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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
470
ChIP-seq
61
total RNA-seq
21
ATAC-seq
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
470
DNA binding
63
Transcription
23
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
349
transcription factor
89
recombinant protein
78
control
62
RNA binding protein
38
histone
38
histone modification
22
chromatin remodeller
19
broad histone mark
19
narrow histone mark
2
other context
2
other post-translational modification
Date released
311
November, 2017
57
November, 2018
44
August, 2021
30
February, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
508
bam
458
bigWig
419
fastq
384
bed narrowPeak
347
bigBed narrowPeak
67
tsv
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
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
578
Homo sapiens
Biosample type
2460
tissue
1074
primary cell
582
cell line
393
in vitro differentiated cells
10
stem cell
Organ
393
liver
86
pancreas
73
epithelium
66
artery
66
blood vessel
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
571
AMP
9
T1D
2
community
Genome assembly (visualization)
458
hg19
394
GRCh38
Lab
541
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
86
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
26
inconsistent control read length
inconsistent control run_type
1
inconsistent assembly
assay_title!
MeRIP-seq
organ_slims!
heart
audit.WARNING.category!
inconsistent control run_type
BIOSAMPLE
ASSAY
582 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-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
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
370
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
1
3
2
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
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