-
2
-
-
0019423856
-
Sequence and organization of the human mitochondrial genome
-
DOI 10.1038/290457a0
-
Anderson S, Bankier AT, Barrell BG, de Bruijn MH, Coulson AR, et al. (1981) Sequence and organization of the human mitochondrial genome. Nature 290: 457-465. (Pubitemid 11159074)
-
(1981)
Nature
, vol.290
, Issue.5806
, pp. 457-465
-
-
Anderson, S.1
Bankier, A.T.2
Barrell, B.G.3
-
3
-
-
0029653518
-
Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
-
Fleischmann RD, Adams MD, White O, Clayton RA, Kirkness EF, et al. (1995) Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269: 496-512.
-
(1995)
Science
, vol.269
, pp. 496-512
-
-
Fleischmann, R.D.1
Adams, M.D.2
White, O.3
Clayton, R.A.4
Kirkness, E.F.5
-
4
-
-
7244245762
-
Finishing the euchromatic sequence of the human genome
-
Consortium IHGS
-
Consortium IHGS (2004) Finishing the euchromatic sequence of the human genome. Nature 431: 931-945.
-
(2004)
Nature
, vol.431
, pp. 931-945
-
-
-
5
-
-
84864216850
-
Life Technologies promises [dollar]1,000 genome
-
DeFrancesco L (2012) Life Technologies promises [dollar]1,000 genome. Nat Biotech 30: 126-126.
-
(2012)
Nat Biotech
, vol.30
, pp. 126-126
-
-
DeFrancesco, L.1
-
6
-
-
63249121217
-
Application of 'next-generation' sequencing technologies to microbial genetics
-
MacLean D, Jones JD, Studholme DJ (2009) Application of 'next-generation' sequencing technologies to microbial genetics. Nat Rev Microbiol 7: 287-296.
-
(2009)
Nat Rev Microbiol
, vol.7
, pp. 287-296
-
-
MacLean, D.1
Jones, J.D.2
Studholme, D.J.3
-
7
-
-
25144471241
-
Genomics: Massively parallel sequencing
-
Rogers YH, Venter JC (2005) Genomics: massively parallel sequencing. Nature 437: 326-327.
-
(2005)
Nature
, vol.437
, pp. 326-327
-
-
Rogers, Y.H.1
Venter, J.C.2
-
8
-
-
78650909427
-
Limitations of next-generation genome sequence assembly
-
Alkan C, Sajjadian S, Eichler EE (2011) Limitations of next-generation genome sequence assembly. Nat Methods 8: 61-65.
-
(2011)
Nat Methods
, vol.8
, pp. 61-65
-
-
Alkan, C.1
Sajjadian, S.2
Eichler, E.E.3
-
9
-
-
0141853948
-
PCAP: A whole-genome assembly program
-
DOI 10.1101/gr.1390403
-
Huang X, Wang J, Aluru S, Yang SP, Hillier L (2003) PCAP: a whole-genome assembly program. Genome Res 13: 2164-2170. (Pubitemid 37161773)
-
(2003)
Genome Research
, vol.13
, Issue.9
, pp. 2164-2170
-
-
Huang, X.1
Wang, J.2
Aluru, S.3
Yang, S.-P.4
Hillier, L.5
-
10
-
-
31544479520
-
Application of a superword array in genome assembly
-
DOI 10.1093/nar/gkj419
-
Huang X, Yang SP, Chinwalla AT, Hillier LW, Minx P, et al. (2006) Application of a superword array in genome assembly. Nucleic Acids Res 34: 201-205. (Pubitemid 43160043)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.1
, pp. 201-205
-
-
Huang, X.1
Yang, S.-P.2
Chinwalla, A.T.3
Hillier, L.W.4
Minx, P.5
Mardis, E.R.6
Wilson, R.K.7
-
11
-
-
84883664726
-
Reducing assembly complexity of microbial genomes with single-molecule sequencing
-
Koren S, Harhay GP, Smith TP, Bono JL, Harhay DM, et al. (2013) Reducing assembly complexity of microbial genomes with single-molecule sequencing. Genome Biol 14: R101.
