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Install and launch IGV before selecting data to visualize
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Error connecting to IGV?
Analyze
For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
Download
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: Input control
wikigenes
PDBj
CellType: A549
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX2443779
GSM2437759: ChIP-seq from A549 (ENCLB756RSJ); Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Input control
Antigen
Input control
Cell type
Cell type Class
Lung
Cell type
A549
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma
Attributes by original data submitter
Sample
dev stage
adult
donor ID
ENCDO000AAZ
age
58 year
sex
male
lab
Tim Reddy, Duke
treatments
treatment_term_id: CHEBI:41879; treatment_term_name: dexamethasone; treatment_type: chemical; duration: 3; duration_units: hour;
sample type
immortalized cell line
cell line
A549
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
general protocol: https://www.encodeproject.org/documents/e21fb833-cd54-4c37-a3b6-440732909433/@@download/attachment/01_ChIP_DEX_Harvest_Reddy_GGR.pdf extraction protocol: https://www.encodeproject.org/documents/4ac7e9ce-4a92-42da-a1ab-299d4205eb96/@@download/attachment/02_ChIP_shearing_IP_reverse_v.2_Reddy_GGR.pdf treatment protocol: https://www.encodeproject.org/documents/1bca5eae-b9ce-4df0-b401-612924dc53a4/@@download/attachment/03_KAPA_Hyper_Prep_Kit_KR0961-TDSv2.15_final_24%20rxn_Reddy_GGR.pdf general protocol: https://www.encodeproject.org/documents/0d841e8a-a32d-416e-8f99-9db162bd09be/@@download/attachment/03_notes_Reddy_GGR.pdf
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
29660938
Reads aligned (%)
98.7
Duplicates removed (%)
2.6
Number of peaks
872 (qval < 1E-05)
hg19
Number of total reads
29660938
Reads aligned (%)
97.9
Duplicates removed (%)
3.6
Number of peaks
933 (qval < 1E-05)
Base call quality data from
DBCLS SRA