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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
447
ChIP-seq
57
total RNA-seq
21
ATAC-seq
6
MeRIP-seq
4
Hi-C
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
447
DNA binding
59
Transcription
22
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
350
transcription factor
82
recombinant protein
78
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
other post-translational modification
Date released
305
November, 2017
61
November, 2018
41
August, 2021
30
February, 2021
28
December, 2018
23
January, 2019
21
May, 2021
11
October, 2019
10
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
481
bam
434
bigWig
417
fastq
365
bed narrowPeak
342
bigBed narrowPeak
61
tsv
50
bed broadPeak
50
bigBed broadPeak
8
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
552
Homo sapiens
Biosample type
2123
tissue
933
primary cell
556
cell line
338
in vitro differentiated cells
9
stem cell
Organ
390
liver
82
pancreas
73
epithelium
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
kidney
8
embryo
1
mammary gland
Project
545
AMP
9
T1D
2
community
Genome assembly (visualization)
434
hg19
370
GRCh38
Lab
512
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
71
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
20
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
organ_slims!
artery
kidney
target.investigated_as!
broad histone mark
other post-translational modification
BIOSAMPLE
ASSAY
556 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
Hi-C
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
367
14
1
2
2
2
1
1
EndoC_BH1
9
33
19
6
1
3
2
2
1
GM12878
60
1
Panc1
9
1
1
H1-hESC
8
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