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Sample GSM2884197 Query DataSets for GSM2884197
Status Public on Aug 17, 2018
Title human cord blood CD34+ sample2 m6A
Sample type SRA
 
Source name human umbilical cord blood
Organism Homo sapiens
Characteristics cell type: primary umbilical cord blood CD34+ cells
rip antibody: EpiMark N6-Methyladenosine Enrichment Kit (NEB E1610S)
sample type: IP
Extracted molecule total RNA
Extraction protocol Total RNAs were extracted from freshly isolated human UCB CD34+ cells and chemically fragmented. m6A marked RNAs were isolated with a specific antibody.
RNA libraries were prepared for sequencing using Clontech/Nextera non-stranded protocol. Libraries were sequenced on two NextSeq flowcells in high-output mode with 76 base single-end reads.
 
Library strategy RIP-Seq
Library source transcriptomic
Library selection other
Instrument model Illumina NextSeq 500
 
Data processing Fastq files were generated with bcl2fastq2 (2.18.0.12).
Reads were aligned to the human genome hg19 from UCSC using Tophat 2.1.1 with --no-coverage-search.
Genome_build: hg19
Supplementary_files_format_and_content: bigWig files normalized by reads per million mapped reads from tophat transcriptome alignment.
 
Submission date Dec 12, 2017
Last update date May 15, 2019
Contact name Madelaine Gogol
Organization name Stowers Institute
Department Computational Biology Core
Street address 1000 E. 50th Street
City Kansas City
State/province MO
ZIP/Postal code 64110
Country USA
 
Platform ID GPL18573
Series (2)
GSE107954 m6A-seq mapping of human umbilical cord blood hematopoietic stem/progenitor cells
GSE107957 Hematopoietic stem cell expansion through suppression of YTHDF2-mediated m6A-marked mRNA decay
Relations
BioSample SAMN08163116
SRA SRX3463150

Supplementary file Size Download File type/resource
GSM2884197_hCB_CD34pos_2_m6A.rpm.bw 51.8 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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