 3466113, 22960745, Cancer Genome Atlas Research N.
-
(2012)
Nature
, vol.489
, Issue.7417
, pp. 519-525
-
-
Hammerman, P.S.1
Hayes, D.N.2
Wilkerson, M.D.3
Schultz, N.4
Bose, R.5
Chu, A.6
Collisson, E.A.7
Cope, L.8
Creighton, C.J.9
-
35
-
-
84859885816
-
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
-
10.1038/nprot.2012.016, 3334321, 22383036
-
Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, Pimentel H, Salzberg SL, Rinn JL, Pachter L. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat Protoc 2012, 7(3):562-578. 10.1038/nprot.2012.016, 3334321, 22383036.
-
(2012)
Nat Protoc
, vol.7
, Issue.3
, pp. 562-578
-
-
Trapnell, C.1
Roberts, A.2
Goff, L.3
Pertea, G.4
Kim, D.5
Kelley, D.R.6
Pimentel, H.7
Salzberg, S.L.8
Rinn, J.L.9
Pachter, L.10
-
36
-
-
84863992953
-
Identifying differentially expressed transcripts from RNA-seq data with biological variation
-
10.1093/bioinformatics/bts260, 3381971, 22563066
-
Glaus P, Honkela A, Rattray M. Identifying differentially expressed transcripts from RNA-seq data with biological variation. Bioinformatics 2012, 28(13):1721-1728. 10.1093/bioinformatics/bts260, 3381971, 22563066.
-
(2012)
Bioinformatics
, vol.28
, Issue.13
, pp. 1721-1728
-
-
Glaus, P.1
Honkela, A.2
Rattray, M.3
-
37
-
-
84865527768
-
Detecting differential usage of exons from RNA-seq data
-
10.1101/gr.133744.111, 3460195, 22722343
-
Anders S, Reyes A, Huber W. Detecting differential usage of exons from RNA-seq data. Genome res 2012, 22(10):2008-2017. 10.1101/gr.133744.111, 3460195, 22722343.
-
(2012)
Genome res
, vol.22
, Issue.10
, pp. 2008-2017
-
-
Anders, S.1
Reyes, A.2
Huber, W.3
-
38
-
-
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, et al. 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
-
39
-
-
36448981743
-
Moderated statistical tests for assessing differences in tag abundance
-
10.1093/bioinformatics/btm453, 17881408
-
Robinson MD, Smyth GK. Moderated statistical tests for assessing differences in tag abundance. Bioinformatics 2007, 23(21):2881-2887. 10.1093/bioinformatics/btm453, 17881408.
-
(2007)
Bioinformatics
, vol.23
, Issue.21
, pp. 2881-2887
-
-
Robinson, M.D.1
Smyth, G.K.2
-
40
-
-
33748503420
-
Evaluation of DNA microarray results with quantitative gene expression platforms
-
10.1038/nbt1236, 16964225
-
Canales RD, Luo Y, Willey JC, Austermiller B, Barbacioru CC, Boysen C, Hunkapiller K, Jensen RV, Knight CR, Lee KY, et al. Evaluation of DNA microarray results with quantitative gene expression platforms. Nat Biotechnol 2006, 24(9):1115-1122. 10.1038/nbt1236, 16964225.
-
(2006)
Nat Biotechnol
, vol.24
, Issue.9
, pp. 1115-1122
-
-
Canales, R.D.1
Luo, Y.2
Willey, J.C.3
Austermiller, B.4
Barbacioru, C.C.5
Boysen, C.6
Hunkapiller, K.7
Jensen, R.V.8
Knight, C.R.9
Lee, K.Y.10
-
41
-
-
33748491517
-
The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements
-
10.1038/nbt1239, 3272078, 16964229
-
Shi L, Reid LH, Jones WD, Shippy R, Warrington JA, Baker SC, Collins PJ, De Longueville F, Kawasaki ES, Lee KY, et al. The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements. Nat Biotechnol 2006, 24(9):1151-1161. 10.1038/nbt1239, 3272078, 16964229.
