-
1
-
-
65449144325
-
Evaluation of next generation sequencing platforms for population targeted sequencing studies
-
10.1186/gb-2009-10-3-r32, 2691003, 19327155
-
Harismendy O, Ng PC, Strausberg RL, Wang X, Stockwell TB, Beeson KY, Schork NJ, Murray SS, Topol EJ, Levy S, et al. Evaluation of next generation sequencing platforms for population targeted sequencing studies. Genome Biol 2009, 10(3):R32. 10.1186/gb-2009-10-3-r32, 2691003, 19327155.
-
(2009)
Genome Biol
, vol.10
, Issue.3
-
-
Harismendy, O.1
Ng, P.C.2
Strausberg, R.L.3
Wang, X.4
Stockwell, T.B.5
Beeson, K.Y.6
Schork, N.J.7
Murray, S.S.8
Topol, E.J.9
Levy, S.10
-
2
-
-
33845985328
-
Signatures from tissue-specific MPSS libraries identify transcripts preferentially expressed in the mouse inner ear
-
10.1016/j.ygeno.2006.09.006, 1847387, 17049805
-
Peters LM, Belyantseva IA, Lagziel A, Battey JF, Friedman TB, Morell RJ. Signatures from tissue-specific MPSS libraries identify transcripts preferentially expressed in the mouse inner ear. Genomics 2007, 89(2):197-206. 10.1016/j.ygeno.2006.09.006, 1847387, 17049805.
-
(2007)
Genomics
, vol.89
, Issue.2
, pp. 197-206
-
-
Peters, L.M.1
Belyantseva, I.A.2
Lagziel, A.3
Battey, J.F.4
Friedman, T.B.5
Morell, R.J.6
-
3
-
-
57349168544
-
Transcriptome-wide identification of novel imprinted genes in neonatal mouse brain
-
10.1371/journal.pone.0003839, 2585789, 19052635
-
Wang X, Sun Q, McGrath SD, Mardis ER, Soloway PD, Clark AG. Transcriptome-wide identification of novel imprinted genes in neonatal mouse brain. PLoS One 2008, 3(12):e3839. 10.1371/journal.pone.0003839, 2585789, 19052635.
-
(2008)
PLoS One
, vol.3
, Issue.12
-
-
Wang, X.1
Sun, Q.2
McGrath, S.D.3
Mardis, E.R.4
Soloway, P.D.5
Clark, A.G.6
-
4
-
-
62549126083
-
Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing
-
10.1073/pnas.0812841106, 2638735, 19208812
-
Yassour M, Kaplan T, Fraser HB, Levin JZ, Pfiffner J, Adiconis X, Schroth G, Luo S, Khrebtukova I, Gnirke A, et al. Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing. Proc Natl Acad Sci USA 2009, 106(9):3264-3269. 10.1073/pnas.0812841106, 2638735, 19208812.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, Issue.9
, pp. 3264-3269
-
-
Yassour, M.1
Kaplan, T.2
Fraser, H.B.3
Levin, J.Z.4
Pfiffner, J.5
Adiconis, X.6
Schroth, G.7
Luo, S.8
Khrebtukova, I.9
Gnirke, A.10
-
5
-
-
70349668297
-
Genomic diversity and evolution of Mycobacterium ulcerans revealed by next-generation sequencing
-
10.1371/journal.ppat.1000580, 2736377, 19806175
-
Qi W, Kaser M, Roltgen K, Yeboah-Manu D, Pluschke G. Genomic diversity and evolution of Mycobacterium ulcerans revealed by next-generation sequencing. PLoS Pathog 2009, 5(9):e1000580. 10.1371/journal.ppat.1000580, 2736377, 19806175.
-
(2009)
PLoS Pathog
, vol.5
, Issue.9
-
-
Qi, W.1
Kaser, M.2
Roltgen, K.3
Yeboah-Manu, D.4
Pluschke, G.5
-
6
-
-
64749090107
-
Single nucleotide polymorphism (SNP) discovery in the polyploid Brassica napus using Solexa transcriptome sequencing
-
10.1111/j.1467-7652.2008.00396.x, 19207216
-
Trick M, Long Y, Meng J, Bancroft I. Single nucleotide polymorphism (SNP) discovery in the polyploid Brassica napus using Solexa transcriptome sequencing. Plant Biotechnol J 2009, 7(4):334-346. 10.1111/j.1467-7652.2008.00396.x, 19207216.
