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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
360
total RNA-seq
314
ChIP-seq
207
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
23
pCHi-C
9
RRBS
6
Hi-C
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
551
Transcription
314
DNA binding
265
DNA accessibility
58
DNA methylation
6
3D chromatin structure
1
DNA sequencing
Target of assay
182
histone
182
histone modification
105
control
100
broad histone mark
82
narrow histone mark
33
transcription factor
8
recombinant protein
4
RNA binding protein
3
nucleotide modification
Date released
227
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
69
November, 2017
59
September, 2018
59
September, 2020
48
July, 2018
47
August, 2021
43
April, 2018
42
October, 2019
August, 2017
31
July, 2019
15
November, 2019
11
March, 2020
11
November, 2020
8
January, 2019
8
January, 2021
8
June, 2019
7
August, 2020
6
November, 2018
5
December, 2019
3
August, 2018
3
June, 2018
2
March, 2023
2
October, 2018
1
December, 2018
1
January, 2018
1
May, 2019
1
October, 2022
Available data
1133
bam
1089
bigWig
778
fastq
666
bed narrowPeak
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
108
tagAlign
94
bed broadPeak
94
bigBed broadPeak
40
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1234
Homo sapiens
Biosample type
1943
tissue
933
primary cell
306
in vitro differentiated cells
305
cell line
10
stem cell
Organ
391
epithelium
367
pancreas
119
liver
80
vasculature
78
blood vessel
73
heart
68
artery
38
kidney
24
connective tissue
15
blood
15
bodily fluid
10
brain
8
embryo
7
vein
5
musculature of body
2
adipose tissue
2
eye
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
702
AMP
321
HPAP
213
T1D
2
community
Genome assembly (visualization)
670
hg19
545
GRCh38
Lab
632
AMP-T2D consortium
321
Klaus Kaestner, Upenn
244
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
122
inconsistent ontology term
27
audit script error
1
inconsistent replicate
Audit category:
33
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bigBed narrowPeak
hic
month_released!
August, 2017
BIOSAMPLE
ASSAY
1238 results
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table-tab-icon
Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
RRBS
Hi-C
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
MPRA
shRNA RNA-seq
...and 2 more
primary cell
monocyte
54
85
15
1
1
Langerhans cell
85
48
pancreatic alpha cell
52
29
12
31
pancreatic beta cell
21
16
12
16
CD8-positive, alpha-beta T cell
4
33
2
1
+ See 88 more…
cell line
HepG2
14
85
1
1
2
1
2
EndoC_BH1
33
15
19
6
3
2
2
1
smooth muscle cell of the coronary artery
52
6
8
H1-hESC
8
Panc1
7
1
+ See 14 more…
See all biosamples
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