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Results: 1 to 20 of 55

1.

Gene expression patterns in larval Schistosoma mansoni associated with infection of the mammalian host.

Parker-Manuel SJ, Ivens AC, Dillon GP, Wilson RA.

PLoS Negl Trop Dis. 2011 Aug;5(8):e1274. doi: 10.1371/journal.pntd.0001274. Epub 2011 Aug 30.

PMID:
21912711
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

RATT: Rapid Annotation Transfer Tool.

Otto TD, Dillon GP, Degrave WS, Berriman M.

Nucleic Acids Res. 2011 May;39(9):e57. doi: 10.1093/nar/gkq1268. Epub 2011 Feb 8.

PMID:
21306991
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

The Drosophila melanogaster transcriptome by paired-end RNA sequencing.

Daines B, Wang H, Wang L, Li Y, Han Y, Emmert D, Gelbart W, Wang X, Li W, Gibbs R, Chen R.

Genome Res. 2011 Feb;21(2):315-24. doi: 10.1101/gr.107854.110. Epub 2010 Dec 22.

PMID:
21177959
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

From RNA-seq reads to differential expression results.

Oshlack A, Robinson MD, Young MD.

Genome Biol. 2010;11(12):220. doi: 10.1186/gb-2010-11-12-220. Epub 2010 Dec 22. Review.

PMID:
21176179
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq.

Bruno VM, Wang Z, Marjani SL, Euskirchen GM, Martin J, Sherlock G, Snyder M.

Genome Res. 2010 Oct;20(10):1451-8. doi: 10.1101/gr.109553.110. Epub 2010 Sep 1.

PMID:
20810668
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome.

Severin AJ, Woody JL, Bolon YT, Joseph B, Diers BW, Farmer AD, Muehlbauer GJ, Nelson RT, Grant D, Specht JE, Graham MA, Cannon SB, May GD, Vance CP, Shoemaker RC.

BMC Plant Biol. 2010 Aug 5;10:160. doi: 10.1186/1471-2229-10-160.

PMID:
20687943
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq.

Lu T, Lu G, Fan D, Zhu C, Li W, Zhao Q, Feng Q, Zhao Y, Guo Y, Li W, Huang X, Han B.

Genome Res. 2010 Sep;20(9):1238-49. doi: 10.1101/gr.106120.110. Epub 2010 Jul 13.

PMID:
20627892
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Whole-genome in-silico subtractive hybridization (WISH)--using massive sequencing for the identification of unique and repetitive sex-specific sequences: the example of Schistosoma mansoni.

Portela J, Grunau C, Cosseau C, Beltran S, Dantec C, Parrinello H, Boissier J.

BMC Genomics. 2010 Jun 21;11:387. doi: 10.1186/1471-2164-11-387.

PMID:
20565937
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation.

Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L.

Nat Biotechnol. 2010 May;28(5):511-5. doi: 10.1038/nbt.1621. Epub 2010 May 2.

PMID:
20436464
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps.

Tsai IJ, Otto TD, Berriman M.

Genome Biol. 2010;11(4):R41. doi: 10.1186/gb-2010-11-4-r41. Epub 2010 Apr 13.

PMID:
20388197
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

De novo assembly of a 40 Mb eukaryotic genome from short sequence reads: Sordaria macrospora, a model organism for fungal morphogenesis.

Nowrousian M, Stajich JE, Chu M, Engh I, Espagne E, Halliday K, Kamerewerd J, Kempken F, Knab B, Kuo HC, Osiewacz HD, Pöggeler S, Read ND, Seiler S, Smith KM, Zickler D, Kück U, Freitag M.

PLoS Genet. 2010 Apr 8;6(4):e1000891. doi: 10.1371/journal.pgen.1000891.

PMID:
20386741
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

A scaling normalization method for differential expression analysis of RNA-seq data.

Robinson MD, Oshlack A.

Genome Biol. 2010;11(3):R25. doi: 10.1186/gb-2010-11-3-r25. Epub 2010 Mar 2.

PMID:
20196867
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Otto TD, Wilinski D, Assefa S, Keane TM, Sarry LR, Böhme U, Lemieux J, Barrell B, Pain A, Berriman M, Newbold C, Llinás M.

Mol Microbiol. 2010 Apr;76(1):12-24. doi: 10.1111/j.1365-2958.2009.07026.x. Epub 2010 Feb 4.

PMID:
20141604
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

The sequence and de novo assembly of the giant panda genome.

