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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
514
ChIP-seq
128
single cell RNA-seq
125
total RNA-seq
32
ATAC-seq
27
snATAC-seq
7
WGBS
1
DNase-seq
1
Hi-C
1
RRBS
Assay category
514
DNA binding
253
Transcription
60
DNA accessibility
8
DNA methylation
1
3D chromatin structure
Target of assay
342
transcription factor
89
histone
89
histone modification
82
recombinant protein
78
control
68
RNA binding protein
48
narrow histone mark
41
broad histone mark
31
chromatin remodeller
2
other context
2
other post-translational modification
Date released
324
November, 2017
76
February, 2023
73
September, 2018
62
November, 2018
58
August, 2017
48
July, 2018
45
February, 2021
41
September, 2020
38
April, 2018
28
December, 2018
23
January, 2019
7
August, 2020
5
September, 2017
3
August, 2018
3
June, 2018
2
October, 2018
Available data
1191
bam
1135
bigWig
836
fastq
699
bed narrowPeak
464
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
40
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
836
Homo sapiens
Biosample type
427
cell line
409
primary cell
377
tissue
141
in vitro differentiated cells
4
stem cell
Organ
367
liver
258
pancreas
238
epithelium
60
blood
60
bodily fluid
9
brain
6
vasculature
3
blood vessel
3
connective tissue
Project
667
AMP
169
HPAP
Genome assembly (visualization)
593
hg19
550
GRCh38
Lab
667
AMP-T2D consortium
169
Klaus Kaestner, Upenn
Audit category:
27
audit script error
7
inconsistent ontology term
1
inconsistent control
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
BIOSAMPLE
ASSAY
836 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
Hi-C
RRBS
cell line
HepG2
360
5
1
1
GM12878
60
primary cell
pancreatic alpha cell
13
12
52
13
6
Langerhans cell
34
27
pancreatic beta cell
13
12
21
10
exocrine cell
39
pancreatic ductal cell
13
9
4
4
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