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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
189
ChIP-seq
164
total RNA-seq
129
ATAC-seq
113
single cell RNA-seq
56
snATAC-seq
27
DNase-seq
17
pCHi-C
10
RRBS
2
Hi-C
2
small RNA-seq
1
DNAme array
Assay category
279
Transcription
212
DNA accessibility
189
DNA binding
11
DNA methylation
2
3D chromatin structure
Target of assay
163
histone
163
histone modification
86
broad histone mark
77
narrow histone mark
20
control
9
RNA binding protein
9
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
54
May, 2022
53
June, 2019
51
February, 2023
42
February, 2021
40
September, 2020
27
July, 2019
18
August, 2017
13
October, 2019
11
July, 2018
10
April, 2018
8
January, 2021
6
November, 2017
6
November, 2020
5
December, 2019
5
May, 2019
4
August, 2021
2
June, 2018
1
November, 2018
1
September, 2018
Available data
397
bigWig
388
bam
210
bed narrowPeak
160
tsv
148
fastq
100
tagAlign
73
zippedFastqFolder
70
bigBed narrowPeak
41
bed broadPeak
41
bigBed broadPeak
31
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
hic
Organism
710
Homo sapiens
Biosample type
2132
tissue
710
primary cell
503
cell line
387
in vitro differentiated cells
10
stem cell
Organ
401
epithelium
pancreas
39
connective tissue
36
kidney
35
vasculature
blood vessel
21
brain
20
vein
14
liver
14
musculature of body
13
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
334
AMP
204
T1D
172
HPAP
Genome assembly (visualization)
418
hg19
325
GRCh38
Lab
299
AMP-T2D consortium
239
Kyle Gaulton, UCSD
172
Klaus Kaestner, Upenn
Audit category:
49
inconsistent ontology term
27
audit script error
Audit category:
2
inconsistent assembly
1
inconsistent control read length
1
inconsistent control run_type
files.file_type!
hic
organ_slims!
blood vessel
pancreas
BIOSAMPLE
ASSAY
710 results
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ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
primary cell
monocyte
85
54
15
1
1
Langerhans cell
85
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
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