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Series GSE124686 Query DataSets for GSE124686
Status Public on Jan 05, 2019
Title Genome-wide analysis of cfDNA fragmentation patterns and nucleosome positioning in dual enzyme-digested NIPT quality control materials (DENQCMs) and maternal plasma
Organism Homo sapiens
Experiment type Other
Genome binding/occupancy profiling by high throughput sequencing
Summary The genome-wide analysis of cfDNA fragmentation patterns in DENQCMs and maternal plasma was performed by deep sequencing using Illumina Novaseq to confirm their biological characteristics. We first performed deep whole genome sequencing of the cfDNA extracted from DENQCMs and maternal plasma cfDNA. Then we analyzed the sequencing data and compared various characteristics of cfDNA fragmentation patterns, such as dinucleotide composition, nucleosome protection length, and nucleosome occupancy based on a windowed protection score (WPS), to the submitter-provided processed data from a healthy individual IH01 (GEO accession GSM1833276).
Overall design cfDNA profiles of 2 samples were generated by deep sequencing using Illumina NovaSeq.
Contributor(s) Zhang R, Ding J
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Submission date Jan 04, 2019
Last update date Jan 06, 2019
Contact name Ziyang Li
Organization name Wenzhou Medical University
Street address University-town, Chashan
City Wenzhou
State/province Zhejiang Province
ZIP/Postal code 325035
Country China
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (2)
GSM3541202 DENQCMs
GSM3541203 Maternal plasma
BioProject PRJNA513060
SRA SRP175328

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Supplementary file Size Download File type/resource
GSE124686_RAW.tar 339.1 Mb (http)(custom) TAR (of TAR)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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