-
(2009)
Plant Biotechnol J
, vol.7
, Issue.4
, pp. 334-346
-
-
Trick, M.1
Long, Y.2
Meng, J.3
Bancroft, I.4
-
7
-
-
38749149152
-
Whole-genome sequencing and variant discovery in C. elegans
-
10.1038/nmeth.1179, 18204455
-
Hillier LW, Marth GT, Quinlan AR, Dooling D, Fewell G, Barnett D, Fox P, Glasscock JI, Hickenbotham M, Huang W, et al. Whole-genome sequencing and variant discovery in C. elegans. Nat Methods 2008, 5(2):183-188. 10.1038/nmeth.1179, 18204455.
-
(2008)
Nat Methods
, vol.5
, Issue.2
, pp. 183-188
-
-
Hillier, L.W.1
Marth, G.T.2
Quinlan, A.R.3
Dooling, D.4
Fewell, G.5
Barnett, D.6
Fox, P.7
Glasscock, J.I.8
Hickenbotham, M.9
Huang, W.10
-
8
-
-
58149200962
-
Comparing platforms for C. elegans mutant identification using high-throughput whole-genome sequencing
-
10.1371/journal.pone.0004012, 2603312, 19107202
-
Shen Y, Sarin S, Liu Y, Hobert O, Pe'er I. Comparing platforms for C. elegans mutant identification using high-throughput whole-genome sequencing. PLoS One 2008, 3(12):e4012. 10.1371/journal.pone.0004012, 2603312, 19107202.
-
(2008)
PLoS One
, vol.3
, Issue.12
-
-
Shen, Y.1
Sarin, S.2
Liu, Y.3
Hobert, O.4
Pe'er, I.5
-
9
-
-
48349124258
-
High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi
-
10.1038/ng.195, 2652037, 18660809
-
Holt KE, Parkhill J, Mazzoni CJ, Roumagnac P, Weill FX, Goodhead I, Rance R, Baker S, Maskell DJ, Wain J, et al. High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi. Nat Genet 2008, 40(8):987-993. 10.1038/ng.195, 2652037, 18660809.
-
(2008)
Nat Genet
, vol.40
, Issue.8
, pp. 987-993
-
-
Holt, K.E.1
Parkhill, J.2
Mazzoni, C.J.3
Roumagnac, P.4
Weill, F.X.5
Goodhead, I.6
Rance, R.7
Baker, S.8
Maskell, D.J.9
Wain, J.10
-
10
-
-
74049132798
-
WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads
-
10.1186/1471-2105-10-430, 2801688, 20021646
-
Gerlach W, Junemann S, Tille F, Goesmann A, Stoye J. WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads. BMC Bioinformatics 2009, 10:430. 10.1186/1471-2105-10-430, 2801688, 20021646.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 430
-
-
Gerlach, W.1
Junemann, S.2
Tille, F.3
Goesmann, A.4
Stoye, J.5
-
11
-
-
10344227692
-
Metagenomics: application of genomics to uncultured microorganisms
-
10.1128/MMBR.68.4.669-685.2004, 539003, 15590779
-
Handelsman J. Metagenomics: application of genomics to uncultured microorganisms. Microbiol Mol Biol Rev 2004, 68(4):669-685. 10.1128/MMBR.68.4.669-685.2004, 539003, 15590779.
-
(2004)
Microbiol Mol Biol Rev
, vol.68
, Issue.4
, pp. 669-685
-
-
Handelsman, J.1
-
12
-
-
41649106136
-
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
-
10.1101/gr.7179508, 2279248, 18285502
-
Morin RD, O'Connor MD, Griffith M, Kuchenbauer F, Delaney A, Prabhu AL, Zhao Y, McDonald H, Zeng T, Hirst M, et al. Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Res 2008, 18(4):610-621. 10.1101/gr.7179508, 2279248, 18285502.
