277 related articles for article (PubMed ID: 27220689)
1. A robust (re-)annotation approach to generate unbiased mapping references for RNA-seq-based analyses of differential expression across closely related species.
Torres-Oliva M; Almudi I; McGregor AP; Posnien N
BMC Genomics; 2016 May; 17():392. PubMed ID: 27220689
[TBL] [Abstract][Full Text] [Related]
2. Optimization of next-generation sequencing transcriptome annotation for species lacking sequenced genomes.
Ockendon NF; O'Connell LA; Bush SJ; Monzón-Sandoval J; Barnes H; Székely T; Hofmann HA; Dorus S; Urrutia AO
Mol Ecol Resour; 2016 Mar; 16(2):446-58. PubMed ID: 26358618
[TBL] [Abstract][Full Text] [Related]
3. Improved methods and resources for paramecium genomics: transcription units, gene annotation and gene expression.
Arnaiz O; Van Dijk E; Bétermier M; Lhuillier-Akakpo M; de Vanssay A; Duharcourt S; Sallet E; Gouzy J; Sperling L
BMC Genomics; 2017 Jun; 18(1):483. PubMed ID: 28651633
[TBL] [Abstract][Full Text] [Related]
4. Multiple model species selection for transcriptomics analysis of non-model organisms.
Pai TW; Li KH; Yang CH; Hu CH; Lin HJ; Wang WD; Chen YR
BMC Bioinformatics; 2018 Aug; 19(Suppl 9):284. PubMed ID: 30367568
[TBL] [Abstract][Full Text] [Related]
5. OGS2: genome re-annotation of the jewel wasp Nasonia vitripennis.
Rago A; Gilbert DG; Choi JH; Sackton TB; Wang X; Kelkar YD; Werren JH; Colbourne JK
BMC Genomics; 2016 Aug; 17(1):678. PubMed ID: 27561358
[TBL] [Abstract][Full Text] [Related]
6. Genome-guided transcript assembly by integrative analysis of RNA sequence data.
Boley N; Stoiber MH; Booth BW; Wan KH; Hoskins RA; Bickel PJ; Celniker SE; Brown JB
Nat Biotechnol; 2014 Apr; 32(4):341-6. PubMed ID: 24633242
[TBL] [Abstract][Full Text] [Related]
7. Molecular Profiling of RNA Tumors Using High-Throughput RNA Sequencing: From Raw Data to Systems Level Analyses.
da Silveira WA; Hazard ES; Chung D; Hardiman G
Methods Mol Biol; 2019; 1908():185-204. PubMed ID: 30649729
[TBL] [Abstract][Full Text] [Related]
8. Assessing the impact of human genome annotation choice on RNA-seq expression estimates.
Wu PY; Phan JH; Wang MD
BMC Bioinformatics; 2013; 14 Suppl 11(Suppl 11):S8. PubMed ID: 24564364
[TBL] [Abstract][Full Text] [Related]
9. An improved zebrafish transcriptome annotation for sensitive and comprehensive detection of cell type-specific genes.
Lawson ND; Li R; Shin M; Grosse A; Yukselen O; Stone OA; Kucukural A; Zhu L
Elife; 2020 Aug; 9():. PubMed ID: 32831172
[TBL] [Abstract][Full Text] [Related]
10. AGOUTI: improving genome assembly and annotation using transcriptome data.
Zhang SV; Zhuo L; Hahn MW
Gigascience; 2016 Jul; 5(1):31. PubMed ID: 27435057
[TBL] [Abstract][Full Text] [Related]
11. PARRoT- a homology-based strategy to quantify and compare RNA-sequencing from non-model organisms.
Gan RC; Chen TW; Wu TH; Huang PJ; Lee CC; Yeh YM; Chiu CH; Huang HD; Tang P
BMC Bioinformatics; 2016 Dec; 17(Suppl 19):513. PubMed ID: 28155708
[TBL] [Abstract][Full Text] [Related]
12. Improved annotation with de novo transcriptome assembly in four social amoeba species.
Singh R; Lawal HM; Schilde C; Glöckner G; Barton GJ; Schaap P; Cole C
BMC Genomics; 2017 Jan; 18(1):120. PubMed ID: 28143409
[TBL] [Abstract][Full Text] [Related]
13. CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts.
Testa AC; Hane JK; Ellwood SR; Oliver RP
BMC Genomics; 2015 Mar; 16(1):170. PubMed ID: 25887563
[TBL] [Abstract][Full Text] [Related]
14. Comparative validation of the D. melanogaster modENCODE transcriptome annotation.
Chen ZX; Sturgill D; Qu J; Jiang H; Park S; Boley N; Suzuki AM; Fletcher AR; Plachetzki DC; FitzGerald PC; Artieri CG; Atallah J; Barmina O; Brown JB; Blankenburg KP; Clough E; Dasgupta A; Gubbala S; Han Y; Jayaseelan JC; Kalra D; Kim YA; Kovar CL; Lee SL; Li M; Malley JD; Malone JH; Mathew T; Mattiuzzo NR; Munidasa M; Muzny DM; Ongeri F; Perales L; Przytycka TM; Pu LL; Robinson G; Thornton RL; Saada N; Scherer SE; Smith HE; Vinson C; Warner CB; Worley KC; Wu YQ; Zou X; Cherbas P; Kellis M; Eisen MB; Piano F; Kionte K; Fitch DH; Sternberg PW; Cutter AD; Duff MO; Hoskins RA; Graveley BR; Gibbs RA; Bickel PJ; Kopp A; Carninci P; Celniker SE; Oliver B; Richards S
Genome Res; 2014 Jul; 24(7):1209-23. PubMed ID: 24985915
[TBL] [Abstract][Full Text] [Related]
15. RNA-Seq in Nonmodel Organisms.
Chalifa-Caspi V
Methods Mol Biol; 2021; 2243():143-167. PubMed ID: 33606257
[TBL] [Abstract][Full Text] [Related]
16. Comparative performance of transcriptome assembly methods for non-model organisms.
Huang X; Chen XG; Armbruster PA
BMC Genomics; 2016 Jul; 17():523. PubMed ID: 27464550
[TBL] [Abstract][Full Text] [Related]
17. RNA-seq-Based Gene Annotation and Comparative Genomics of Four Fungal Grass Pathogens in the Genus Zymoseptoria Identify Novel Orphan Genes and Species-Specific Invasions of Transposable Elements.
Grandaubert J; Bhattacharyya A; Stukenbrock EH
G3 (Bethesda); 2015 Apr; 5(7):1323-33. PubMed ID: 25917918
[TBL] [Abstract][Full Text] [Related]
18. SPARTA: Simple Program for Automated reference-based bacterial RNA-seq Transcriptome Analysis.
Johnson BK; Scholz MB; Teal TK; Abramovitch RB
BMC Bioinformatics; 2016 Feb; 17():66. PubMed ID: 26847232
[TBL] [Abstract][Full Text] [Related]
19. Comprehensive evaluation of AmpliSeq transcriptome, a novel targeted whole transcriptome RNA sequencing methodology for global gene expression analysis.
Li W; Turner A; Aggarwal P; Matter A; Storvick E; Arnett DK; Broeckel U
BMC Genomics; 2015 Dec; 16():1069. PubMed ID: 26673413
[TBL] [Abstract][Full Text] [Related]
20. A high-quality annotated transcriptome of swine peripheral blood.
Liu H; Smith TPL; Nonneman DJ; Dekkers JCM; Tuggle CK
BMC Genomics; 2017 Jun; 18(1):479. PubMed ID: 28646867
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]