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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
469
ChIP-seq
79
total RNA-seq
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
469
DNA binding
81
Transcription
3
3D chromatin structure
1
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
360
transcription factor
89
recombinant protein
78
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
28
October, 2019
23
January, 2019
6
March, 2020
5
February, 2023
2
March, 2023
1
May, 2020
1
October, 2022
Available data
522
bam
471
bigWig
427
fastq
380
bed narrowPeak
354
bigBed narrowPeak
84
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
570
Homo sapiens
Biosample type
2513
tissue
573
cell line
554
primary cell
328
in vitro differentiated cells
10
stem cell
Organ
400
liver
73
pancreas
60
blood
60
bodily fluid
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
19
kidney
8
embryo
1
mammary gland
Project
566
AMP
5
T1D
2
community
Genome assembly (visualization)
468
hg19
406
GRCh38
Lab
532
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
files.file_type!
tagAlign bed3+
organ_slims!
epithelium
BIOSAMPLE
ASSAY
573 results
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Clear Filters
ChIP-seq
total RNA-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
2
2
1
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
1
H1-hESC
8
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