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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
397
ChIP-seq
29
ATAC-seq
4
Hi-C
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
397
DNA binding
Transcription
30
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
354
transcription factor
82
recombinant protein
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
259
November, 2017
58
November, 2018
28
December, 2018
21
August, 2021
17
May, 2021
15
February, 2021
15
January, 2019
13
November, 2019
9
October, 2019
6
February, 2023
5
March, 2020
3
November, 2020
1
January, 2018
1
May, 2020
1
October, 2022
Available data
397
bigWig
396
bed narrowPeak
394
bam
360
fastq
354
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
4
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
450
Homo sapiens
Biosample type
1185
tissue
593
primary cell
452
cell line
219
in vitro differentiated cells
7
stem cell
Organ
327
liver
55
blood
55
bodily fluid
48
pancreas
40
epithelium
12
artery
12
blood vessel
12
heart
kidney
12
vasculature
1
mammary gland
Project
445
AMP
7
T1D
Genome assembly (visualization)
405
hg19
352
GRCh38
Lab
425
AMP-T2D consortium
19
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
39
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
target.investigated_as!
control
organ_slims!
kidney
assay_slims!
Transcription
BIOSAMPLE
ASSAY
452 results
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Clear Filters
ChIP-seq
ATAC-seq
Hi-C
pCHi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
318
1
2
2
2
1
1
GM12878
54
1
EndoC_BH1
13
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
8
Panc1
7
1
1
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