286 related articles for article (PubMed ID: 21685096)
21. Misuse of RPKM or TPM normalization when comparing across samples and sequencing protocols.
Zhao S; Ye Z; Stanton R
RNA; 2020 Aug; 26(8):903-909. PubMed ID: 32284352
[TBL] [Abstract][Full Text] [Related]
22. Differential Expression Analysis of RNA-seq Reads: Overview, Taxonomy, and Tools.
Chowdhury HA; Bhattacharyya DK; Kalita JK
IEEE/ACM Trans Comput Biol Bioinform; 2020; 17(2):566-586. PubMed ID: 30281477
[TBL] [Abstract][Full Text] [Related]
23. From RNA-seq reads to differential expression results.
Oshlack A; Robinson MD; Young MD
Genome Biol; 2010; 11(12):220. PubMed ID: 21176179
[TBL] [Abstract][Full Text] [Related]
24. A comparison of per sample global scaling and per gene normalization methods for differential expression analysis of RNA-seq data.
Li X; Brock GN; Rouchka EC; Cooper NGF; Wu D; O'Toole TE; Gill RS; Eteleeb AM; O'Brien L; Rai SN
PLoS One; 2017; 12(5):e0176185. PubMed ID: 28459823
[TBL] [Abstract][Full Text] [Related]
25. A Guide for Designing and Analyzing RNA-Seq Data.
Chatterjee A; Ahn A; Rodger EJ; Stockwell PA; Eccles MR
Methods Mol Biol; 2018; 1783():35-80. PubMed ID: 29767357
[TBL] [Abstract][Full Text] [Related]
26. Identifying differentially expressed transcripts from RNA-seq data with biological variation.
Glaus P; Honkela A; Rattray M
Bioinformatics; 2012 Jul; 28(13):1721-8. PubMed ID: 22563066
[TBL] [Abstract][Full Text] [Related]
27. Partitioning RNAs by length improves transcriptome reconstruction from short-read RNA-seq data.
Ringeling FR; Chakraborty S; Vissers C; Reiman D; Patel AM; Lee KH; Hong A; Park CW; Reska T; Gagneur J; Chang H; Spletter ML; Yoon KJ; Ming GL; Song H; Canzar S
Nat Biotechnol; 2022 May; 40(5):741-750. PubMed ID: 35013600
[TBL] [Abstract][Full Text] [Related]
28. CIDANE: comprehensive isoform discovery and abundance estimation.
Canzar S; Andreotti S; Weese D; Reinert K; Klau GW
Genome Biol; 2016 Jan; 17():16. PubMed ID: 26831908
[TBL] [Abstract][Full Text] [Related]
29. DAFS: a data-adaptive flag method for RNA-sequencing data to differentiate genes with low and high expression.
George NI; Chang CW
BMC Bioinformatics; 2014 Mar; 15():92. PubMed ID: 24685233
[TBL] [Abstract][Full Text] [Related]
30. Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing.
Robles JA; Qureshi SE; Stephen SJ; Wilson SR; Burden CJ; Taylor JM
BMC Genomics; 2012 Sep; 13():484. PubMed ID: 22985019
[TBL] [Abstract][Full Text] [Related]
31. Using Poisson mixed-effects model to quantify transcript-level gene expression in RNA-Seq.
Hu M; Zhu Y; Taylor JM; Liu JS; Qin ZS
Bioinformatics; 2012 Jan; 28(1):63-8. PubMed ID: 22072384
[TBL] [Abstract][Full Text] [Related]
32. Ryūtō: network-flow based transcriptome reconstruction.
Gatter T; Stadler PF
BMC Bioinformatics; 2019 Apr; 20(1):190. PubMed ID: 30991937
[TBL] [Abstract][Full Text] [Related]
33. RNA-Seq and Expression Arrays: Selection Guidelines for Genome-Wide Expression Profiling.
Minnier J; Pennock ND; Guo Q; Schedin P; Harrington CA
Methods Mol Biol; 2018; 1783():7-33. PubMed ID: 29767356
[TBL] [Abstract][Full Text] [Related]
34. RNA-sequence analysis of human B-cells.
Toung JM; Morley M; Li M; Cheung VG
Genome Res; 2011 Jun; 21(6):991-8. PubMed ID: 21536721
[TBL] [Abstract][Full Text] [Related]
35. The impact of read length on quantification of differentially expressed genes and splice junction detection.
Chhangawala S; Rudy G; Mason CE; Rosenfeld JA
Genome Biol; 2015 Jun; 16(1):131. PubMed ID: 26100517
[TBL] [Abstract][Full Text] [Related]
36. High Throughput Sequencing-Based Approaches for Gene Expression Analysis.
Reddy RRS; Ramanujam MV
Methods Mol Biol; 2018; 1783():299-323. PubMed ID: 29767369
[TBL] [Abstract][Full Text] [Related]
37. ChimeRScope: a novel alignment-free algorithm for fusion transcript prediction using paired-end RNA-Seq data.
Li Y; Heavican TB; Vellichirammal NN; Iqbal J; Guda C
Nucleic Acids Res; 2017 Jul; 45(13):e120. PubMed ID: 28472320
[TBL] [Abstract][Full Text] [Related]
38. Evaluation of tools for long read RNA-seq splice-aware alignment.
Križanovic K; Echchiki A; Roux J; Šikic M
Bioinformatics; 2018 Mar; 34(5):748-754. PubMed ID: 29069314
[TBL] [Abstract][Full Text] [Related]
39. Information transduction capacity reduces the uncertainties in annotation-free isoform discovery and quantification.
Deng Y; Bao F; Yang Y; Ji X; Du M; Zhang Z; Wang M; Dai Q
Nucleic Acids Res; 2017 Sep; 45(15):e143. PubMed ID: 28911101
[TBL] [Abstract][Full Text] [Related]
40. ASElux: an ultra-fast and accurate allelic reads counter.
Miao Z; Alvarez M; Pajukanta P; Ko A
Bioinformatics; 2018 Apr; 34(8):1313-1320. PubMed ID: 29186329
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