-
(2006)
Nat Biotechnol
, vol.24
, Issue.9
, pp. 1151-1161
-
-
Shi, L.1
Reid, L.H.2
Jones, W.D.3
Shippy, R.4
Warrington, J.A.5
Baker, S.C.6
Collins, P.J.7
De Longueville, F.8
Kawasaki, E.S.9
Lee, K.Y.10
-
42
-
-
44949231424
-
Analyzing real-time PCR data by the comparative C(T) method
-
10.1038/nprot.2008.73, 18546601
-
Schmittgen TD, Livak KJ. Analyzing real-time PCR data by the comparative C(T) method. Nat Protoc 2008, 3(6):1101-1108. 10.1038/nprot.2008.73, 18546601.
-
(2008)
Nat Protoc
, vol.3
, Issue.6
, pp. 1101-1108
-
-
Schmittgen, T.D.1
Livak, K.J.2
-
43
-
-
24044522270
-
BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis
-
10.1093/bioinformatics/bti525, 16082012
-
Durinck S, Moreau Y, Kasprzyk A, Davis S, De Moor B, Brazma A, Huber W. BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis. Bioinformatics 2005, 21(16):3439-3440. 10.1093/bioinformatics/bti525, 16082012.
-
(2005)
Bioinformatics
, vol.21
, Issue.16
, pp. 3439-3440
-
-
Durinck, S.1
Moreau, Y.2
Kasprzyk, A.3
Davis, S.4
De Moor, B.5
Brazma, A.6
Huber, W.7
-
44
-
-
79551584794
-
Conservation of an RNA regulatory map between Drosophila and mammals
-
10.1101/gr.108662.110, 3032923, 20921232
-
Brooks AN, Yang L, Duff MO, Hansen KD, Park JW, Dudoit S, Brenner SE, Graveley BR. Conservation of an RNA regulatory map between Drosophila and mammals. Genome res 2011, 21(2):193-202. 10.1101/gr.108662.110, 3032923, 20921232.
-
(2011)
Genome res
, vol.21
, Issue.2
, pp. 193-202
-
-
Brooks, A.N.1
Yang, L.2
Duff, M.O.3
Hansen, K.D.4
Park, J.W.5
Dudoit, S.6
Brenner, S.E.7
Graveley, B.R.8
-
45
-
-
65649126066
-
Transcript length bias in RNA-seq data confounds systems biology
-
10.1186/1745-6150-4-14, 2678084, 19371405
-
Oshlack A, Wakefield MJ. Transcript length bias in RNA-seq data confounds systems biology. Biol Direct 2009, 4:14. 10.1186/1745-6150-4-14, 2678084, 19371405.
-
(2009)
Biol Direct
, vol.4
, pp. 14
-
-
Oshlack, A.1
Wakefield, M.J.2
-
46
-
-
84858068675
-
Removing technical variability in RNA-seq data using conditional quantile normalization
-
10.1093/biostatistics/kxr054, 3297825, 22285995
-
Hansen KD, Irizarry RA, Wu Z. Removing technical variability in RNA-seq data using conditional quantile normalization. Biostatistics 2012, 13(2):204-216. 10.1093/biostatistics/kxr054, 3297825, 22285995.
-
(2012)
Biostatistics
, vol.13
, Issue.2
, pp. 204-216
-
-
Hansen, K.D.1
Irizarry, R.A.2
Wu, Z.3
-
47
-
-
83455238345
-
GC-content normalization for RNA-Seq data
-
Risso D, Schwartz K, Sherlock G, Dudoit S. GC-content normalization for RNA-Seq data. BMC bioinf 2011, 12:480.
-
(2011)
BMC bioinf
, vol.12
, pp. 480
-
-
Risso, D.1
Schwartz, K.2
Sherlock, G.3
Dudoit, S.4
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