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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
101
ATAC-seq
83
ChIP-seq
53
total RNA-seq
41
WGBS
14
DNase-seq
7
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
115
DNA accessibility
83
DNA binding
53
Transcription
47
DNA methylation
7
3D chromatin structure
Target of assay
57
histone
57
histone modification
32
narrow histone mark
25
broad histone mark
23
control
6
RNA binding protein
6
transcription factor
3
nucleotide modification
Date released
80
May, 2022
50
February, 2023
35
September, 2018
October, 2019
29
August, 2017
20
June, 2019
19
September, 2020
17
May, 2021
15
November, 2019
8
July, 2019
7
August, 2020
6
August, 2021
6
November, 2017
6
November, 2020
5
May, 2019
5
September, 2017
3
March, 2020
3
October, 2022
Available data
261
bam
256
bigWig
238
fastq
tsv
112
bed narrowPeak
80
zippedFastqFolder
48
bigBed narrowPeak
19
bed bed3+
18
bed broadPeak
18
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
5
bedpe bed3+
5
hic
4
tagAlign
3
cool
2
hdf5
Organism
313
Homo sapiens
Biosample type
259
primary cell
43
cell line
in vitro differentiated cells
12
tissue
Organ
596
liver
508
pancreas
314
epithelium
306
kidney
219
heart
175
brain
121
vasculature
115
blood vessel
112
connective tissue
101
bone element
88
adipose tissue
87
musculature of body
69
blood
69
bodily fluid
57
artery
50
limb
35
eye
24
spleen
19
lung
18
ureter
16
skeleton
1
bone marrow
1
pericardium
1
thymus
1
vein
Project
166
AMP
146
HPAP
2
T1D
Genome assembly (visualization)
122
hg19
110
GRCh38
Lab
162
AMP-T2D consortium
146
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
50
inconsistent ontology term
3
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
files.file_type!
tsv
biosample_type!
in vitro differentiated cells
month_released!
October, 2019
BIOSAMPLE
ASSAY
314 results
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ATAC-seq
ChIP-seq
total RNA-seq
WGBS
DNase-seq
Hi-C
MeRIP-seq
RRBS
Capture-C
CRISPR genome editing followed by sgRNA sequencing
primary cell
pancreatic alpha cell
35
13
42
25
1
pancreatic beta cell
23
13
11
16
1
pancreatic acinar cell
9
8
1
pancreatic ductal cell
4
13
kidney epithelial cell
5
1
1
+ See 13 more…
cell line
EndoC_BH1
18
15
1
6
2
1
tissue
pigmented layer of retina
12
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