rmaps.cecsresearch.org

rMAPS | rna Map Analysis and Plotting Server

RMAPS is a web server that systematically generates RNA-maps for the analysis of RNA-binding proteins (RBPs) binding sites which have position-dependent functions. Users can easily perform analysis of binding sites around differential alternative splicing events for over 100 of known RBPs. rMAPS can also analyze CLIP-seq peaks around differential alternative splicing events to generate an RNA-map of CLIP-seq experiment. Overall pipeline of rMAPS ]. Release of rMAPS v1.0.1. Release of rMAPS v1.0.0. Of Yan...

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rMAPS | rna Map Analysis and Plotting Server | rmaps.cecsresearch.org Reviews

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RMAPS is a web server that systematically generates RNA-maps for the analysis of RNA-binding proteins (RBPs) binding sites which have position-dependent functions. Users can easily perform analysis of binding sites around differential alternative splicing events for over 100 of known RBPs. rMAPS can also analyze CLIP-seq peaks around differential alternative splicing events to generate an RNA-map of CLIP-seq experiment. Overall pipeline of rMAPS ]. Release of rMAPS v1.0.1. Release of rMAPS v1.0.0. Of Yan...

<META> KEYWORDS

1 motif map

2 clip map

3 rmaps

4 na m

5 ap a

6 nalysis

7 and p

8 lotting s

9 erver

10 maps

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motif map,clip map,rmaps,na m,ap a,nalysis,and p,lotting s,erver,maps,and bioinformatics core,news,citation,user guide,maps motif tool,one click test,maps in action,fig 5c,elife,fig 1c d,fig 3d,cell reports,fig 6b,affiliation

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rMAPS | rna Map Analysis and Plotting Server | rmaps.cecsresearch.org Reviews

https://rmaps.cecsresearch.org

RMAPS is a web server that systematically generates RNA-maps for the analysis of RNA-binding proteins (RBPs) binding sites which have position-dependent functions. Users can easily perform analysis of binding sites around differential alternative splicing events for over 100 of known RBPs. rMAPS can also analyze CLIP-seq peaks around differential alternative splicing events to generate an RNA-map of CLIP-seq experiment. Overall pipeline of rMAPS ]. Release of rMAPS v1.0.1. Release of rMAPS v1.0.0. Of Yan...

INTERNAL PAGES

rmaps.cecsresearch.org

1

CLIP Map Tool

http://rmaps.cecsresearch.org/RTool/OneClick

Please upload your rMATS Skipped Exon (SE) output file. Such as, SE.MATS.ReadsOnTargetAndJunctionCounts.txt). Please upload your MISO Skipped Exon (SE) output file. Such as, SE.MISO.ReadsOnTargetAndJunctionCounts.txt). Please upload your Peak Caller file. Such as, PiRanHa and PIPE-CLIP). Your submission is running. Typical running time is 10 minutes. Your query ID is 636246269372062500. You can check your results at. Http:/ rmaps.cecsresearch.org/Content/Data/ 636246269372062500. Chr strand exonStart exo...

2

RNA Binding Proteins

http://rmaps.cecsresearch.org/Help/RNABindingProtein

RNA Binding Proteins (RBP s. This list was compiled from Ray et al. Nature. 2013; 499(7457):172-7, Anderson et al. RNA 2012; 18(5):1041-9. RMAPS (v1.0.1) is a computational motif enrichment analysis tool for RNA-binding proteins using RNA-seq and CLIP-seq data. Quick Run with Testdata. RBPs used in r. Of Bebee et al. Of Xinjun et al. 2016 doi: 10.1093/nar/gkw088. Of Cieply et al. Of Yang et al. 2016 doi: 10.1128/MCB.00019-16. KBRIN - Kentucky Bioinformatics Research Infrastructure Network and INBRE.

3

Help

http://rmaps.cecsresearch.org/Help

Quick Run with Testdata. RNA Binding Proteins used in r. RMAPS (v1.0.1) is a computational motif enrichment analysis tool for RNA-binding proteins using RNA-seq and CLIP-seq data. Quick Run with Testdata. RBPs used in r. Of Bebee et al. Of Xinjun et al. 2016 doi: 10.1093/nar/gkw088. Of Cieply et al. Of Yang et al. 2016 doi: 10.1128/MCB.00019-16. KBRIN - Kentucky Bioinformatics Research Infrastructure Network and INBRE. Department of Computer Engineering and Computer Science at University of Louisville.

4

CLIP Map Tool

http://rmaps.cecsresearch.org/RTool

Please upload your rMATS Skipped Exon (SE) output file. Such as, SE.MATS.ReadsOnTargetAndJunctionCounts.txt). Please upload your MISO Skipped Exon (SE) output file. Such as, SE.MISO.ReadsOnTargetAndJunctionCounts.txt). Please upload your Peak Caller file. Such as, PiRanHa and PIPE-CLIP). Your submission is running. Typical running time is 10 minutes. Your query ID is 636246269366906250. You can check your results at. Http:/ rmaps.cecsresearch.org/Content/Data/ 636246269366906250. Chr strand exonStart exo...

5

UserGuide

http://rmaps.cecsresearch.org/Help/UserGuide

RMAPS consists of two tools. Motif Map performs motif enrichment analysis for RNA-binding proteins. CLIP Map examines CLIP-seq peak data to generate RNA-map of the protein used in the CLIP-seq experiment. It is a simple step. You can simply select Genome assembly used in the RNA-seq experiment. Currently, hg38, hg19, mm10, dm6, dm3, rn6, ce11, and danRer10 are available. Upload rMATS output (simple and recommended). Program (computational tool to detect differential alternative splicing events). Here are...

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bioinformatics.louisville.edu

Bioinformatics Lab UofL

http://bioinformatics.louisville.edu/lab/projects.php

Duthie 238 ITS HAPPENING HERE. Below is a sampling of some of the ongoing bioinformatics research projects at the University of Louisville. RMAPS: rna Map Analysis and Plotting Server. JW Park, S Jung, EC Rouchka, T Tseng, Y Xing. CSI-UTR: Cleavage site interval analysis of 3'UTR differential expression. BJ Harrison, JC Petruska, EC Rouchka. JH Chariker, Y Zhang, J Pani, EC Rouchka. Genome-wide analysis of g-quadruplex forming sequences. JH Chariker, DM Miller, EC Rouchka. EC Rouchka, C.T. Hardin. T Kalb...

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rMAPS | rna Map Analysis and Plotting Server

RMAPS is a web server that systematically generates RNA-maps for the analysis of RNA-binding proteins (RBPs) binding sites which have position-dependent functions. Users can easily perform analysis of binding sites around differential alternative splicing events for over 100 of known RBPs. rMAPS can also analyze CLIP-seq peaks around differential alternative splicing events to generate an RNA-map of CLIP-seq experiment. Overall pipeline of rMAPS ]. Release of rMAPS v1.0.1. Release of rMAPS v1.0.0. Of Yan...

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