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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
466
ChIP-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
466
DNA binding
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
347
transcription factor
89
recombinant protein
80
control
59
RNA binding protein
37
histone
37
histone modification
24
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
28
December, 2018
27
August, 2021
26
October, 2019
18
February, 2021
January, 2019
17
May, 2021
15
November, 2019
7
March, 2020
6
February, 2023
6
November, 2020
1
January, 2018
1
May, 2020
1
October, 2022
Available data
460
bam
404
fastq
403
bigWig
389
bed narrowPeak
340
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
6
tsv
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
527
Homo sapiens
Biosample type
1543
tissue
652
primary cell
529
cell line
256
in vitro differentiated cells
8
stem cell
Organ
387
liver
59
pancreas
45
epithelium
43
blood
43
bodily fluid
15
kidney
14
artery
14
blood vessel
14
heart
14
vasculature
1
mammary gland
Project
522
AMP
7
T1D
Genome assembly (visualization)
411
hg19
345
GRCh38
Lab
493
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
56
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
January, 2019
assay_slims!
Transcription
BIOSAMPLE
ASSAY
529 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
1
2
2
2
1
1
EndoC_BH1
15
19
6
1
3
2
2
1
GM12878
42
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
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