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Open Access Open Badges Research article

Genomic insights of protein arginine methyltransferase Hmt1 binding reveals novel regulatory functions

Eric J Milliman1, Zihua Hu23 and Michael C Yu1*

Author Affiliations

1 Department of Biological Sciences, State University of New York at Buffalo, Buffalo, NY, 14260, USA

2 Center for Computational Research, New York State Center of Excellence in Bioinformatics & Life Sciences, Department of Ophthalmology, Department of Biostatistics, Department of Medicine, State University of New York at Buffalo, Buffalo, NY, 14260, USA

3 SUNY Eye Institute, Buffalo, NY, 14260, USA

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BMC Genomics 2012, 13:728  doi:10.1186/1471-2164-13-728

Published: 26 December 2012

Additional files

Additional file 1 Table S1:

Hmt1 binding site coordinates trimmed to 250 bp. The file is in gff format, the columns are listed below: Column 1: Chromosome. Column 2: Source. Column 3: feature. Column 4: Start Coordinate. Column 5: Stop Coordinate. Column 6: Score. Column 7: Strand. Column 8: Reading Frame. Column 9: Attributes (GFF 86 kb)

Format: GFF Size: 86KB Download file

Open Data

Additional file 2 Table S2:

TF motif search. Results from transcription factor motif search. Transcription factors are listed on left, followed by number of Hmt1 peaks found to contain the TF’s motif. Followed by three different methods of background motif estimation. 1) Sequence shuffle of Hmt1 peaks, 2) S. cerevisiae promoter sequences (-500bp to +100bp of every ORF) and 3) 3’-UTR sequences for each ORF. (XLSX 53 kb)

Format: XLSX Size: 53KB Download file

Open Data