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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
163
ChIP-seq
24
total RNA-seq
15
ATAC-seq
5
STARR-seq
4
Capture-C
3
DNase-seq
1
Hi-C
1
RRBS
1
whole genome sequencing assay
Assay category
163
DNA binding
24
Transcription
18
DNA accessibility
1
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
95
histone
95
histone modification
49
narrow histone mark
45
broad histone mark
35
transcription factor
33
control
7
RNA binding protein
3
chromatin remodeller
Date released
359
May, 2021
324
November, 2017
170
February, 2021
148
May, 2020
134
May, 2022
127
August, 2017
110
February, 2023
90
August, 2021
73
September, 2018
72
October, 2019
62
November, 2018
59
September, 2020
55
June, 2019
48
July, 2018
46
December, 2017
43
April, 2018
39
February, 2018
31
July, 2019
28
December, 2018
24
March, 2020
23
January, 2019
21
November, 2019
12
November, 2020
8
January, 2021
7
August, 2020
7
December, 2019
6
January, 2018
5
March, 2023
5
May, 2019
5
September, 2017
4
August, 2018
4
October, 2022
3
June, 2018
2
October, 2018
Available data
161
bam
141
bigWig
118
bed narrowPeak
112
fastq
50
tagAlign
24
tsv
20
bigBed narrowPeak
15
bed broadPeak
15
bigBed broadPeak
12
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
vcf
Organism
217
Homo sapiens
Biosample type
tissue
110
in vitro differentiated cells
63
primary cell
44
cell line
Organ
72
connective tissue
43
pancreas
35
epithelium
35
liver
8
embryo
2
kidney
Project
217
AMP
Genome assembly (visualization)
155
hg19
132
GRCh38
Lab
179
AMP-T2D consortium
34
Bing Ren, UCSD
4
Struan F.A. Grant, CHOP
Audit category:
3
inconsistent ontology term
Audit category:
17
missing controlled_by
Audit category:
11
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
biosample_type!
tissue
BIOSAMPLE
ASSAY
217 results
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ChIP-seq
total RNA-seq
ATAC-seq
STARR-seq
Capture-C
DNase-seq
Hi-C
RRBS
whole genome sequencing assay
in vitro differentiated cells
adipocyte
67
1
1
1
neural progenitor cell
21
7
10
osteoblast
1
1
primary cell
skeletal muscle myoblast
15
2
1
pancreatic alpha cell
13
1
pancreatic beta cell
13
1
pancreatic endocrine cell
12
hepatocyte
4
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cell line
HepG2
18
9
2
1
1
H1-hESC
8
EndoC_BH1
2
HEK293T
2
Synthesized DNA
1
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