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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
255
total RNA-seq
142
ChIP-seq
80
single cell RNA-seq
68
ATAC-seq
6
Hi-C
5
DNase-seq
2
FAIRE-seq
2
RRBS
2
small RNA-seq
Assay category
337
Transcription
142
DNA binding
75
DNA accessibility
6
3D chromatin structure
2
DNA methylation
Target of assay
123
histone
123
histone modification
64
broad histone mark
59
narrow histone mark
17
transcription factor
8
RNA binding protein
2
control
Date released
159
August, 2017
153
July, 2018
72
September, 2018
42
October, 2018
39
April, 2018
39
November, 2019
May, 2021
18
May, 2022
7
September, 2017
6
July, 2019
6
March, 2020
5
October, 2017
3
August, 2018
3
March, 2019
3
November, 2018
3
October, 2022
2
June, 2019
1
June, 2018
1
May, 2019
Available data
543
bam
513
bigWig
363
fastq
338
tsv
189
bed narrowPeak
82
bigBed narrowPeak
25
bed bed3+
17
bed broadPeak
12
tagAlign
6
hic
5
bedpe bed3+
4
bigBed broadPeak
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
1
bedpe
Organism
556
Homo sapiens
Biosample type
377
tissue
185
primary cell
cell line
Organ
588
connective tissue
562
pancreas
426
adipose tissue
295
liver
255
epithelium
164
brain
121
heart
117
kidney
101
vasculature
96
limb
95
blood vessel
73
musculature of body
70
bone element
34
eye
31
nerve
29
artery
19
embryo
18
ureter
17
vein
14
spleen
12
skeleton
2
pericardium
1
pituitary gland
Project
557
AMP
3
HPAP
2
T1D
Genome assembly (visualization)
562
hg19
542
GRCh38
Lab
537
AMP-T2D consortium
18
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
2
Bing Ren, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
5
inconsistent ontology term
3
audit script error
Audit category:
54
missing controlled_by
Audit category:
9
inconsistent control read length
1
inconsistent assembly
biosample_type!
cell line
month_released!
May, 2021
BIOSAMPLE
ASSAY
562 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
ATAC-seq
Hi-C
DNase-seq
FAIRE-seq
RRBS
small RNA-seq
tissue
islet of Langerhans
224
31
6
42
2
1
1
1
body of pancreas
2
26
4
2
2
pancreas
1
13
1
2
1
1
endocrine pancreas
14
primary cell
pancreatic beta cell
10
7
12
7
1
pancreatic alpha cell
10
7
12
6
1
pancreatic ductal cell
4
13
10
4
pancreatic acinar cell
4
8
12
5
1
pancreatic endocrine cell
23
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