-
(2013)
Genome Biol
, vol.14
-
-
Koren, S.1
Harhay, G.P.2
Smith, T.P.3
Bono, J.L.4
Harhay, D.M.5
-
12
-
-
33748714313
-
Automated bacterial genome analysis and annotation
-
DOI 10.1016/j.mib.2006.08.002, PII S136952740600124X, Antimicrobials/Genomics
-
Stothard P, Wishart DS (2006) Automated bacterial genome analysis and annotation. Curr Opin Microbiol 9: 505-510. (Pubitemid 44397633)
-
(2006)
Current Opinion in Microbiology
, vol.9
, Issue.5
, pp. 505-510
-
-
Stothard, P.1
Wishart, D.S.2
-
13
-
-
0033485517
-
Improved microbial gene identification with GLIMMER
-
Delcher AL, Harmon D, Kasif S, White O, Salzberg SL (1999) Improved microbial gene identification with GLIMMER. Nucleic Acids Res 27: 4636-4641.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 4636-4641
-
-
Delcher, A.L.1
Harmon, D.2
Kasif, S.3
White, O.4
Salzberg, S.L.5
-
14
-
-
34147132825
-
Identifying bacterial genes and endosymbiont DNA with Glimmer
-
DOI 10.1093/bioinformatics/btm009
-
Delcher AL, Bratke KA, Powers EC, Salzberg SL (2007) Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics 23: 673-679. (Pubitemid 46554717)
-
(2007)
Bioinformatics
, vol.23
, Issue.6
, pp. 673-679
-
-
Delcher, A.L.1
Bratke, K.A.2
Powers, E.C.3
Salzberg, S.L.4
-
15
-
-
0032519353
-
GeneMark.hmm: New solutions for gene finding
-
DOI 10.1093/nar/26.4.1107
-
Lukashin AV, Borodovsky M (1998) GeneMark.hmm: new solutions for gene finding. Nucleic Acids Res 26: 1107-1115. (Pubitemid 28291669)
-
(1998)
Nucleic Acids Research
, vol.26
, Issue.4
, pp. 1107-1115
-
-
Lukashin, A.V.1
Borodovsky, M.2
-
16
-
-
23144452801
-
GeneMark: Web software for gene finding in prokaryotes, eukaryotes and viruses
-
DOI 10.1093/nar/gki487
-
Besemer J, Borodovsky M (2005) GeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses. Nucleic Acids Res 33: W451-454. (Pubitemid 44529960)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.WEB. SERV. ISS.
-
-
Besemer, J.1
Borodovsky, M.2
-
17
-
-
77952299957
-
Prodigal: Prokaryotic gene recognition and translation initiation site identification
-
Hyatt D, Chen GL, Locascio PF, Land ML, Larimer FW, et al. (2010) Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinformatics 11: 119.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 119
-
-
Hyatt, D.1
Chen, G.L.2
Locascio, P.F.3
Land, M.L.4
Larimer, F.W.5
-
19
-
-
84869750558
-
BG7: A new approach for bacterial genome annotation designed for next generation sequencing data
-
Pareja-Tobes P, Manrique M, Pareja-Tobes E, Pareja E, Tobes R (2012) BG7: a new approach for bacterial genome annotation designed for next generation sequencing data. PLoS One 7: e49239.
-
(2012)
PLoS One
, vol.7
-
-
Pareja-Tobes, P.1
Manrique, M.2
Pareja-Tobes, E.3
Pareja, E.4
Tobes, R.5
-
21
-
-
0642307369
-
EasyGene - A prokaryotic gene finder that ranks ORFs by statistical significance
-
Larsen TS, Krogh A (2003) EasyGene - a prokaryotic gene finder that ranks ORFs by statistical significance. BMC Bioinformatics 4: 21.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 21
-
-
Larsen, T.S.1
Krogh, A.2
-
22
-
-
0035424711
-
On the total number of genes and their length distribution in complete microbial genomes
-
DOI 10.1016/S0168-9525(01)02372-1, PII S0168952501023721
-
Skovgaard M, Jensen LJ, Brunak S, Ussery D, Krogh A (2001) On the total number of genes and their length distribution in complete microbial genomes. Trends Genet 17: 425-428. (Pubitemid 32727225)
-
(2001)
Trends in Genetics
, vol.17
, Issue.8
, pp. 425-428
-
-
Skovgaard, M.1
Jensen, L.J.2
Brunak, S.3
Ussery, D.4
Krogh, A.5
-
23
-
-
4344568000
-
Genome update: Annotation quality in sequenced microbial genomes
-
Ussery DW, Hallin PF (2004) Genome Update: annotation quality in sequenced microbial genomes. Microbiology 150: 2015-2017. (Pubitemid 39117614)
-
(2004)
Microbiology
, vol.150
, Issue.7
, pp. 2015-2017
-
-
Ussery, D.W.1
Hallin, P.F.2
-
24
-
-
0347568598
-
The relationship of protein conservation and sequence length
-
Lipman DJ, Souvorov A, Koonin EV, Panchenko AR, Tatusova TA (2002) The relationship of protein conservation and sequence length. BMC Evol Biol 2: 20.
-
(2002)
BMC Evol Biol
, vol.2
, pp. 20
-
-
Lipman, D.J.1
Souvorov, A.2
Koonin, E.V.3
Panchenko, A.R.4
Tatusova, T.A.5
-
25
-
-
58149183707
-
A systematic survey of mini-proteins in bacteria and archaea
-
Wang F, Xiao J, Pan L, Yang M, Zhang G, et al. (2008) A systematic survey of mini-proteins in bacteria and archaea. PLoS One 3: e4027.
