-
1
-
-
77953553548
-
Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays
-
Agarwal, A. et al. (2010) Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays. BMC Genomics, 11, 383.
-
(2010)
BMC Genomics
, vol.11
, pp. 383
-
-
Agarwal, A.1
-
2
-
-
84870815979
-
Discovering chimeric transcripts in paired-end RNA-seq data by using EricScript
-
Benelli, M. et al. (2012) Discovering chimeric transcripts in paired-end RNA-seq data by using EricScript. Bioinformatics, 28, 3232-3239.
-
(2012)
Bioinformatics
, vol.28
, pp. 3232-3239
-
-
Benelli, M.1
-
4
-
-
0032703998
-
D2-cluster: A validated method for clustering EST and full-length cDNAsequences
-
Burke, J. et al. (1999) d2-cluster: a validated method for clustering EST and full-length cDNAsequences. Genome Res., 9, 1135-1142.
-
(1999)
Genome Res.
, vol.9
, pp. 1135-1142
-
-
Burke, J.1
-
5
-
-
43149086380
-
ALLPATHS: de novo assembly of whole-genome shotgun microreads
-
Butler, J. et al. (2008) ALLPATHS: de novo assembly of whole-genome shotgun microreads. Genome Res., 18, 810-820.
-
(2008)
Genome Res.
, vol.18
, pp. 810-820
-
-
Butler, J.1
-
6
-
-
79961181125
-
UCHIME improves sensitivity and speed of chimera de- tection
-
Edgar, R.C. et al. (2011) UCHIME improves sensitivity and speed of chimera de- tection. Bioinformatics, 2194-2200.
-
(2011)
Bioinformatics
, pp. 2194-2200
-
-
Edgar, R.C.1
-
7
-
-
84866041346
-
RNA-Seq reveals complex genetic response to deepwater horizon oil release in Fundulus grandis
-
Garcia, T.I. et al. (2012) RNA-Seq reveals complex genetic response to deepwater horizon oil release in Fundulus grandis. BMC Genomics, 13, 474.
-
(2012)
BMC Genomics
, vol.13
, pp. 474
-
-
Garcia, T.I.1
-
8
-
-
79960264362
-
Full-length transcriptome assembly from RNA-Seq data without a reference genome
-
Grabherr, M.G. et al. (2011) Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat. Biotechnol., 29, 644-652.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 644-652
-
-
Grabherr, M.G.1
-
9
-
-
80054003528
-
ChimeraScan: A tool for identifying chimeric transcription in sequencing data
-
Iyer, M.K. et al. (2011) ChimeraScan: a tool for identifying chimeric transcription in sequencing data. Bioinformatics, 2093-2094.
-
(2011)
Bioinformatics
, pp. 2093-2094
-
-
Iyer, M.K.1
-
10
-
-
80052521697
-
Synthetic spike-in standards for RNA-seq experiments
-
Jiang, L. et al. (2011) Synthetic spike-in standards for RNA-seq experiments. Genome Res., 21, 1543-1551.
-
(2011)
Genome Res.
, vol.21
, pp. 1543-1551
-
-
Jiang, L.1
-
11
-
-
12144287461
-
Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22
-
Kampa, D. et al. (2004) Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22. Genome Res., 14, 331-342.
-
(2004)
Genome Res.
, vol.14
, pp. 331-342
-
-
Kampa, D.1
-
12
-
-
79960852002
-
Addressing challenges in the production and analysis of illumina sequencing data
-
Kircher, M. et al. (2011) Addressing challenges in the production and analysis of illumina sequencing data. BMC Genomics, 12, 382-395.
-
(2011)
BMC Genomics
, vol.12
, pp. 382-395
-
-
Kircher, M.1
-
13
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
Langmead, B. et al. (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol., 10, R25.
-
(2009)
Genome Biol.
, vol.10
-
-
Langmead, B.1
-
14
-
-
46249106990
-
Mapping and quantifying mammalian transcriptomes by RNA-Seq
-
Mortazavi, A. et al. (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat. Methods, 5, 621-628.
-
(2008)
Nat. Methods
, vol.5
, pp. 621-628
-
-
Mortazavi, A.1
-
15
-
-
0035859921
-
An Eulerian path approach to DNA fragment assembly
-
Pevzner, P. et al. (2001) An Eulerian path approach to DNA fragment assembly. Proc. Natl Acad. Sci. USA, 98, 9748-9753.
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 9748-9753
-
-
Pevzner, P.1
-
16
-
-
84859436530
-
NCBI Reference Sequences (RefSeq): Current status, new features and genome annotation policy
-
Pruitt, K.D. et al. (2012) NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy. Nucleic Acids Res., 40, D130-D135.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Pruitt, K.D.1
-
17
-
-
0037249498
-
The Arabidopsis Information Resource (TAIR): A model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community
-
Rhee, S.Y. et al. (2003) The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. Nucleic Acids Res., 31, 224-228.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 224-228
-
-
Rhee, S.Y.1
-
18
-
-
78049346632
-
De novo assembly and analysis of RNA-seq data
-
Robertson, G. et al. (2010) De novo assembly and analysis of RNA-seq data. Nat. Methods, 7, 909-912.
-
(2010)
Nat. Methods
, vol.7
, pp. 909-912
-
-
Robertson, G.1
-
19
-
-
84859768479
-
Oases: Robust de novo RNA-seq assembly across the dynamic range of expression levels
-
Schulz, M.H. et al. (2012) Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels. Bioinformatics, 28, 1086-1092.
-
(2012)
Bioinformatics
, vol.28
, pp. 1086-1092
-
-
Schulz, M.H.1
-
20
-
-
9144233601
-
Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage
-
Shiraki, T. et al. (2003) Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage. Proc. Natl Acad. Sci. USA, 100, 15776-15781.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 15776-15781
-
-
Shiraki, T.1
-
21
-
-
0042835830
-
Chromosomal translocations involved in non-Hodgkin lymphomas
-
Vega, F. and Medeiros, LJ. (2003) Chromosomal translocations involved in non-Hodgkin lymphomas. Arch. Pathol. Lab. Med., 127, 1148-1160.
-
(2003)
Arch. Pathol. Lab. Med.
, vol.127
, pp. 1148-1160
-
-
Vega, F.1
Medeiros, L.J.2
-
22
-
-
0028789793
-
Serial analysis of gene expression
-
Velculescu, V.E. et al. (1995) Serial analysis of gene expression. Science, 270, 484-487.
-
(1995)
Science
, vol.270
, pp. 484-487
-
-
Velculescu, V.E.1
-
23
-
-
18744383071
-
GMAP: A genomic mapping and alignment program for mRNA and EST sequences
-
Wu, T.D. and Watanabe, C.K. (2005) GMAP: a genomic mapping and alignment program for mRNA and EST sequences. Bioinformatics, 21, 1859-1875.
-
(2005)
Bioinformatics
, vol.21
, pp. 1859-1875
-
-
Wu, T.D.1
Watanabe, C.K.2
-
24
-
-
43149115851
-
Velvet: algorithms for de novo short read assembly using de Bruijn graphs
-
Zerbino, D. and Birney, E. (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res., 18, 821-829.
-
(2008)
Genome Res.
, vol.18
, pp. 821-829
-
-
Zerbino, D.1
Birney, E.2
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