Li R, Fan W, Tian G, Zhu H, He L, Cai J, Huang Q, Cai Q, Li B, Bai Y, Zhang Z, Zhang Y, Wang W, Li J, Wei F, Li H, Jian M, Li J, Zhang Z, Nielsen R, Li D, Gu W, Yang Z, Xuan Z, Ryder OA, Leung FC, Zhou Y, Cao J, Sun X, Fu Y, Fang X, Guo X, Wang B, Hou R, Shen F, Mu B, Ni P, Lin R, Qian W, Wang G, Yu C, Nie W, Wang J, Wu Z, Liang H, Min J, Wu Q, Cheng S, Ruan J, Wang M, Shi Z, Wen M, Liu B, Ren X, Zheng H, Dong D, Cook K, Shan G, Zhang H, Kosiol C, Xie X, Lu Z, Zheng H, Li Y, Steiner CC, Lam TT, Lin S, Zhang Q, Li G, Tian J, Gong T, Liu H, Zhang D, Fang L, Ye C, Zhang J, Hu W, Xu A, Ren Y, Zhang G, Bruford MW, Li Q, Ma L, Guo Y, An N, Hu Y, Zheng Y, Shi Y, Li Z, Liu Q, Chen Y, Zhao J, Qu N, Zhao S, Tian F, Wang X, Wang H, Xu L, Liu X, Vinar T, Wang Y, Lam TW, Yiu SM, Liu S, Zhang H, Li D, Huang Y, Wang X, Yang G, Jiang Z, Wang J, Qin N, Li L, Li J, Bolund L, Kristiansen K, Wong GK, Olson M, Zhang X, Li S, Yang H, Wang J, Wang J.

Nature. 2010 Jan 21;463(7279):311-7. doi: 10.1038/nature08696. Epub 2009 Dec 13. Erratum in: Nature. 2010 Feb 25;463(7284):1106.

PMID:
20010809
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Evidence for multiple independent origins of trans-splicing in Metazoa.

Douris V, Telford MJ, Averof M.

Mol Biol Evol. 2010 Mar;27(3):684-93. doi: 10.1093/molbev/msp286. Epub 2009 Nov 25.

PMID:
19942614
[PubMed - indexed for MEDLINE]
Free Article
16.

Anti-schistosomal intervention targets identified by lifecycle transcriptomic analyses.

Fitzpatrick JM, Peak E, Perally S, Chalmers IW, Barrett J, Yoshino TP, Ivens AC, Hoffmann KF.

PLoS Negl Trop Dis. 2009 Nov 3;3(11):e543. doi: 10.1371/journal.pntd.0000543.

PMID:
19885392
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Genomics. Genome project standards in a new era of sequencing.

Chain PS, Grafham DV, Fulton RS, Fitzgerald MG, Hostetler J, Muzny D, Ali J, Birren B, Bruce DC, Buhay C, Cole JR, Ding Y, Dugan S, Field D, Garrity GM, Gibbs R, Graves T, Han CS, Harrison SH, Highlander S, Hugenholtz P, Khouri HM, Kodira CD, Kolker E, Kyrpides NC, Lang D, Lapidus A, Malfatti SA, Markowitz V, Metha T, Nelson KE, Parkhill J, Pitluck S, Qin X, Read TD, Schmutz J, Sozhamannan S, Sterk P, Strausberg RL, Sutton G, Thomson NR, Tiedje JM, Weinstock G, Wollam A; Genomic Standards Consortium Human Microbiome Project Jumpstart Consortium, Detter JC.

Science. 2009 Oct 9;326(5950):236-7. doi: 10.1126/science.1180614. No abstract available.

PMID:
19815760
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

The genome of the blood fluke Schistosoma mansoni.

Berriman M, Haas BJ, LoVerde PT, Wilson RA, Dillon GP, Cerqueira GC, Mashiyama ST, Al-Lazikani B, Andrade LF, Ashton PD, Aslett MA, Bartholomeu DC, Blandin G, Caffrey CR, Coghlan A, Coulson R, Day TA, Delcher A, DeMarco R, Djikeng A, Eyre T, Gamble JA, Ghedin E, Gu Y, Hertz-Fowler C, Hirai H, Hirai Y, Houston R, Ivens A, Johnston DA, Lacerda D, Macedo CD, McVeigh P, Ning Z, Oliveira G, Overington JP, Parkhill J, Pertea M, Pierce RJ, Protasio AV, Quail MA, Rajandream MA, Rogers J, Sajid M, Salzberg SL, Stanke M, Tivey AR, White O, Williams DL, Wortman J, Wu W, Zamanian M, Zerlotini A, Fraser-Liggett CM, Barrell BG, El-Sayed NM.

Nature. 2009 Jul 16;460(7253):352-8. doi: 10.1038/nature08160.

PMID:
19606141
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

The Schistosoma japonicum genome reveals features of host-parasite interplay.

Schistosoma japonicum Genome Sequencing and Functional Analysis Consortium.

Nature. 2009 Jul 16;460(7253):345-51. doi: 10.1038/nature08140.

PMID:
19606140
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Genomic linkage map of the human blood fluke Schistosoma mansoni.

Criscione CD, Valentim CL, Hirai H, LoVerde PT, Anderson TJ.

Genome Biol. 2009;10(6):R71. doi: 10.1186/gb-2009-10-6-r71. Epub 2009 Jun 30.

PMID:
19566921
[PubMed - indexed for MEDLINE]
Free PMC Article

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