-
1
-
-
84863143122
-
Current state-of-art of sequencing technologies for plant genomics research
-
22345601
-
Thudi M, Li Y, Jackson SA, May GD, Varshney RK. Current state-of-art of sequencing technologies for plant genomics research. Briefings in Functional Genomics. 2012;11(1):3-11. doi: 10.1093/bfgp/elr045 PMID: 22345601
-
(2012)
Briefings in Functional Genomics
, vol.11
, Issue.1
, pp. 3-11
-
-
Thudi, M.1
Li, Y.2
Jackson, S.A.3
May, G.D.4
Varshney, R.K.5
-
2
-
-
84879858533
-
Agriculture: Feeding the future
-
23823779
-
McCouch S, Baute GJ, Bradeen J, Bramel P, Bretting PK, Buckler E, et al. Agriculture: feeding the future. Nature. 2013;499(7456):23-24. doi: 10.1038/499023a PMID: 23823779
-
(2013)
Nature
, vol.499
, Issue.7456
, pp. 23-24
-
-
McCouch, S.1
Baute, G.J.2
Bradeen, J.3
Bramel, P.4
Bretting, P.K.5
Buckler, E.6
-
3
-
-
84862981255
-
Genome-wide genetic changes during modern breeding of maize
-
22660547
-
Jiao Y, Zhao H, Ren L, Song W, Zeng B, Guo J, et al. Genome-wide genetic changes during modern breeding of maize. Nature genetics. 2012;44(7):812-815. doi: 10.1038/ng.2312 PMID: 22660547
-
(2012)
Nature Genetics
, vol.44
, Issue.7
, pp. 812-815
-
-
Jiao, Y.1
Zhao, H.2
Ren, L.3
Song, W.4
Zeng, B.5
Guo, J.6
-
4
-
-
84893361639
-
Whole-genome sequencing reveals untapped genetic potential in Africa's indigenous cereal crop sorghum
-
23982223
-
Mace ES, Tai S, Gilding EK, Li Y, Prentis PJ, Bian L, et al. Whole-genome sequencing reveals untapped genetic potential in Africa's indigenous cereal crop sorghum. Nature communications. 2013;4. doi: 10.1038/ncomms3320 PMID: 23982223
-
(2013)
Nature Communications
, pp. 4
-
-
Mace, E.S.1
Tai, S.2
Gilding, E.K.3
Li, Y.4
Prentis, P.J.5
Bian, L.6
-
5
-
-
84875176954
-
Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement
-
23354103
-
Varshney RK, Song C, Saxena RK, Azam S, Yu S, Sharpe AG, et al. Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement. Nature biotechnology. 2013;31(3):240-246. doi: 10.1038/nbt.2491 PMID: 23354103
-
(2013)
Nature Biotechnology
, vol.31
, Issue.3
, pp. 240-246
-
-
Varshney, R.K.1
Song, C.2
Saxena, R.K.3
Azam, S.4
Yu, S.5
Sharpe, A.G.6
-
6
-
-
84891935788
-
When whole-genome alignments just won't work: Ksnp v2 software for alignmentfree SNP discovery and phylogenetics of hundreds of microbial genomes
-
24349125
-
Gardner SN, Hall BG. When whole-genome alignments just won't work: kSNP v2 software for alignmentfree SNP discovery and phylogenetics of hundreds of microbial genomes. PLoS One. 2013;8(12):e81760. doi: 10.1371/journal.pone.0081760 PMID: 24349125
-
(2013)
PLoS One
, vol.8
, Issue.12
, pp. e81760
-
-
Gardner, S.N.1
Hall, B.G.2
-
7
-
-
84899548242
-
Automated reconstruction of wholegenome phylogenies from short-sequence reads
-
24600054
-
Bertels F, Silander OK, Pachkov M, Rainey PB, van Nimwegen E. Automated reconstruction of wholegenome phylogenies from short-sequence reads. Molecular biology and evolution. 2014;31(5):1077-1088. doi: 10.1093/molbev/msu088 PMID: 24600054
-
(2014)
Molecular Biology and Evolution
, vol.31
, Issue.5
, pp. 1077-1088
-
-
Bertels, F.1
Silander, O.K.2
Pachkov, M.3
Rainey, P.B.4
Van Nimwegen, E.5
-
8
-
-
84856468953
-
NGS QC Toolkit: A toolkit for quality control of next generation sequencing data
-
22312429
-
Patel RK, Jain M. NGS QC Toolkit: a toolkit for quality control of next generation sequencing data. PloS one. 2012;7(2):e30619. doi: 10.1371/journal.pone.0030619 PMID: 22312429
-
(2012)
PloS One
, vol.7
, Issue.2
, pp. e30619
-
-
Patel, R.K.1
Jain, M.2
-
9
-
-
84907143655
-
HTSeq-A Python framework to work with high-throughput sequencing data
-
Anders S, Pyl PT, Huber W. HTSeq-A Python framework to work with high-throughput sequencing data. Bioinformatics. 2014; btu638.