-
(2008)
Genome Res
, vol.18
, Issue.4
, pp. 610-621
-
-
Morin, R.D.1
O'Connor, M.D.2
Griffith, M.3
Kuchenbauer, F.4
Delaney, A.5
Prabhu, A.L.6
Zhao, Y.7
McDonald, H.8
Zeng, T.9
Hirst, M.10
-
13
-
-
44849106063
-
A microRNA catalog of the developing chicken embryo identified by a deep sequencing approach
-
10.1101/gr.074740.107, 2413163, 18469162
-
Glazov EA, Cottee PA, Barris WC, Moore RJ, Dalrymple BP, Tizard ML. A microRNA catalog of the developing chicken embryo identified by a deep sequencing approach. Genome Res 2008, 18(6):957-964. 10.1101/gr.074740.107, 2413163, 18469162.
-
(2008)
Genome Res
, vol.18
, Issue.6
, pp. 957-964
-
-
Glazov, E.A.1
Cottee, P.A.2
Barris, W.C.3
Moore, R.J.4
Dalrymple, B.P.5
Tizard, M.L.6
-
14
-
-
58549086017
-
The deep evolution of metazoan microRNAs
-
10.1111/j.1525-142X.2008.00302.x, 19196333
-
Wheeler BM, Heimberg AM, Moy VN, Sperling EA, Holstein TW, Heber S, Peterson KJ. The deep evolution of metazoan microRNAs. Evol Dev 2009, 11(1):50-68. 10.1111/j.1525-142X.2008.00302.x, 19196333.
-
(2009)
Evol Dev
, vol.11
, Issue.1
, pp. 50-68
-
-
Wheeler, B.M.1
Heimberg, A.M.2
Moy, V.N.3
Sperling, E.A.4
Holstein, T.W.5
Heber, S.6
Peterson, K.J.7
-
15
-
-
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(3):403-410.
-
(1990)
J Mol Biol
, vol.215
, Issue.3
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
16
-
-
69749106334
-
RazerS--fast read mapping with sensitivity control
-
10.1101/gr.088823.108, 2752123, 19592482
-
Weese D, Emde AK, Rausch T, Doring A, Reinert K. RazerS--fast read mapping with sensitivity control. Genome Res 2009, 19(9):1646-1654. 10.1101/gr.088823.108, 2752123, 19592482.
-
(2009)
Genome Res
, vol.19
, Issue.9
, pp. 1646-1654
-
-
Weese, D.1
Emde, A.K.2
Rausch, T.3
Doring, A.4
Reinert, K.5
-
17
-
-
53749083993
-
SeqMap: mapping massive amount of oligonucleotides to the genome
-
10.1093/bioinformatics/btn429, 2562015, 18697769
-
Jiang H, Wong WH. SeqMap: mapping massive amount of oligonucleotides to the genome. Bioinformatics 2008, 24(20):2395-2396. 10.1093/bioinformatics/btn429, 2562015, 18697769.
-
(2008)
Bioinformatics
, vol.24
, Issue.20
, pp. 2395-2396
-
-
Jiang, H.1
Wong, W.H.2
-
18
-
-
67650711615
-
SOAP2: an improved ultrafast tool for short read alignment
-
10.1093/bioinformatics/btp336, 19497933
-
Li R, Yu C, Li Y, Lam TW, Yiu SM, Kristiansen K, Wang J. SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 2009, 25(15):1966-1967. 10.1093/bioinformatics/btp336, 19497933.
-
(2009)
Bioinformatics
, vol.25
, Issue.15
, pp. 1966-1967
-
-
Li, R.1
Yu, C.2
Li, Y.3
Lam, T.W.4
Yiu, S.M.5
Kristiansen, K.6
Wang, J.7
-
19
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
10.1093/bioinformatics/btp324, 2705234, 19451168
-
Li H, Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 2009, 25(14):1754-1760. 10.1093/bioinformatics/btp324, 2705234, 19451168.
