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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
482
ChIP-seq
109
total RNA-seq
27
ATAC-seq
5
STARR-seq
4
Hi-C
2
Capture-C
2
DNase-seq
2
pCHi-C
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
482
DNA binding
111
Transcription
29
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
80
control
65
RNA binding protein
36
histone
36
histone modification
30
chromatin remodeller
19
broad histone mark
17
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
20
May, 2021
16
November, 2019
March, 2020
November, 2020
2
March, 2023
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
576
bam
514
bigWig
427
fastq
402
bed narrowPeak
355
bigBed narrowPeak
110
tsv
59
bed broadPeak
59
bigBed broadPeak
20
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
635
Homo sapiens
Biosample type
2706
tissue
877
primary cell
639
cell line
386
in vitro differentiated cells
6
stem cell
Organ
401
liver
80
pancreas
67
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
8
embryo
Project
637
AMP
T1D
2
community
Genome assembly (visualization)
522
hg19
458
GRCh38
Lab
603
AMP-T2D consortium
34
Bing Ren, UCSD
2
Anna Gloyn, Oxford
Audit category:
78
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
month_released!
November, 2020
March, 2020
award.project!
T1D
BIOSAMPLE
ASSAY
639 results
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ChIP-seq
total RNA-seq
ATAC-seq
STARR-seq
Hi-C
Capture-C
DNase-seq
pCHi-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
EndoC_BH1
13
31
17
1
2
1
GM12878
60
1
Panc1
13
1
1
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