-
(2008)
PLoS One
, vol.3
-
-
Wang, F.1
Xiao, J.2
Pan, L.3
Yang, M.4
Zhang, G.5
-
26
-
-
0020491327
-
Codon usage in bacteria: Correlation with gene expressivity
-
Gouy M, Gautier C (1982) Codon usage in bacteria: correlation with gene expressivity. Nucleic Acids Res 10: 7055-7074.
-
(1982)
Nucleic Acids Res
, vol.10
, pp. 7055-7074
-
-
Gouy, M.1
Gautier, C.2
-
27
-
-
0019474499
-
Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes
-
Ikemura T (1981) Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes. J Mol Biol 146: 1-21.
-
(1981)
J Mol Biol
, vol.146
, pp. 1-21
-
-
Ikemura, T.1
-
28
-
-
57749195712
-
RNA-Seq: A revolutionary tool for transcriptomics
-
Wang Z, Gerstein M, Snyder M (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10: 57-63.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 57-63
-
-
Wang, Z.1
Gerstein, M.2
Snyder, M.3
-
29
-
-
82255164229
-
An integrative method for identifying the over-annotated protein-coding genes in microbial genomes
-
Yu JF, Xiao K, Jiang DK, Guo J, Wang JH, et al. (2011) An integrative method for identifying the over-annotated protein-coding genes in microbial genomes. DNA Res 18: 435-449.
-
(2011)
DNA Res
, vol.18
, pp. 435-449
-
-
Yu, J.F.1
Xiao, K.2
Jiang, D.K.3
Guo, J.4
Wang, J.H.5
-
30
-
-
23144444587
-
MICheck: A web tool for fast checking of syntactic annotations of bacterial genomes
-
DOI 10.1093/nar/gki498
-
Cruveiller S, Le Saux J, Vallenet D, Lajus A, Bocs S, et al. (2005) MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes. Nucleic Acids Res 33: W471-479. (Pubitemid 44529965)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.WEB. SERV. ISS.
-
-
Cruveiller, S.1
Le, S.J.2
Vallenet, D.3
Lajus, A.4
Bocs, S.5
Medigue, C.6
-
31
-
-
77954419450
-
The genetic basis of laboratory adaptation in Caulobacter crescentus
-
Marks ME, Castro-Rojas CM, Teiling C, Du L, Kapatral V, et al. (2010) The genetic basis of laboratory adaptation in Caulobacter crescentus. J Bacteriol 192: 3678-3688.
-
(2010)
J Bacteriol
, vol.192
, pp. 3678-3688
-
-
Marks, M.E.1
Castro-Rojas, C.M.2
Teiling, C.3
Du, L.4
Kapatral, V.5
-
32
-
-
80052415909
-
The essential genome of a bacterium
-
Christen B, Abeliuk E, Collier JM, Kalogeraki VS, Passarelli B, et al. (2011) The essential genome of a bacterium. Mol Syst Biol 7: 528.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 528
-
-
Christen, B.1
Abeliuk, E.2
Collier, J.M.3
Kalogeraki, V.S.4
Passarelli, B.5
-
33
-
-
28944435815
-
Large-scale prokaryotic gene prediction and comparison to genome annotation
-
DOI 10.1093/bioinformatics/bti701
-
Nielsen P, Krogh A (2005) Large-scale prokaryotic gene prediction and comparison to genome annotation. Bioinformatics 21: 4322-4329. (Pubitemid 41782921)
-
(2005)
Bioinformatics
, vol.21
, Issue.24
, pp. 4322-4329
-
-
Nielsen, P.1
Krogh, A.2
-
34
-
-
77956193448
-
ProgressiveMauve: Multiple genome alignment with gene gain, loss and rearrangement
-
Darling AE, Mau B, Perna NT (2010) progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. PLoS One 5: e11147.
-
(2010)
PLoS One
, vol.5
-
-
Darling, A.E.1
Mau, B.2
Perna, N.T.3
-
35
-
-
84879809209
-
Transcriptomic and phylogenetic analysis of a bacterial cell cycle reveals strong associations between gene co-expression and evolution
-
Fang G, Passalacqua KD, Hocking J, Llopis PM, Gerstein M, et al. (2013) Transcriptomic and phylogenetic analysis of a bacterial cell cycle reveals strong associations between gene co-expression and evolution. BMC Genomics 14: 450.
-
(2013)
BMC Genomics
, vol.14
, pp. 450
-
-
Fang, G.1
Passalacqua, K.D.2
Hocking, J.3
Llopis, P.M.4
Gerstein, M.5
|