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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
400
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
400
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
16
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
46
November, 2018
August, 2021
30
February, 2021
30
October, 2019
21
May, 2021
16
November, 2019
11
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
448
bam
389
bigWig
367
fastq
324
bed narrowPeak
301
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
50
tsv
14
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
487
Homo sapiens
Biosample type
2421
tissue
1045
primary cell
491
cell line
352
in vitro differentiated cells
10
stem cell
Organ
370
liver
90
pancreas
77
epithelium
66
artery
blood vessel
66
heart
66
vasculature
61
blood
bodily fluid
17
kidney
1
mammary gland
Project
480
AMP
9
T1D
2
community
Genome assembly (visualization)
388
hg19
338
GRCh38
Lab
478
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
89
inconsistent ontology term
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!
August, 2021
organ_slims!
blood vessel
bodily fluid
BIOSAMPLE
ASSAY
491 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
360
5
1
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
1
Panc1
13
1
1
RCC 7860 HIF1a re-expression
4
1
RCC 7860 vector
3
1
1
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