Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 153

1.

Sniper: improved SNP discovery by multiply mapping deep sequenced reads.

Simola DF, Kim J.

Genome Biol. 2011 Jun 20;12(6):R55. doi: 10.1186/gb-2011-12-6-r55.

PMID:
21689413
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

SNiPer: improved SNP genotype calling for Affymetrix 10K GeneChip microarray data.

Huentelman MJ, Craig DW, Shieh AD, Corneveaux JJ, Hu-Lince D, Pearson JV, Stephan DA.

BMC Genomics. 2005 Oct 31;6:149.

PMID:
16262895
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

SNiPer-HD: improved genotype calling accuracy by an expectation-maximization algorithm for high-density SNP arrays.

Hua J, Craig DW, Brun M, Webster J, Zismann V, Tembe W, Joshipura K, Huentelman MJ, Dougherty ER, Stephan DA.

Bioinformatics. 2007 Jan 1;23(1):57-63. Epub 2006 Oct 24.

PMID:
17062589
[PubMed - indexed for MEDLINE]
Free Article
4.

Reference-free SNP calling: improved accuracy by preventing incorrect calls from repetitive genomic regions.

Dou J, Zhao X, Fu X, Jiao W, Wang N, Zhang L, Hu X, Wang S, Bao Z.

Biol Direct. 2012 Jun 8;7:17. doi: 10.1186/1745-6150-7-17.

PMID:
22682067
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence.

You FM, Huo N, Deal KR, Gu YQ, Luo MC, McGuire PE, Dvorak J, Anderson OD.

BMC Genomics. 2011 Jan 25;12:59. doi: 10.1186/1471-2164-12-59.

PMID:
21266061
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Leveraging reads that span multiple single nucleotide polymorphisms for haplotype inference from sequencing data.

Yang WY, Hormozdiari F, Wang Z, He D, Pasaniuc B, Eskin E.

Bioinformatics. 2013 Sep 15;29(18):2245-52. doi: 10.1093/bioinformatics/btt386. Epub 2013 Jul 3.

PMID:
23825370
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Normal and compound poisson approximations for pattern occurrences in NGS reads.

Zhai Z, Reinert G, Song K, Waterman MS, Luan Y, Sun F.

J Comput Biol. 2012 Jun;19(6):839-54. doi: 10.1089/cmb.2012.0029.

PMID:
22697250
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using next generation sequence.

Blanca JM, Pascual L, Ziarsolo P, Nuez F, Cañizares J.

BMC Genomics. 2011 Jun 2;12:285. doi: 10.1186/1471-2164-12-285.

PMID:
21635747
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Linkage disequilibrium based genotype calling from low-coverage shotgun sequencing reads.

Duitama J, Kennedy J, Dinakar S, Hernández Y, Wu Y, Măndoiu II.

BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S53. doi: 10.1186/1471-2105-12-S1-S53.

PMID:
21342586
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

RF: a method for filtering short reads with tandem repeats for genome mapping.

Misawa K.

Genomics. 2013 Jul;102(1):35-7. doi: 10.1016/j.ygeno.2013.03.002. Epub 2013 Mar 29.

PMID:
23542167
[PubMed - indexed for MEDLINE]
Free Article
11.

HapCompass: a fast cycle basis algorithm for accurate haplotype assembly of sequence data.

Aguiar D, Istrail S.

J Comput Biol. 2012 Jun;19(6):577-90. doi: 10.1089/cmb.2012.0084.

PMID:
22697235
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

TotalReCaller: improved accuracy and performance via integrated alignment and base-calling.

Menges F, Narzisi G, Mishra B.

Bioinformatics. 2011 Sep 1;27(17):2330-7. doi: 10.1093/bioinformatics/btr393. Epub 2011 Jun 30.

PMID:
21724593
[PubMed - indexed for MEDLINE]
Free Article
13.

Mapping short DNA sequencing reads and calling variants using mapping quality scores.

Li H, Ruan J, Durbin R.

Genome Res. 2008 Nov;18(11):1851-8. doi: 10.1101/gr.078212.108. Epub 2008 Aug 19.

PMID:
18714091
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

SHRiMP: accurate mapping of short color-space reads.

Rumble SM, Lacroute P, Dalca AV, Fiume M, Sidow A, Brudno M.

PLoS Comput Biol. 2009 May;5(5):e1000386. doi: 10.1371/journal.pcbi.1000386. Epub 2009 May 22.

PMID:
19461883
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

ComB: SNP calling and mapping analysis for color and nucleotide space platforms.

Souaiaia T, Frazier Z, Chen T.

J Comput Biol. 2011 Jun;18(6):795-807. doi: 10.1089/cmb.2011.0027. Epub 2011 May 12.

PMID:
21563978
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

RepeatExplorer: a Galaxy-based web server for genome-wide characterization of eukaryotic repetitive elements from next-generation sequence reads.

Novák P, Neumann P, Pech J, Steinhaisl J, Macas J.

Bioinformatics. 2013 Mar 15;29(6):792-3. doi: 10.1093/bioinformatics/btt054. Epub 2013 Feb 1.

PMID:
23376349
[PubMed - indexed for MEDLINE]
Free Article
17.

