-
1
-
-
84920550975
-
A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequence Quality Control consortium
-
SEQC/MAQC-III Consortium: A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequence Quality Control consortium. Nature Biotechnology. 2014
-
(2014)
Nature Biotechnology
-
-
-
2
-
-
84922578455
-
Multi-Platform Assessment of Transcriptome Profiling Using RNA-Seq in the ABRF Next Generation Sequencing Study
-
Li S, Tighe SW, Nicolet CM, Grove D, Levy S, Farmerie W, Viale A, Wright C, Schweitzer PA, Gao KD, Boland J, Hicks B, Kim R, Chhangawala S, Jafari D, Raghavachari N, Gandara J, Garcia-Reyero N, Hendrickson C, Roberson D, Rosenfeld JA, Smith T, Underwood JG, Wang M, Zumbo P, Baldwin DA, Grills GS, Mason CE: Multi-Platform Assessment of Transcriptome Profiling Using RNA-Seq in the ABRF Next Generation Sequencing Study. Nature Biotechnology. 2014
-
(2014)
Nature Biotechnology
-
-
Li, S.1
Tighe, S.W.2
Nicolet, C.M.3
Grove, D.4
Levy, S.5
Farmerie, W.6
Viale, A.7
Wright, C.8
Schweitzer, P.A.9
Gao, K.D.10
Boland, J.11
Hicks, B.12
Kim, R.13
Chhangawala, S.14
Jafari, D.15
Raghavachari, N.16
Gandara, J.17
Garcia-Reyero, N.18
Hendrickson, C.19
Roberson, D.20
Rosenfeld, J.A.21
Smith, T.22
Underwood, J.G.23
Wang, M.24
Zumbo, P.25
Baldwin, D.A.26
Grills, G.S.27
Mason, C.E.28
more..
-
3
-
-
84883644707
-
Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data
-
Rapaport F, Khanin R, Liang Y, Pirun M, Krek A, Zumbo P, Mason C, Socci N, Betel D: Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data. Genome Biology. 2013, 14: R95-10.1186/gb-2013-14-9-r95.
-
(2013)
Genome Biology
, vol.14
, pp. R95
-
-
Rapaport, F.1
Khanin, R.2
Liang, Y.3
Pirun, M.4
Krek, A.5
Zumbo, P.6
Mason, C.7
Socci, N.8
Betel, D.9
-
4
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol. 1990, 215: 403-410. 10.1016/S0022-2836(05)80360-2.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
5
-
-
24644503098
-
Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
-
Conesa A, Götz S, Garcia-Gomez JM, Terol J, Talon M, Robles M: Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics. 2005, 21: 3674-3676. 10.1093/bioinformatics/bti610.
-
(2005)
Bioinformatics
, vol.21
, pp. 3674-3676
-
-
Conesa, A.1
Götz, S.2
Garcia-Gomez, J.M.3
Terol, J.4
Talon, M.5
Robles, M.6
-
6
-
-
84899518211
-
InterProScan 5: genome-scale protein function classification
-
Jones P, Binns D, Chang HY, Fraser M, Li W, McAnulla C, McWilliam H, Maslen J, Mitchell A, Nuka G, Pesseat S, Quinn AF, Sangrador-Vegas A, Scheremetjew M, Yong SY, Lopez R, Hunter S: InterProScan 5: genome-scale protein function classification. Bioinformatics. 2014, 30 (9): 1236-1240. 10.1093/bioinformatics/btu031.
-
(2014)
Bioinformatics
, vol.30
, Issue.9
, pp. 1236-1240
-
-
Jones, P.1
Binns, D.2
Chang, H.Y.3
Fraser, M.4
Li, W.5
McAnulla, C.6
McWilliam, H.7
Maslen, J.8
Mitchell, A.9
Nuka, G.10
Pesseat, S.11
Quinn, A.F.12
Sangrador-Vegas, A.13
Scheremetjew, M.14
Yong, S.Y.15
Lopez, R.16
Hunter, S.17
-
7
-
-
0033982936
-
KEGG: Kyoto Encyclopedia of Genes and Genomes
-
Kanehisa M, Goto S: KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Research. 2000, 28: 27-30. 10.1093/nar/28.1.27.
-
(2000)
Nucleic Acids Research
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
8
-
-
0033044432
-
Register of australian herbage plant cultivars. a grasses 3. phalaris phalaris aquatica l. (phalaris) cv atlas pg
-
Oram RN: Register of australian herbage plant cultivars. a grasses 3. phalaris phalaris aquatica l. (phalaris) cv atlas pg. Australian Journal of Experimental Agriculture. 1999, 39: 231-233.
-
(1999)
Australian Journal of Experimental Agriculture
, vol.39
, pp. 231-233
-
-
Oram, R.N.1
-
9
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li H, Durbin R: Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics. 2009, 25: 1754-1760. 10.1093/bioinformatics/btp324.
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
10
-
-
84886221203
-
CYP709B3, a cytochrome P450 monooxygenase gene involved in salt tolerance in Arabidopsis thaliana
-
Mao G, Seebeck T, Schrenker D, Yu O: CYP709B3, a cytochrome P450 monooxygenase gene involved in salt tolerance in Arabidopsis thaliana. BMC Plant Biology. 2013, 13 (1): 169-10.1186/1471-2229-13-169.
-
(2013)
BMC Plant Biology
, vol.13
, Issue.1
, pp. 169
-
-
Mao, G.1
Seebeck, T.2
Schrenker, D.3
Yu, O.4
-
11
-
-
77953176036
-
A scaling normalization method for differential expression analysis of RNA-seq data
-
Robinson MD, Oshlack A: A scaling normalization method for differential expression analysis of RNA-seq data. Genome Biology. 2010, 11 (3): R25-10.1186/gb-2010-11-3-r25.
-
(2010)
Genome Biology
, vol.11
, Issue.3
, pp. R25
-
-
Robinson, M.D.1
Oshlack, A.2
-
13
-
-
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 Bioinformatics. 2010, 11: 442-10.1186/1471-2105-11-442.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 442
-
-
Hardcastle, T.J.1
Kelly, K.A.2
-
14
-
-
75249087100
-
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
-
Robinson MD, McCarthy DJ, Smyth GK: edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics. 2010, 26: 139-140. 10.1093/bioinformatics/btp616.
-
(2010)
Bioinformatics
, vol.26
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
15
-
-
84877934435
-
Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size
-
Yu D, Huber W, Vitek O: Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size. Bioinformatics. 2013, 29: 1275-1282. 10.1093/bioinformatics/btt143.
-
(2013)
Bioinformatics
, vol.29
, pp. 1275-1282
-
-
Yu, D.1
Huber, W.2
Vitek, O.3
|