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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
247
ChIP-seq
152
total RNA-seq
single cell RNA-seq
84
ATAC-seq
22
DNase-seq
10
RRBS
9
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
247
DNA binding
154
Transcription
107
DNA accessibility
10
DNA methylation
9
3D chromatin structure
Target of assay
230
histone
230
histone modification
118
broad histone mark
112
narrow histone mark
10
RNA binding protein
10
transcription factor
7
control
1
chromatin remodeller
Date released
184
May, 2021
90
May, 2020
72
September, 2018
47
August, 2017
40
June, 2019
28
July, 2019
26
October, 2019
9
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2021
3
February, 2021
3
October, 2022
2
October, 2018
1
March, 2020
Available data
496
bigWig
474
bam
288
bed narrowPeak
152
tsv
134
fastq
102
bigBed narrowPeak
99
tagAlign
42
bed broadPeak
42
bigBed broadPeak
30
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
5
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
tar
Organism
528
Homo sapiens
Biosample type
1755
tissue
530
cell line
528
primary cell
297
in vitro differentiated cells
3
stem cell
Organ
157
epithelium
111
pancreas
31
vasculature
30
connective tissue
25
blood vessel
25
kidney
18
brain
17
vein
13
liver
12
musculature of body
10
heart
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
345
AMP
180
T1D
3
HPAP
Genome assembly (visualization)
528
hg19
436
GRCh38
Lab
310
AMP-T2D consortium
215
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
35
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
assay_title!
single cell RNA-seq
BIOSAMPLE
ASSAY
528 results
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ChIP-seq
total 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
7
1
pancreatic alpha cell
7
10
6
1
pancreatic endocrine cell
23
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