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Series GSE87097 Query DataSets for GSE87097
Status Public on Feb 09, 2017
Title High concordance between Illumina HiSeq2500 and NextSeq500 for Reduced Representation Bisulfite Sequencing (RRBS)
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary Reduced representation bisulfite sequencing (RRBS) provides an efficient method for measuring DNA methylation at single base resolution in regions of high CpG density. This technique has been extensively tested on the HiSeq2500, which uses a 4-colour detection method, however it is unclear if the method will also work on the NextSeq500 platform, which employs a 2-colour detection system. We created an RRBS library and sequenced it on both the HiSeq2500 and NextSeq500, and found no significant difference in the base composition of reads derived from either machine. Moreover, the methylation calls made from the data of each instrument were highly concordant, with methylation patterns across the genome appearing as expected. Therefore, RRBS can be sequenced on the Nextseq500 with comparable quality to that of the HiSeq2500.
Overall design Examination of RRBS data produced on the HiSeq2500 and NextSeq500.
Contributor(s) Keniry A
Citation(s) 27766205
Submission date Sep 19, 2016
Last update date May 15, 2019
Contact name Andrew Keniry
Phone 93452555
Organization name The Waler and Eliza Hall Institute of Medical Research
Department Molecular Medicine
Lab Blewitt
Street address 1G
City Royal Parade
State/province Victoria
ZIP/Postal code 3052
Country Australia
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (2)
GSM2322250 HiSeq_RRBS
GSM2322251 NextSeq_RRBS
BioProject PRJNA343502
SRA SRP090136

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE87097_RAW.tar 1.7 Gb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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