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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
563
ChIP-seq
186
total RNA-seq
117
single cell RNA-seq
56
snATAC-seq
38
ATAC-seq
22
pCHi-C
14
DNase-seq
6
Hi-C
5
STARR-seq
4
RRBS
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
2
small RNA-seq
1
DNAme array
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
563
DNA binding
307
Transcription
108
DNA accessibility
6
3D chromatin structure
6
DNA methylation
1
DNA sequencing
Target of assay
365
transcription factor
197
histone
197
histone modification
104
broad histone mark
narrow histone mark
92
control
89
recombinant protein
69
RNA binding protein
31
chromatin remodeller
2
other context
2
other post-translational modification
Date released
310
November, 2017
154
May, 2021
May, 2020
112
February, 2021
62
November, 2018
56
February, 2023
54
May, 2022
40
August, 2021
40
September, 2020
28
December, 2018
26
June, 2019
26
October, 2019
22
January, 2019
18
July, 2019
16
August, 2017
15
July, 2018
10
April, 2018
8
January, 2021
8
September, 2018
6
March, 2020
6
November, 2020
3
March, 2023
2
June, 2018
1
January, 2018
1
October, 2022
Available data
729
bam
673
bigWig
571
fastq
496
bed narrowPeak
376
bigBed narrowPeak
192
tsv
74
bed broadPeak
74
bigBed broadPeak
73
zippedFastqFolder
66
tagAlign
19
bed bed3+
5
bed bedMethyl
5
bigBed bedMethyl
3
hdf5
3
tar
2
bed bed3
2
csv
2
hic
1
bedpe bed3+
1
txt
1
vcf
Organism
1021
Homo sapiens
Biosample type
2272
tissue
569
cell line
455
primary cell
323
in vitro differentiated cells
9
stem cell
Organ
epithelium
403
liver
398
pancreas
95
vasculature
90
blood vessel
77
heart
68
artery
68
blood
68
bodily fluid
50
kidney
35
connective tissue
18
brain
16
vein
10
musculature of body
8
embryo
4
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
725
AMP
172
HPAP
124
T1D
2
community
1
ITG
Genome assembly (visualization)
698
hg19
603
GRCh38
Lab
668
AMP-T2D consortium
172
Klaus Kaestner, Upenn
149
Kyle Gaulton, UCSD
32
Bing Ren, UCSD
2
Anna Gloyn, Oxford
1
ITG
Audit category:
45
inconsistent ontology term
27
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
23
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
month_released!
May, 2020
organ_slims!
epithelium
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
1024 results
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Clear Filters
ChIP-seq
total RNA-seq
single cell RNA-seq
snATAC-seq
ATAC-seq
pCHi-C
DNase-seq
Hi-C
STARR-seq
RRBS
CRISPR genome editing followed by DNA sequencing
HiChIP
small RNA-seq
DNAme array
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
1
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
Panc1
10
1
1
H1-hESC
8
+ See 13 more…
primary cell
Langerhans cell
85
48
monocyte
44
52
13
1
1
exocrine cell
39
CD8-positive, alpha-beta T cell
23
2
1
skeletal muscle myoblast
9
1
2
1
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