-
(2014)
Bioinformatics
, pp. btu638
-
-
Anders, S.1
Pyl, P.T.2
Huber, W.3
-
10
-
-
77951226627
-
The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants
-
20015970
-
Cock PJ, Fields CJ, Goto N, Heuer ML, Rice PM. The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants. Nucleic acids research. 2010;38(6):1767-1771. doi: 10.1093/nar/gkp1137 PMID: 20015970
-
(2010)
Nucleic Acids Research
, vol.38
, Issue.6
, pp. 1767-1771
-
-
Cock, P.J.1
Fields, C.J.2
Goto, N.3
Heuer, M.L.4
Rice, P.M.5
-
11
-
-
84861746974
-
Bpipe: A tool for running and managing bioinformatics pipelines
-
22500002
-
Sadedin SP, Pope B, Oshlack A. Bpipe: a tool for running and managing bioinformatics pipelines. Bioinformatics. 2012;28(11):1525-1526. doi: 10.1093/bioinformatics/bts167 PMID: 22500002
-
(2012)
Bioinformatics
, vol.28
, Issue.11
, pp. 1525-1526
-
-
Sadedin, S.P.1
Pope, B.2
Oshlack, A.3
-
12
-
-
84859210032
-
Fast gapped-read alignment with Bowtie 2
-
22388286
-
Langmead B, Salzberg SL. Fast gapped-read alignment with Bowtie 2. Nature methods. 2012;9(4):357-359. doi: 10.1038/nmeth.1923 PMID: 22388286
-
(2012)
Nature Methods
, vol.9
, Issue.4
, pp. 357-359
-
-
Langmead, B.1
Salzberg, S.L.2
-
13
-
-
68549104404
-
The sequence alignment/map format and SAMtools
-
19505943
-
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, et al. The sequence alignment/map format and SAMtools. Bioinformatics. 2009;25(16):2078-2079. doi: 10.1093/bioinformatics/btp352 PMID: 19505943
-
(2009)
Bioinformatics
, vol.25
, Issue.16
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
Homer, N.6
-
14
-
-
77951770756
-
BEDTools: A flexible suite of utilities for comparing genomic features
-
20110278
-
Quinlan AR, Hall IM. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics. 2010;26(6):841-842. doi: 10.1093/bioinformatics/btq033 PMID: 20110278
-
(2010)
Bioinformatics
, vol.26
, Issue.6
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
15
-
-
79952422304
-
Quality control and preprocessing of metagenomic datasets
-
21278185
-
Schmieder R, Edwards R. Quality control and preprocessing of metagenomic datasets. Bioinformatics. 2011;27(6):863-864 doi: 10.1093/bioinformatics/btr026 PMID: 21278185
-
(2011)
Bioinformatics
, vol.27
, Issue.6
, pp. 863-864
-
-
Schmieder, R.1
Edwards, R.2
-
16
-
-
84857145150
-
ART: A next-generation sequencing read simulator
-
22199392
-
Huang W, Li L, Myers JR, Marth GT. ART: a next-generation sequencing read simulator. Bioinformatics. 2012;28(4):593-594. doi: 10.1093/bioinformatics/btr708 PMID: 22199392
-
(2012)
Bioinformatics
, vol.28
, Issue.4
, pp. 593-594
-
-
Huang, W.1
Li, L.2
Myers, J.R.3
Marth, G.T.4
-
17
-
-
84858593012
-
The iPlant collaborative: Cyberinfrastructure for plant biology
-
22645531
-
Goff SA, Vaughn M, McKay S, Lyons E, Stapleton AE, Gessler D, et al. The iPlant collaborative: cyberinfrastructure for plant biology. Frontiers in plant science. 2011;2. doi: 10.3389/fpls.2011.00034 PMID: 22645531
-
(2011)
Frontiers in Plant Science
, pp. 2
-
-
Goff, S.A.1
Vaughn, M.2
McKay, S.3
Lyons, E.4
Stapleton, A.E.5
Gessler, D.6
|