173 related articles for article (PubMed ID: 23702463)
1. Mapping the RNA-Seq trash bin: unusual transcripts in prokaryotic transcriptome sequencing data.
Doose G; Alexis M; Kirsch R; Findeiß S; Langenberger D; Machné R; Mörl M; Hoffmann S; Stadler PF
RNA Biol; 2013 Jul; 10(7):1204-10. PubMed ID: 23702463
[TBL] [Abstract][Full Text] [Related]
2. Bioinformatics of prokaryotic RNAs.
Backofen R; Amman F; Costa F; Findeiß S; Richter AS; Stadler PF
RNA Biol; 2014; 11(5):470-83. PubMed ID: 24755880
[TBL] [Abstract][Full Text] [Related]
3. Towards an improved apple reference transcriptome using RNA-seq.
Bai Y; Dougherty L; Xu K
Mol Genet Genomics; 2014 Jun; 289(3):427-38. PubMed ID: 24532088
[TBL] [Abstract][Full Text] [Related]
4. Alternative Splicing Signatures in RNA-seq Data: Percent Spliced in (PSI).
Schafer S; Miao K; Benson CC; Heinig M; Cook SA; Hubner N
Curr Protoc Hum Genet; 2015 Oct; 87():11.16.1-11.16.14. PubMed ID: 26439713
[TBL] [Abstract][Full Text] [Related]
5. Detection of non-coding RNA in bacteria and archaea using the DETR'PROK Galaxy pipeline.
Toffano-Nioche C; Luo Y; Kuchly C; Wallon C; Steinbach D; Zytnicki M; Jacq A; Gautheret D
Methods; 2013 Sep; 63(1):60-5. PubMed ID: 23806640
[TBL] [Abstract][Full Text] [Related]
6. A comprehensive evaluation of ensembl, RefSeq, and UCSC annotations in the context of RNA-seq read mapping and gene quantification.
Zhao S; Zhang B
BMC Genomics; 2015 Feb; 16(1):97. PubMed ID: 25765860
[TBL] [Abstract][Full Text] [Related]
7. Improved TGIRT-seq methods for comprehensive transcriptome profiling with decreased adapter dimer formation and bias correction.
Xu H; Yao J; Wu DC; Lambowitz AM
Sci Rep; 2019 May; 9(1):7953. PubMed ID: 31138886
[TBL] [Abstract][Full Text] [Related]
8. Characterizing and annotating the genome using RNA-seq data.
Chen G; Shi T; Shi L
Sci China Life Sci; 2017 Feb; 60(2):116-125. PubMed ID: 27294835
[TBL] [Abstract][Full Text] [Related]
9. Prokaryotic single-cell RNA sequencing by in situ combinatorial indexing.
Blattman SB; Jiang W; Oikonomou P; Tavazoie S
Nat Microbiol; 2020 Oct; 5(10):1192-1201. PubMed ID: 32451472
[TBL] [Abstract][Full Text] [Related]
10. Assessment of the impact of using a reference transcriptome in mapping short RNA-Seq reads.
Zhao S
PLoS One; 2014; 9(7):e101374. PubMed ID: 24992027
[TBL] [Abstract][Full Text] [Related]
11. Transcriptome-wide discovery of circular RNAs in Archaea.
Danan M; Schwartz S; Edelheit S; Sorek R
Nucleic Acids Res; 2012 Apr; 40(7):3131-42. PubMed ID: 22140119
[TBL] [Abstract][Full Text] [Related]
12. Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq).
Babski J; Haas KA; Näther-Schindler D; Pfeiffer F; Förstner KU; Hammelmann M; Hilker R; Becker A; Sharma CM; Marchfelder A; Soppa J
BMC Genomics; 2016 Aug; 17(1):629. PubMed ID: 27519343
[TBL] [Abstract][Full Text] [Related]
13. PacBio full-length cDNA sequencing integrated with RNA-seq reads drastically improves the discovery of splicing transcripts in rice.
Zhang G; Sun M; Wang J; Lei M; Li C; Zhao D; Huang J; Li W; Li S; Li J; Yang J; Luo Y; Hu S; Zhang B
Plant J; 2019 Jan; 97(2):296-305. PubMed ID: 30288819
[TBL] [Abstract][Full Text] [Related]
14. Discovery of permuted and recently split transfer RNAs in Archaea.
Chan PP; Cozen AE; Lowe TM
Genome Biol; 2011; 12(4):R38. PubMed ID: 21489296
[TBL] [Abstract][Full Text] [Related]
15. CLIP-seq analysis of multi-mapped reads discovers novel functional RNA regulatory sites in the human transcriptome.
Zhang Z; Xing Y
Nucleic Acids Res; 2017 Sep; 45(16):9260-9271. PubMed ID: 28934506
[TBL] [Abstract][Full Text] [Related]
16. In Silico Prediction for ncRNAs in Prokaryotes.
Garcia AC
Methods Mol Biol; 2021; 2328():277-285. PubMed ID: 34251633
[TBL] [Abstract][Full Text] [Related]
17. Transcriptome profile of a bovine respiratory disease pathogen: Mannheimia haemolytica PHL213.
Reddy JS; Kumar R; Watt JM; Lawrence ML; Burgess SC; Nanduri B
BMC Bioinformatics; 2012; 13 Suppl 15(Suppl 15):S4. PubMed ID: 23046475
[TBL] [Abstract][Full Text] [Related]
18. [RNA-Seq and its applications: a new technology for transcriptomics].
Qi YX; Liu YB; Rong WH
Yi Chuan; 2011 Nov; 33(11):1191-202. PubMed ID: 22120074
[TBL] [Abstract][Full Text] [Related]
19. Analysis of RNA-Seq Data Using TopHat and Cufflinks.
Ghosh S; Chan CK
Methods Mol Biol; 2016; 1374():339-61. PubMed ID: 26519415
[TBL] [Abstract][Full Text] [Related]
20. Comparative transcriptomics across the prokaryotic tree of life.
Cohen O; Doron S; Wurtzel O; Dar D; Edelheit S; Karunker I; Mick E; Sorek R
Nucleic Acids Res; 2016 Jul; 44(W1):W46-53. PubMed ID: 27154273
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
