This is the Windows app named YeastpRofile to run in Windows online over Linux online whose latest release can be downloaded as YeastpRofile_V.2.zip. It can be run online in the free hosting provider OnWorks for workstations.
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SCREENSHOTS:
YeastpRofile to run in Windows online over Linux online
DESCRIPTION:
YeastpRofile is a portable Windows form application, written in C#, to compute the profile of a genomic variable around transcription start (TSS) and termination (TTS) sites of yeast mRNAs. The profile is obtained by calculating the genome-wide Pearson correlation coefficient (R) between the genomic variable values and the TSS (or TTS) counts at incremental shifting of transcribed strand. The data of TSS and TTS counts used to compute the profiles were taken from the work of Pelechano et al. (1). The input file must be a BedGraph formatted file based on yeast genome sequence release R64. The output file is a text tab-delimited table reporting R values for the various shifts of variable coordinates with respect to TSS or TTS. R related to each strand is also reported to verify that a similar profile is obtained in the two direction of transcription.1) V. Pelechano, W. Wei, L.M. Steinmetz, Extensive transcriptional heterogeneity revealed by isoform profiling, Nature, 497 (2013) 127-13.
Audience
Science/Research
Programming Language
C#
This is an application that can also be fetched from https://sourceforge.net/projects/yeastprofile/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.