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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
384
ChIP-seq
44
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-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
Assay category
384
DNA binding
46
Transcription
22
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
295
transcription factor
89
recombinant protein
71
control
54
RNA binding protein
34
histone
34
histone modification
20
chromatin remodeller
18
broad histone mark
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
308
November, 2017
46
November, 2018
August, 2021
30
February, 2021
27
October, 2019
20
May, 2021
12
November, 2019
10
March, 2020
6
February, 2023
6
November, 2020
5
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
432
bam
373
bigWig
360
fastq
309
bed narrowPeak
292
bigBed narrowPeak
53
bed broadPeak
53
bigBed broadPeak
50
tsv
9
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
471
Homo sapiens
Biosample type
2115
tissue
939
primary cell
475
cell line
304
in vitro differentiated cells
9
stem cell
Organ
363
liver
81
pancreas
71
epithelium
66
artery
blood vessel
66
heart
66
vasculature
60
blood
bodily fluid
17
kidney
1
mammary gland
Project
466
AMP
7
T1D
2
community
Genome assembly (visualization)
372
hg19
323
GRCh38
Lab
462
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
83
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
August, 2021
organ_slims!
blood vessel
bodily fluid
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
475 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
353
5
1
2
1
1
EndoC_BH1
9
33
19
6
3
1
2
1
Panc1
10
1
1
RCC 7860 HIF1a re-expression
4
1
RCC 7860 vector
3
1
1
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