The sequence of the human genome.

Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA, Gocayne JD, Amanatides P, Ballew RM, Huson DH, Wortman JR, Zhang Q, Kodira CD, Zheng XH, Chen L, Skupski M, Subramanian G, Thomas PD, Zhang J, Gabor Miklos GL, Nelson C, Broder S, Clark AG, Nadeau J, McKusick VA, Zinder N, Levine AJ, Roberts RJ, Simon M, Slayman C, Hunkapiller M, Bolanos R, Delcher A, Dew I, Fasulo D, Flanigan M, Florea L, Halpern A, Hannenhalli S, Kravitz S, Levy S, Mobarry C, Reinert K, Remington K, Abu-Threideh J, Beasley E, Biddick K, Bonazzi V, Brandon R, Cargill M, Chandramouliswaran I, Charlab R, Chaturvedi K, Deng Z, Di Francesco V, Dunn P, Eilbeck K, Evangelista C, Gabrielian AE, Gan W, Ge W, Gong F, Gu Z, Guan P, Heiman TJ, Higgins ME, Ji RR, Ke Z, Ketchum KA, Lai Z, Lei Y, Li Z, Li J, Liang Y, Lin X, Lu F, Merkulov GV, Milshina N, Moore HM, Naik AK, Narayan VA, Neelam B, Nusskern D, Rusch DB, Salzberg S, Shao W, Shue B, Sun J, Wang Z, Wang A, Wang X, Wang J, Wei M, Wides R, Xiao C, Yan C, Yao A, Ye J, Zhan M, Zhang W, Zhang H, Zhao Q, Zheng L, Zhong F, Zhong W, Zhu S, Zhao S, Gilbert D, Baumhueter S, Spier G, Carter C, Cravchik A, Woodage T, Ali F, An H, Awe A, Baldwin D, Baden H, Barnstead M, Barrow I, Beeson K, Busam D, Carver A, Center A, Cheng ML, Curry L, Danaher S, Davenport L, Desilets R, Dietz S, Dodson K, Doup L, Ferriera S, Garg N, Gluecksmann A, Hart B, Haynes J, Haynes C, Heiner C, Hladun S, Hostin D, Houck J, Howland T, Ibegwam C, Johnson J, Kalush F, Kline L, Koduru S, Love A, Mann F, May D, McCawley S, McIntosh T, McMullen I, Moy M, Moy L, Murphy B, Nelson K, Pfannkoch C, Pratts E, Puri V, Qureshi H, Reardon M, Rodriguez R, Rogers YH, Romblad D, Ruhfel B, Scott R, Sitter C, Smallwood M, Stewart E, Strong R, Suh E, Thomas R, Tint NN, Tse S, Vech C, Wang G, Wetter J, Williams S, Williams M, Windsor S, Winn-Deen E, Wolfe K, Zaveri J, Zaveri K, Abril JF, Guigó R, Campbell MJ, Sjolander KV, Karlak B, Kejariwal A, Mi H, Lazareva B, Hatton T, Narechania A, Diemer K, Muruganujan A, Guo N, Sato S, Bafna V, Istrail S, Lippert R, Schwartz R, Walenz B, Yooseph S, Allen D, Basu A, Baxendale J, Blick L, Caminha M, Carnes-Stine J, Caulk P, Chiang YH, Coyne M, Dahlke C, Mays A, Dombroski M, Donnelly M, Ely D, Esparham S, Fosler C, Gire H, Glanowski S, Glasser K, Glodek A, Gorokhov M, Graham K, Gropman B, Harris M, Heil J, Henderson S, Hoover J, Jennings D, Jordan C, Jordan J, Kasha J, Kagan L, Kraft C, Levitsky A, Lewis M, Liu X, Lopez J, Ma D, Majoros W, McDaniel J, Murphy S, Newman M, Nguyen T, Nguyen N, Nodell M, Pan S, Peck J, Peterson M, Rowe W, Sanders R, Scott J, Simpson M, Smith T, Sprague A, Stockwell T, Turner R, Venter E, Wang M, Wen M, Wu D, Wu M, Xia A, Zandieh A, Zhu X.

Science. 2001 Feb 16;291(5507):1304-51. Erratum in: Science 2001 Jun 5;292(5523):1838.

PMID:
11181995
[PubMed - indexed for MEDLINE]
18.

A dynamic Bayesian Markov model for phasing and characterizing haplotypes in next-generation sequencing.

Zhang Y.

Bioinformatics. 2013 Apr 1;29(7):878-85. doi: 10.1093/bioinformatics/btt065. Epub 2013 Feb 13.

PMID:
23407359
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

ReRep: computational detection of repetitive sequences in genome survey sequences (GSS).

Otto TD, Gomes LH, Alves-Ferreira M, de Miranda AB, Degrave WM.

BMC Bioinformatics. 2008 Sep 9;9:366. doi: 10.1186/1471-2105-9-366.

PMID:
18782453
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Repeat-aware modeling and correction of short read errors.

Yang X, Aluru S, Dorman KS.

BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S52. doi: 10.1186/1471-2105-12-S1-S52.

PMID:
21342585
[PubMed - indexed for MEDLINE]
Free PMC Article

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk