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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
590
ChIP-seq
59
single cell RNA-seq
44
total RNA-seq
27
snATAC-seq
8
DNase-seq
7
WGBS
5
ATAC-seq
4
RRBS
1
GRO-seq
1
Hi-C
Assay category
590
DNA binding
103
Transcription
40
DNA accessibility
11
DNA methylation
1
3D chromatin structure
Target of assay
404
transcription factor
116
control
82
recombinant protein
75
RNA binding protein
65
histone modification
64
histone
35
broad histone mark
33
chromatin remodeller
29
narrow histone mark
5
other context
5
other post-translational modification
Date released
324
November, 2017
81
November, 2018
65
August, 2017
51
December, 2017
39
February, 2021
39
February, 2023
35
December, 2018
30
January, 2019
23
October, 2018
22
September, 2020
12
October, 2017
11
July, 2018
10
April, 2018
2
June, 2018
1
January, 2018
1
September, 2018
Available data
2415
bam
2249
bigWig
1433
bed narrowPeak
1052
tsv
934
bigBed narrowPeak
746
fastq
342
tagAlign
300
bed broadPeak
277
bigBed broadPeak
219
bed bed3+
152
txt
73
zippedFastqFolder
64
xls
30
bed bedMethyl
30
bigBed bedMethyl
12
hic
9
bedpe bed3+
8
csv
7
bed bed3
4
hdf5
4
tar
1
tagAlign bed3+
1
vcf
Organism
746
Homo sapiens
Biosample type
427
cell line
164
tissue
151
primary cell
in vitro differentiated cells
4
stem cell
Organ
pancreas
450
liver
238
epithelium
60
blood
60
bodily fluid
46
connective tissue
43
adipose tissue
24
spleen
21
brain
6
vasculature
3
blood vessel
2
musculature of body
Project
646
AMP
100
HPAP
Genome assembly (visualization)
527
hg19
476
GRCh38
1
hg18
Lab
646
AMP-T2D consortium
100
Klaus Kaestner, Upenn
Audit category:
28
inconsistent control
27
audit script error
2
inconsistent ontology term
Audit category:
29
missing controlled_by
Audit category:
30
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
organ_slims!
pancreas
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
746 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
snATAC-seq
DNase-seq
WGBS
ATAC-seq
RRBS
GRO-seq
Hi-C
cell line
HepG2
360
5
1
1
GM12878
60
tissue
liver
67
2
1
1
spleen
20
1
2
1
omental fat pad
11
1
1
subcutaneous adipose tissue
12
1
right lobe of liver
10
1
1
+ See 5 more…
primary cell
Langerhans cell
34
27
exocrine cell
39
skeletal muscle myoblast
15
1
1
pancreatic cell
9
mesenchymal cell
6
+ See 8 more…
stem cell
hESC
3
1
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