205 related articles for article (PubMed ID: 27797775)
1. Optimizing ChIP-seq peak detectors using visual labels and supervised machine learning.
Hocking TD; Goerner-Potvin P; Morin A; Shao X; Pastinen T; Bourque G
Bioinformatics; 2017 Feb; 33(4):491-499. PubMed ID: 27797775
[TBL] [Abstract][Full Text] [Related]
2. A novel statistical method for quantitative comparison of multiple ChIP-seq datasets.
Chen L; Wang C; Qin ZS; Wu H
Bioinformatics; 2015 Jun; 31(12):1889-96. PubMed ID: 25682068
[TBL] [Abstract][Full Text] [Related]
3. Sensitive and robust assessment of ChIP-seq read distribution using a strand-shift profile.
Nakato R; Shirahige K
Bioinformatics; 2018 Jul; 34(14):2356-2363. PubMed ID: 29528371
[TBL] [Abstract][Full Text] [Related]
4. RECAP reveals the true statistical significance of ChIP-seq peak calls.
Chitpin JG; Awdeh A; Perkins TJ
Bioinformatics; 2019 Oct; 35(19):3592-3598. PubMed ID: 30824903
[TBL] [Abstract][Full Text] [Related]
5. Graph Peak Caller: Calling ChIP-seq peaks on graph-based reference genomes.
Grytten I; Rand KD; Nederbragt AJ; Storvik GO; Glad IK; Sandve GK
PLoS Comput Biol; 2019 Feb; 15(2):e1006731. PubMed ID: 30779737
[TBL] [Abstract][Full Text] [Related]
6. DiffChIPL: a differential peak analysis method for high-throughput sequencing data with biological replicates based on limma.
Chen Y; Chen S; Lei EP
Bioinformatics; 2022 Sep; 38(17):4062-4069. PubMed ID: 35809062
[TBL] [Abstract][Full Text] [Related]
7. Use model-based Analysis of ChIP-Seq (MACS) to analyze short reads generated by sequencing protein-DNA interactions in embryonic stem cells.
Liu T
Methods Mol Biol; 2014; 1150():81-95. PubMed ID: 24743991
[TBL] [Abstract][Full Text] [Related]
8. PePr: a peak-calling prioritization pipeline to identify consistent or differential peaks from replicated ChIP-Seq data.
Zhang Y; Lin YH; Johnson TD; Rozek LS; Sartor MA
Bioinformatics; 2014 Sep; 30(18):2568-75. PubMed ID: 24894502
[TBL] [Abstract][Full Text] [Related]
9. ChIPWig: a random access-enabling lossless and lossy compression method for ChIP-seq data.
Ravanmehr V; Kim M; Wang Z; Milenkovic O
Bioinformatics; 2018 Mar; 34(6):911-919. PubMed ID: 29087447
[TBL] [Abstract][Full Text] [Related]
10. Genome annotation test with validation on transcription start site and ChIP-Seq for Pol-II binding data.
Bedo J; Kowalczyk A
Bioinformatics; 2011 Jun; 27(12):1610-7. PubMed ID: 21558156
[TBL] [Abstract][Full Text] [Related]
11. GenoGAM: genome-wide generalized additive models for ChIP-Seq analysis.
Stricker G; Engelhardt A; Schulz D; Schmid M; Tresch A; Gagneur J
Bioinformatics; 2017 Aug; 33(15):2258-2265. PubMed ID: 28369277
[TBL] [Abstract][Full Text] [Related]
12. Comparing genome-wide chromatin profiles using ChIP-chip or ChIP-seq.
Johannes F; Wardenaar R; Colomé-Tatché M; Mousson F; de Graaf P; Mokry M; Guryev V; Timmers HT; Cuppen E; Jansen RC
Bioinformatics; 2010 Apr; 26(8):1000-6. PubMed ID: 20208068
[TBL] [Abstract][Full Text] [Related]
13. Ritornello: high fidelity control-free chromatin immunoprecipitation peak calling.
Stanton KP; Jin J; Lederman RR; Weissman SM; Kluger Y
Nucleic Acids Res; 2017 Dec; 45(21):e173. PubMed ID: 28981893
[TBL] [Abstract][Full Text] [Related]
14. Read-Split-Run: an improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data.
Bai Y; Kinne J; Donham B; Jiang F; Ding L; Hassler JR; Kaufman RJ
BMC Genomics; 2016 Aug; 17 Suppl 7(Suppl 7):503. PubMed ID: 27556805
[TBL] [Abstract][Full Text] [Related]
15. Probabilistic partitioning methods to find significant patterns in ChIP-Seq data.
Nair NU; Kumar S; Moret BM; Bucher P
Bioinformatics; 2014 Sep; 30(17):2406-13. PubMed ID: 24812341
[TBL] [Abstract][Full Text] [Related]
16. CoCAS: a ChIP-on-chip analysis suite.
Benoukraf T; Cauchy P; Fenouil R; Jeanniard A; Koch F; Jaeger S; Thieffry D; Imbert J; Andrau JC; Spicuglia S; Ferrier P
Bioinformatics; 2009 Apr; 25(7):954-5. PubMed ID: 19193731
[TBL] [Abstract][Full Text] [Related]
17. Genome-wide pre-miRNA discovery from few labeled examples.
Yones C; Stegmayer G; Milone DH
Bioinformatics; 2018 Feb; 34(4):541-549. PubMed ID: 29028911
[TBL] [Abstract][Full Text] [Related]
18. BroadPeak: a novel algorithm for identifying broad peaks in diffuse ChIP-seq datasets.
Wang J; Lunyak VV; Jordan IK
Bioinformatics; 2013 Feb; 29(4):492-3. PubMed ID: 23300134
[TBL] [Abstract][Full Text] [Related]
19. Detecting differential peaks in ChIP-seq signals with ODIN.
Allhoff M; Seré K; Chauvistré H; Lin Q; Zenke M; Costa IG
Bioinformatics; 2014 Dec; 30(24):3467-75. PubMed ID: 25371479
[TBL] [Abstract][Full Text] [Related]
20. CNV-guided multi-read allocation for ChIP-seq.
Zhang Q; Keleş S
Bioinformatics; 2014 Oct; 30(20):2860-7. PubMed ID: 24966364
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
