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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
238
ChIP-seq
152
total RNA-seq
97
single cell RNA-seq
84
ATAC-seq
17
DNase-seq
9
RRBS
6
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
251
Transcription
238
DNA binding
102
DNA accessibility
9
DNA methylation
6
3D chromatin structure
Target of assay
227
histone
227
histone modification
118
broad histone mark
109
narrow histone mark
7
RNA binding protein
7
transcription factor
4
control
1
chromatin remodeller
Date released
184
May, 2021
90
May, 2020
72
September, 2018
48
July, 2018
47
August, 2017
43
April, 2018
35
June, 2019
26
October, 2019
24
July, 2019
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
August, 2021
3
February, 2021
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
Available data
576
bigWig
557
bam
277
bed narrowPeak
249
tsv
217
fastq
99
tagAlign
91
bigBed narrowPeak
31
bed broadPeak
31
bigBed broadPeak
22
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
5
hic
4
bedpe bed3+
3
cool
1
bed bed3
1
hdf5
1
tar
Organism
607
Homo sapiens
Biosample type
1612
tissue
607
primary cell
530
cell line
297
in vitro differentiated cells
3
stem cell
Organ
227
epithelium
185
pancreas
34
connective tissue
31
vasculature
25
blood vessel
25
kidney
brain
17
vein
13
liver
12
musculature of body
10
heart
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
424
AMP
180
T1D
3
HPAP
Genome assembly (visualization)
607
hg19
522
GRCh38
Lab
389
AMP-T2D consortium
215
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
42
inconsistent ontology term
4
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
organ_slims!
brain
BIOSAMPLE
ASSAY
607 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
monocyte
84
53
15
CD8-positive, alpha-beta T cell
33
4
2
pancreatic beta cell
7
10
12
7
1
pancreatic alpha cell
7
10
12
6
1
pancreatic ductal cell
13
4
10
4
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