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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
166
total RNA-seq
129
ATAC-seq
114
ChIP-seq
113
single cell RNA-seq
56
snATAC-seq
31
DNase-seq
17
pCHi-C
10
RRBS
7
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
281
Transcription
217
DNA accessibility
114
DNA binding
11
DNA methylation
7
3D chromatin structure
Target of assay
179
histone
179
histone modification
broad histone mark
84
narrow histone mark
23
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
140
May, 2021
54
May, 2022
51
February, 2023
47
June, 2019
42
February, 2021
40
September, 2020
31
July, 2019
22
October, 2019
12
August, 2017
11
July, 2018
10
April, 2018
9
November, 2017
8
January, 2021
6
November, 2020
5
December, 2019
3
August, 2021
3
May, 2019
2
June, 2018
1
March, 2020
1
March, 2023
1
November, 2018
1
September, 2018
Available data
342
bam
330
bigWig
162
tsv
145
fastq
138
bed narrowPeak
73
zippedFastqFolder
66
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
36
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
647
Homo sapiens
Biosample type
2009
tissue
647
primary cell
559
cell line
335
in vitro differentiated cells
9
stem cell
Organ
375
epithelium
pancreas
35
connective tissue
31
kidney
28
vasculature
22
blood vessel
21
brain
13
heart
13
liver
13
vein
10
musculature of body
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
314
AMP
172
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
352
hg19
275
GRCh38
Lab
299
AMP-T2D consortium
175
Kyle Gaulton, UCSD
172
Klaus Kaestner, Upenn
1
ITG
Audit category:
41
inconsistent ontology term
28
audit script error
Audit category:
1
inconsistent assembly
1
inconsistent control read length
1
inconsistent control run_type
assay_title!
HiChIP
organ_slims!
pancreas
stomach
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
647 results
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total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
snATAC-seq
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
monocyte
54
15
41
1
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
1
22
1
1
CD4-positive, alpha-beta memory T cell
22
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