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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
200
total RNA-seq
184
single cell RNA-seq
148
ChIP-seq
100
ATAC-seq
56
snATAC-seq
26
DNase-seq
17
pCHi-C
7
Hi-C
2
small RNA-seq
1
FAIRE-seq
Assay category
386
Transcription
183
DNA accessibility
148
DNA binding
DNA methylation
7
3D chromatin structure
Target of assay
234
histone
234
histone modification
broad histone mark
112
narrow histone mark
29
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
May, 2020
139
May, 2021
93
May, 2022
88
February, 2023
59
September, 2020
56
September, 2018
48
July, 2018
43
April, 2018
42
August, 2017
42
February, 2021
42
June, 2019
22
October, 2019
16
July, 2019
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
3
June, 2018
3
May, 2019
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
402
bam
385
bigWig
360
fastq
216
tsv
172
bed narrowPeak
112
zippedFastqFolder
77
bigBed narrowPeak
49
tagAlign
30
bed broadPeak
30
bigBed broadPeak
28
bed bed3+
6
hic
4
bedpe bed3+
3
cool
2
csv
1
bed bed3
1
hdf5
1
tar
Organism
741
Homo sapiens
Biosample type
2049
tissue
741
primary cell
641
cell line
338
in vitro differentiated cells
9
stem cell
Organ
322
epithelium
272
pancreas
34
connective tissue
28
kidney
27
vasculature
22
blood vessel
brain
13
vein
12
heart
12
liver
9
musculature of body
8
blood
8
bodily fluid
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
348
AMP
277
HPAP
115
T1D
1
ITG
Genome assembly (visualization)
390
hg19
381
GRCh38
Lab
333
AMP-T2D consortium
277
Klaus Kaestner, Upenn
130
Kyle Gaulton, UCSD
1
ITG
Audit category:
36
inconsistent ontology term
31
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
assay_slims!
DNA methylation
month_released!
May, 2020
organ_slims!
brain
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
741 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
DNase-seq
pCHi-C
Hi-C
small RNA-seq
FAIRE-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
52
12
10
35
1
monocyte
52
41
13
1
pancreatic beta cell
21
12
10
23
1
exocrine cell
39
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