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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
462
ChIP-seq
102
total RNA-seq
29
ATAC-seq
6
pCHi-C
3
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
462
DNA binding
102
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
350
transcription factor
89
recombinant protein
76
control
64
RNA binding protein
33
histone
33
histone modification
30
chromatin remodeller
18
broad histone mark
15
narrow histone mark
2
other context
other post-translational modification
Date released
313
November, 2017
96
February, 2021
61
November, 2018
30
October, 2019
28
December, 2018
23
January, 2019
20
May, 2021
16
November, 2019
10
August, 2021
8
March, 2020
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
576
bam
502
bigWig
425
fastq
386
bed narrowPeak
353
bigBed narrowPeak
108
tsv
58
bed broadPeak
58
bigBed broadPeak
20
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
607
Homo sapiens
Biosample type
2418
tissue
609
cell line
524
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
368
liver
82
pancreas
69
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
8
embryo
1
mammary gland
Project
609
AMP
T1D
Genome assembly (visualization)
509
hg19
458
GRCh38
Lab
609
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
81
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!
other post-translational modification
award.project!
T1D
BIOSAMPLE
ASSAY
609 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
358
5
1
2
1
1
EndoC_BH1
13
31
19
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
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