|
| Status |
Public on Jul 17, 2022 |
| Title |
K562_Ser5_MulTI_primary_indiv_rep2_(200610_MM_Hs_MPM1528) |
| Sample type |
SRA |
| |
|
| Source name |
MulTI-Tag
|
| Organism |
Homo sapiens |
| Characteristics |
antibody: PolIIS5P Abcam ab5408 Lot GR3264297-2
cell type: K562 human immortalised myelogenous leukemia cell line
|
| 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 HiSeq 2500 |
| |
|
| Description |
Primary antibody conjugate MulTI-Tag for PolIIS5P in K562 cells, individually profiled
|
| 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).
|
| |
|
| 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 |
GPL16791 |
| Series (1) |
| GSE179756 |
Multifactorial chromatin regulatory landscapes at single cell resolution |
|
| Relations |
| BioSample |
SAMN29758532 |
| SRA |
SRX17595769 |
| SRA |
SRX16249453 |
