378 related articles for article (PubMed ID: 28886744)
1. Identification of high-confidence RNA regulatory elements by combinatorial classification of RNA-protein binding sites.
Li YE; Xiao M; Shi B; Yang YT; Wang D; Wang F; Marcia M; Lu ZJ
Genome Biol; 2017 Sep; 18(1):169. PubMed ID: 28886744
[TBL] [Abstract][Full Text] [Related]
2. Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins.
Van Nostrand EL; Pratt GA; Yee BA; Wheeler EC; Blue SM; Mueller J; Park SS; Garcia KE; Gelboin-Burkhart C; Nguyen TB; Rabano I; Stanton R; Sundararaman B; Wang R; Fu XD; Graveley BR; Yeo GW
Genome Biol; 2020 Apr; 21(1):90. PubMed ID: 32252787
[TBL] [Abstract][Full Text] [Related]
3. A combined sequence and structure based method for discovering enriched motifs in RNA from in vivo binding data.
Polishchuk M; Paz I; Kohen R; Mesika R; Yakhini Z; Mandel-Gutfreund Y
Methods; 2017 Apr; 118-119():73-81. PubMed ID: 28274760
[TBL] [Abstract][Full Text] [Related]
4. Transcriptome-wide Identification of RNA-binding Protein Binding Sites Using Photoactivatable-Ribonucleoside-Enhanced Crosslinking Immunoprecipitation (PAR-CLIP).
Maatz H; Kolinski M; Hubner N; Landthaler M
Curr Protoc Mol Biol; 2017 Apr; 118():27.6.1-27.6.19. PubMed ID: 28369676
[TBL] [Abstract][Full Text] [Related]
5. Leveraging cross-link modification events in CLIP-seq for motif discovery.
Bahrami-Samani E; Penalva LO; Smith AD; Uren PJ
Nucleic Acids Res; 2015 Jan; 43(1):95-103. PubMed ID: 25505146
[TBL] [Abstract][Full Text] [Related]
6. PAR-CLIP and streamlined small RNA cDNA library preparation protocol for the identification of RNA binding protein target sites.
Benhalevy D; McFarland HL; Sarshad AA; Hafner M
Methods; 2017 Apr; 118-119():41-49. PubMed ID: 27871973
[TBL] [Abstract][Full Text] [Related]
7. Transcriptome-wide profiles of circular RNA and RNA-binding protein interactions reveal effects on circular RNA biogenesis and cancer pathway expression.
Okholm TLH; Sathe S; Park SS; Kamstrup AB; Rasmussen AM; Shankar A; Chua ZM; Fristrup N; Nielsen MM; Vang S; Dyrskjøt L; Aigner S; Damgaard CK; Yeo GW; Pedersen JS
Genome Med; 2020 Dec; 12(1):112. PubMed ID: 33287884
[TBL] [Abstract][Full Text] [Related]
8. RNA-protein binding motifs mining with a new hybrid deep learning based cross-domain knowledge integration approach.
Pan X; Shen HB
BMC Bioinformatics; 2017 Feb; 18(1):136. PubMed ID: 28245811
[TBL] [Abstract][Full Text] [Related]
9. Computational analysis of CLIP-seq data.
Uhl M; Houwaart T; Corrado G; Wright PR; Backofen R
Methods; 2017 Apr; 118-119():60-72. PubMed ID: 28254606
[TBL] [Abstract][Full Text] [Related]
10. CLIPdb: a CLIP-seq database for protein-RNA interactions.
Yang YC; Di C; Hu B; Zhou M; Liu Y; Song N; Li Y; Umetsu J; Lu ZJ
BMC Genomics; 2015 Feb; 16(1):51. PubMed ID: 25652745
[TBL] [Abstract][Full Text] [Related]
11. Seten: a tool for systematic identification and comparison of processes, phenotypes, and diseases associated with RNA-binding proteins from condition-specific CLIP-seq profiles.
Budak G; Srivastava R; Janga SC
RNA; 2017 Jun; 23(6):836-846. PubMed ID: 28336542
[TBL] [Abstract][Full Text] [Related]
12. Transcriptome-Wide Mapping of Protein-RNA Interactions.
Bi X; Shen X
Methods Mol Biol; 2020; 2161():161-173. PubMed ID: 32681512
[TBL] [Abstract][Full Text] [Related]
13. Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP).
Van Nostrand EL; Pratt GA; Shishkin AA; Gelboin-Burkhart C; Fang MY; Sundararaman B; Blue SM; Nguyen TB; Surka C; Elkins K; Stanton R; Rigo F; Guttman M; Yeo GW
Nat Methods; 2016 Jun; 13(6):508-14. PubMed ID: 27018577
[TBL] [Abstract][Full Text] [Related]
14. Sensitive and highly resolved identification of RNA-protein interaction sites in PAR-CLIP data.
Comoglio F; Sievers C; Paro R
BMC Bioinformatics; 2015 Feb; 16():32. PubMed ID: 25638391
[TBL] [Abstract][Full Text] [Related]
15. Genome-wide identification of protein binding sites on RNAs in mammalian cells.
Liu F; Ma T; Zhang Y
Biochem Biophys Res Commun; 2019 Jan; 508(3):953-958. PubMed ID: 30545631
[TBL] [Abstract][Full Text] [Related]
16. Discovering sequence and structure landscapes in RNA interaction motifs.
Adinolfi M; Pietrosanto M; Parca L; Ausiello G; Ferrè F; Helmer-Citterich M
Nucleic Acids Res; 2019 Jun; 47(10):4958-4969. PubMed ID: 31162604
[TBL] [Abstract][Full Text] [Related]
17. Mapping the Transcriptome-Wide Landscape of RBP Binding Sites Using gPAR-CLIP-seq: Experimental Procedures.
Han T; Kim JK
Methods Mol Biol; 2016; 1361():77-90. PubMed ID: 26483017
[TBL] [Abstract][Full Text] [Related]
18. CRISPR/Cas9-mediated integration enables TAG-eCLIP of endogenously tagged RNA binding proteins.
Van Nostrand EL; Gelboin-Burkhart C; Wang R; Pratt GA; Blue SM; Yeo GW
Methods; 2017 Apr; 118-119():50-59. PubMed ID: 28003131
[TBL] [Abstract][Full Text] [Related]
19. Transposable elements modulate human RNA abundance and splicing via specific RNA-protein interactions.
Kelley DR; Hendrickson DG; Tenen D; Rinn JL
Genome Biol; 2014 Dec; 15(12):537. PubMed ID: 25572935
[TBL] [Abstract][Full Text] [Related]
20. Discovery of Allele-Specific Protein-RNA Interactions in Human Transcriptomes.
Bahrami-Samani E; Xing Y
Am J Hum Genet; 2019 Mar; 104(3):492-502. PubMed ID: 30827501
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
