|
Status |
Public on Jul 17, 2022 |
Title |
DE4_K27_MulTI_seq_ICELL8_(220329_MM_Hs_MPM2614K27) |
Sample type |
SRA |
|
|
Source name |
MulTI-Tag
|
Organism |
Homo sapiens |
Characteristics |
antibody: H3K27me3 Cell Signaling Technology CST9733 Lot 16 cell type: Day 4 differentiated endoderm cells
|
Extracted molecule |
genomic DNA |
Extraction protocol |
MulTI-tag_protocol_220112.docx PMID 25827087
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
H3K27me3-barcoded data from MulTI-Tag for H3K27me3, H3K4me1, and H3K36me3 in DE Day 4 cells, sequentially profiled, amplified on ICELL8
|
Data processing |
Genome_build: UCSC hg19 1. We used Bowtie2 2.4.2 with options "--end-to-end --very-sensitive --no-mixed --no-discordant -q --phred33 -I 10 -X 700" to map paired-end reads to the reference sequence (Homo sapiens UCSC hg19 reference genome build). 2. We extracted properly paired reads from the alignments to generate a bed file of aligned fragments. 3. We used bedtools genomecov to make a count bedgraph file. 4. We used Kent_tools bedGraphToBigWig to convert the bedgraph files to bigwig files (Supplementary .bw).
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|
|
Submission date |
Jul 14, 2022 |
Last update date |
Nov 29, 2022 |
Contact name |
Jorja Henikoff |
E-mail(s) |
jorja@fhcrc.org
|
Phone |
206-667-4850
|
Organization name |
Fred Hutchinson Cancer Research Center
|
Department |
Basic Sciences
|
Lab |
Henikoff
|
Street address |
1100 Fairview AV N, A1-162
|
City |
Seattle |
State/province |
WA |
ZIP/Postal code |
98109-1024 |
Country |
USA |
|
|
Platform ID |
GPL18573 |
Series (1) |
GSE179756 |
Multifactorial chromatin regulatory landscapes at single cell resolution |
|
Relations |
BioSample |
SAMN29758483 |
SRA |
SRX17595668 |
SRA |
SRX16249352 |