-
(2009)
Bioinformatics
, vol.25
, Issue.14
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
20
-
-
55549097836
-
Mapping short DNA sequencing reads and calling variants using mapping quality scores
-
10.1101/gr.078212.108, 2577856, 18714091
-
Li H, Ruan J, Durbin R. Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res 2008, 18(11):1851-1858. 10.1101/gr.078212.108, 2577856, 18714091.
-
(2008)
Genome Res
, vol.18
, Issue.11
, pp. 1851-1858
-
-
Li, H.1
Ruan, J.2
Durbin, R.3
-
21
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
10.1186/gb-2009-10-3-r25, 2690996, 19261174
-
Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 2009, 10(3):R25. 10.1186/gb-2009-10-3-r25, 2690996, 19261174.
-
(2009)
Genome Biol
, vol.10
, Issue.3
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
22
-
-
67349170750
-
Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: a generic method for diagnosis, discovery and sequencing of viruses
-
10.1016/j.virol.2009.03.024, 19394993
-
Kreuze JF, Perez A, Untiveros M, Quispe D, Fuentes S, Barker I, Simon R. Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: a generic method for diagnosis, discovery and sequencing of viruses. Virology 2009, 388(1):1-7. 10.1016/j.virol.2009.03.024, 19394993.
-
(2009)
Virology
, vol.388
, Issue.1
, pp. 1-7
-
-
Kreuze, J.F.1
Perez, A.2
Untiveros, M.3
Quispe, D.4
Fuentes, S.5
Barker, I.6
Simon, R.7
-
23
-
-
65449136284
-
TopHat: discovering splice junctions with RNA-Seq
-
10.1093/bioinformatics/btp120, 2672628, 19289445
-
Trapnell C, Pachter L, Salzberg SL. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 2009, 25(9):1105-1111. 10.1093/bioinformatics/btp120, 2672628, 19289445.
-
(2009)
Bioinformatics
, vol.25
, Issue.9
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
24
-
-
76249103869
-
Virus discovery by deep sequencing and assembly of virus-derived small silencing RNAs
-
10.1073/pnas.0911353107, 2824396, 20080648
-
Wu Q, Luo Y, Lu R, Lau N, Lai EC, Li WX, Ding SW. Virus discovery by deep sequencing and assembly of virus-derived small silencing RNAs. Proc Natl Acad Sci USA 2010, 107(4):1606-1611. 10.1073/pnas.0911353107, 2824396, 20080648.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, Issue.4
, pp. 1606-1611
-
-
Wu, Q.1
Luo, Y.2
Lu, R.3
Lau, N.4
Lai, E.C.5
Li, W.X.6
Ding, S.W.7
-
25
-
-
58149178579
-
NCBI Reference Sequences: current status, policy and new initiatives
-
Database issue, 10.1093/nar/gkn721, 2686572, 18927115
-
Pruitt KD, Tatusova T, Klimke W, Maglott DR. NCBI Reference Sequences: current status, policy and new initiatives. Nucleic Acids Res 2009, 37(Database issue):D32-36. 10.1093/nar/gkn721, 2686572, 18927115.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Pruitt, K.D.1
Tatusova, T.2
Klimke, W.3
Maglott, D.R.4
-
26
-
-
75549089967
-
The UCSC Genome Browser database: update 2010
-
Database issue, 10.1093/nar/gkp939, 2808870, 19906737
-
Rhead B, Karolchik D, Kuhn RM, Hinrichs AS, Zweig AS, Fujita PA, Diekhans M, Smith KE, Rosenbloom KR, Raney BJ, et al. The UCSC Genome Browser database: update 2010. Nucleic Acids Res 2010, 38(Database issue):D613-619. 10.1093/nar/gkp939, 2808870, 19906737.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Rhead, B.1
Karolchik, D.2
Kuhn, R.M.3
Hinrichs, A.S.4
Zweig, A.S.5
Fujita, P.A.6
Diekhans, M.7
Smith, K.E.8
Rosenbloom, K.R.9
Raney, B.J.10
-
27
-
-
77952680189
-
Identification of homologous microRNAs in 56 animal genomes
-
10.1016/j.ygeno.2010.03.009, 20347954
-
Li SC, Chan WC, Hu LY, Lai CH, Hsu CN, Lin WC. Identification of homologous microRNAs in 56 animal genomes. Genomics 2010, 96(1):1-9. 10.1016/j.ygeno.2010.03.009, 20347954.
