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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
656
ChIP-seq
233
total RNA-seq
138
ATAC-seq
77
single cell RNA-seq
56
snATAC-seq
23
pCHi-C
14
DNase-seq
6
Hi-C
5
STARR-seq
4
RRBS
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
2
small RNA-seq
1
DNAme array
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
656
DNA binding
314
Transcription
208
DNA accessibility
6
3D chromatin structure
6
DNA methylation
1
DNA sequencing
Target of assay
365
transcription factor
197
histone
197
histone modification
104
broad histone mark
93
narrow histone mark
92
control
89
recombinant protein
69
RNA binding protein
31
chromatin remodeller
2
other context
2
other post-translational modification
Date released
318
November, 2017
206
May, 2021
148
May, 2020
112
February, 2021
62
November, 2018
56
February, 2023
54
May, 2022
42
August, 2021
September, 2020
35
June, 2019
30
August, 2017
29
October, 2019
28
December, 2018
23
January, 2019
18
July, 2019
15
July, 2018
12
September, 2018
10
April, 2018
8
January, 2021
6
March, 2020
6
November, 2020
3
March, 2023
2
June, 2018
1
January, 2018
1
October, 2022
Available data
898
bam
854
bigWig
578
bed narrowPeak
576
fastq
402
bigBed narrowPeak
238
tsv
116
tagAlign
86
bed broadPeak
86
bigBed broadPeak
54
zippedFastqFolder
19
bed bed3+
5
bed bedMethyl
5
bigBed bedMethyl
3
hdf5
3
tar
2
bed bed3
2
csv
2
hic
1
bedpe bed3+
1
txt
1
vcf
Organism
1222
Homo sapiens
Biosample type
2762
tissue
642
primary cell
583
cell line
370
in vitro differentiated cells
10
stem cell
Organ
epithelium
419
pancreas
415
liver
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
39
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
881
AMP
209
T1D
132
HPAP
2
community
1
ITG
Genome assembly (visualization)
879
hg19
726
GRCh38
Lab
812
AMP-T2D consortium
244
Kyle Gaulton, UCSD
132
Klaus Kaestner, Upenn
34
Bing Ren, UCSD
2
Anna Gloyn, Oxford
1
ITG
Audit category:
60
inconsistent ontology term
27
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
36
missing controlled_by
Audit category:
27
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
month_released!
September, 2020
organ_slims!
epithelium
BIOSAMPLE
ASSAY
1225 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
pCHi-C
DNase-seq
Hi-C
STARR-seq
RRBS
CRISPR genome editing followed by DNA sequencing
HiChIP
small RNA-seq
DNAme array
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
monocyte
85
54
15
1
1
Langerhans cell
45
48
CD8-positive, alpha-beta T cell
33
4
2
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
2
1
22
1
+ See 70 more…
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
+ See 13 more…
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