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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
244
ChIP-seq
147
total RNA-seq
100
single cell RNA-seq
83
ATAC-seq
20
DNase-seq
9
RRBS
8
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
249
Transcription
244
DNA binding
104
DNA accessibility
9
DNA methylation
8
3D chromatin structure
Target of assay
227
histone
227
histone modification
117
broad histone mark
110
narrow histone mark
10
RNA binding protein
10
control
10
transcription factor
1
chromatin remodeller
Date released
184
May, 2021
90
May, 2020
72
September, 2018
48
July, 2018
47
August, 2017
43
April, 2018
38
June, 2019
29
July, 2019
25
October, 2019
9
November, 2017
6
November, 2020
5
September, 2017
4
May, 2019
3
August, 2018
3
February, 2021
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
Available data
585
bigWig
563
bam
282
bed narrowPeak
247
tsv
226
fastq
100
bigBed narrowPeak
96
tagAlign
40
bed broadPeak
40
bigBed broadPeak
24
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
5
hic
4
bedpe bed3+
3
cool
3
hdf5
1
bed bed3
1
tar
Organism
615
Homo sapiens
Biosample type
1487
tissue
615
primary cell
283
in vitro differentiated cells
200
cell line
3
stem cell
Organ
227
epithelium
185
pancreas
34
connective tissue
31
vasculature
25
blood vessel
25
kidney
21
brain
17
vein
liver
12
musculature of body
10
heart
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
432
AMP
180
T1D
3
HPAP
Genome assembly (visualization)
615
hg19
525
GRCh38
Lab
397
AMP-T2D consortium
215
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
41
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!
liver
BIOSAMPLE
ASSAY
615 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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