-
(2010)
Genomics
, vol.96
, Issue.1
, pp. 1-9
-
-
Li, S.C.1
Chan, W.C.2
Hu, L.Y.3
Lai, C.H.4
Hsu, C.N.5
Lin, W.C.6
-
28
-
-
38549083644
-
Vir-Mir db: prediction of viral microRNA candidate hairpins
-
Database issue, 2238904, 17702763
-
Li SC, Shiau CK, Lin WC. Vir-Mir db: prediction of viral microRNA candidate hairpins. Nucleic Acids Res 2008, 36(Database issue):D184-189. 2238904, 17702763.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Li, S.C.1
Shiau, C.K.2
Lin, W.C.3
-
29
-
-
33645958296
-
Virus-encoded microRNAs: novel regulators of gene expression
-
10.1016/j.tim.2006.02.007, 16531046
-
Nair V, Zavolan M. Virus-encoded microRNAs: novel regulators of gene expression. Trends Microbiol 2006, 14(4):169-175. 10.1016/j.tim.2006.02.007, 16531046.
-
(2006)
Trends Microbiol
, vol.14
, Issue.4
, pp. 169-175
-
-
Nair, V.1
Zavolan, M.2
-
30
-
-
33745249539
-
Viruses and microRNAs
-
10.1038/ng1793, 16736021
-
Cullen BR. Viruses and microRNAs. Nat Genet 2006, 38 Suppl:S25-30. 10.1038/ng1793, 16736021.
-
(2006)
Nat Genet
, vol.38 Suppl
-
-
Cullen, B.R.1
-
31
-
-
74049164557
-
Identification and characterization of novel amphioxus microRNAs by Solexa sequencing
-
10.1186/gb-2009-10-7-r78, 2728532, 19615057
-
Chen X, Li Q, Wang J, Guo X, Jiang X, Ren Z, Weng C, Sun G, Wang X, Liu Y, et al. Identification and characterization of novel amphioxus microRNAs by Solexa sequencing. Genome Biol 2009, 10(7):R78. 10.1186/gb-2009-10-7-r78, 2728532, 19615057.
-
(2009)
Genome Biol
, vol.10
, Issue.7
-
-
Chen, X.1
Li, Q.2
Wang, J.3
Guo, X.4
Jiang, X.5
Ren, Z.6
Weng, C.7
Sun, G.8
Wang, X.9
Liu, Y.10
-
32
-
-
0028006459
-
Molecular cloning, sequencing, and characterization of smooth muscle myosin alkali light chain from human eye cDNA: homology with myocardial fatty acid ethyl ester synthase-III cDNA
-
10.1006/geno.1994.1041, 8188229
-
Bora PS, Bora NS, Wu X, Kaplan HJ, Lange LG. Molecular cloning, sequencing, and characterization of smooth muscle myosin alkali light chain from human eye cDNA: homology with myocardial fatty acid ethyl ester synthase-III cDNA. Genomics 1994, 19(1):186-188. 10.1006/geno.1994.1041, 8188229.
-
(1994)
Genomics
, vol.19
, Issue.1
, pp. 186-188
-
-
Bora, P.S.1
Bora, N.S.2
Wu, X.3
Kaplan, H.J.4
Lange, L.G.5
-
33
-
-
26844529911
-
Clonogenic growth of human breast cancer cells co-cultured in direct contact with serum-activated fibroblasts
-
10.1186/bcr995, 1143574, 15987422
-
Samoszuk M, Tan J, Chorn G. Clonogenic growth of human breast cancer cells co-cultured in direct contact with serum-activated fibroblasts. Breast Cancer Res 2005, 7(3):R274-283. 10.1186/bcr995, 1143574, 15987422.
-
(2005)
Breast Cancer Res
, vol.7
, Issue.3
-
-
Samoszuk, M.1
Tan, J.2
Chorn, G.3
|