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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
713
ChIP-seq
320
total RNA-seq
198
ATAC-seq
178
single cell RNA-seq
56
snATAC-seq
48
WGBS
30
DNase-seq
20
pCHi-C
13
Hi-C
8
RRBS
4
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
FAIRE-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
713
DNA binding
502
Transcription
285
DNA accessibility
57
DNA methylation
13
3D chromatin structure
1
DNA sequencing
Target of assay
360
transcription factor
246
histone
246
histone modification
127
broad histone mark
119
narrow histone mark
105
control
82
recombinant protein
71
RNA binding protein
31
chromatin remodeller
2
other context
2
other post-translational modification
Date released
324
November, 2017
205
May, 2021
140
May, 2020
134
May, 2022
118
February, 2021
88
February, 2023
73
September, 2018
62
November, 2018
59
August, 2017
59
September, 2020
49
October, 2019
45
August, 2021
43
April, 2018
42
July, 2018
30
June, 2019
29
July, 2019
28
December, 2018
23
January, 2019
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
March, 2020
5
September, 2017
4
October, 2022
3
August, 2018
3
March, 2023
June, 2018
2
May, 2019
2
October, 2018
1
January, 2018
Available data
1082
bam
1037
bigWig
827
fastq
653
bed narrowPeak
441
bigBed narrowPeak
331
tsv
153
zippedFastqFolder
120
tagAlign
105
bed broadPeak
105
bigBed broadPeak
37
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
7
hic
5
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1598
Homo sapiens
Biosample type
2686
tissue
1032
primary cell
570
cell line
279
in vitro differentiated cells
9
stem cell
Organ
414
liver
398
epithelium
356
pancreas
102
vasculature
97
blood vessel
73
heart
69
blood
69
bodily fluid
68
artery
32
kidney
26
connective tissue
22
vein
21
brain
8
embryo
6
musculature of body
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1071
AMP
324
HPAP
204
T1D
2
community
1
ITG
Genome assembly (visualization)
1054
hg19
905
GRCh38
Lab
1003
AMP-T2D consortium
324
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
2
Anna Gloyn, Oxford
1
ITG
Audit category:
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
month_released!
June, 2018
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
1602 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
shRNA RNA-seq
siRNA RNA-seq
...and 1 more
primary cell
monocyte
85
54
15
1
1
pancreatic alpha cell
13
52
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
13
21
23
12
16
1
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 83 more…
cell line
HepG2
378
14
1
1
2
2
2
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
+ See 9 more…
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