Supplementary Data
Data Repository

Publication:

Samantha K Beeson, Robert J Schaefer, Victor C Mason, and Molly E McCue

Robust remapping of equine SNP array coordinates to EquCab3

Anim Genet. 2019 Feb;50(1):114-115.


 MNEc2M.blast.EquCab3.txt.gz101.88 MB2018-08-23 23:08:43
 MNEc2M.NCBI.remap.csv.gz26.62 MB2018-08-23 23:04:01
 MNEc2M.probe sequence.fa.gz54.16 MB2018-08-23 23:09:14
 MNEc2M.remap failure.csv.gz937.83 KB2018-10-02 18:01:08
 MNEc2M.unique remap.FINAL.csv.gz22.93 MB2018-08-23 22:54:34
 MNEc670k.remap failure.csv.gz359.53 KB2018-10-02 18:01:10
 MNEc670k.unique remap.FINAL.csv.gz8.21 MB2018-08-23 22:55:03
 SNP50.blast.EquCab3.txt.gz631.77 KB2018-08-23 22:58:16
 SNP50.NCBI.remap.csv.gz925.57 KB2018-08-23 23:04:08
 SNP50.probe sequence.fa.gz1.03 MB2018-08-23 23:05:24
 SNP50.remap failure.csv.gz26.02 KB2018-10-02 18:01:11
 SNP50.unique remap.FINAL.csv.gz734.9 KB2018-08-23 22:55:05
 SNP70.blast.EquCab3.txt.gz935.77 KB2018-08-23 22:58:19
 SNP70.NCBI.remap.csv.gz1.08 MB2018-08-23 23:04:15
 SNP70.probe sequence.fa.gz1.24 MB2018-08-23 23:05:35
 SNP70.remap failure.csv.gz34.96 KB2018-10-02 18:01:11
 SNP70.unique remap.FINAL.csv.gz907.16 KB2018-08-23 22:55:07

Contact: Samantha K Beeson (beeso018@umn.edu)
         Veterinary Population Medicine Department,
         University of Minnesota, St Paul, MN

File Descriptions

All files are named according to the SNP chip ID referenced in the manuscript.

Files named *.probe_sequence.fa include the probe sequences used to
determine SNP locations in EquCab3.

Files named *.blast.EquCab3.txt include all 100% BLAST hits for each probe.

Files named *.unique_remap.FINAL.csv include relevant information on each
individual SNP that successfully mapped to EquCab3 using our probe-based approach.

Files named *.remap_failure.csv include reasons for remapping failure for 
each SNP failing to map to EquCab3 using our probe-based approach.

Files named *.NCBI.remap.csv include the output from NCBI's Genome Remapping 
Service, found here: https://www.ncbi.nlm.nih.gov/genome/tools/remap

 
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