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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
total RNA-seq
210
ChIP-seq
188
ATAC-seq
180
single cell RNA-seq
56
snATAC-seq
47
WGBS
28
DNase-seq
16
pCHi-C
10
Hi-C
8
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
273
DNA accessibility
210
DNA binding
182
Transcription
56
DNA methylation
10
3D chromatin structure
Target of assay
176
histone
176
histone modification
93
broad histone mark
83
narrow histone mark
30
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
150
May, 2021
134
May, 2022
96
May, 2020
47
August, 2017
47
February, 2021
43
April, 2018
43
September, 2020
42
July, 2018
30
June, 2019
30
October, 2019
16
July, 2019
15
September, 2018
9
November, 2017
8
January, 2021
7
August, 2020
6
February, 2023
5
September, 2017
4
August, 2021
3
August, 2018
3
October, 2022
2
June, 2018
2
May, 2019
2
November, 2020
1
March, 2020
1
March, 2023
1
November, 2018
Available data
383
bigWig
374
bam
238
bed narrowPeak
238
fastq
153
zippedFastqFolder
107
tsv
100
tagAlign
86
bigBed narrowPeak
46
bed broadPeak
46
bigBed broadPeak
32
bed bed3+
8
bed bedMethyl
8
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
747
Homo sapiens
Biosample type
1629
tissue
747
primary cell
480
cell line
226
in vitro differentiated cells
9
stem cell
Organ
282
epithelium
216
pancreas
34
vasculature
29
blood vessel
22
kidney
22
vein
21
brain
16
connective tissue
8
blood
8
bodily fluid
8
liver
5
eye
5
musculature of body
3
heart
1
adipose tissue
1
bone element
1
bone marrow
Project
407
AMP
232
HPAP
107
T1D
1
ITG
Genome assembly (visualization)
394
hg19
310
GRCh38
Lab
374
AMP-T2D consortium
232
Klaus Kaestner, Upenn
140
Kyle Gaulton, UCSD
1
ITG
Audit category:
inconsistent ontology term
31
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
total RNA-seq
audit.ERROR.category!
inconsistent ontology term
audit.NOT_COMPLIANT.category!
missing controlled_by
lab.title!
Stephen Parker, UMich
BIOSAMPLE
ASSAY
747 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
monocyte
85
15
1
1
pancreatic alpha cell
13
35
12
31
1
pancreatic beta cell
13
23
12
16
1
CD8-positive, alpha-beta T cell
33
2
1
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