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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
716
ChIP-seq
307
total RNA-seq
187
single cell RNA-seq
127
ATAC-seq
56
snATAC-seq
48
WGBS
27
DNase-seq
22
pCHi-C
12
Hi-C
10
RRBS
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
716
DNA binding
498
Transcription
210
DNA accessibility
59
DNA methylation
12
3D chromatin structure
1
DNA sequencing
Target of assay
364
transcription factor
247
histone
247
histone modification
125
broad histone mark
122
narrow histone mark
106
control
82
recombinant protein
75
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
324
November, 2017
227
May, 2021
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
October, 2019
62
November, 2018
59
August, 2017
59
September, 2020
55
June, 2019
48
August, 2021
48
July, 2018
43
April, 2018
31
July, 2019
28
December, 2018
23
January, 2019
16
November, 2019
12
March, 2020
12
November, 2020
8
January, 2021
7
August, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
Available data
1041
bam
1002
bigWig
836
fastq
663
bed narrowPeak
443
bigBed narrowPeak
337
tsv
153
zippedFastqFolder
120
tagAlign
103
bed broadPeak
103
bigBed broadPeak
36
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
7
hic
6
bedpe bed3+
4
hdf5
3
cool
3
tar
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1534
Homo sapiens
Biosample type
2342
tissue
907
primary cell
631
cell line
386
in vitro differentiated cells
10
stem cell
Organ
450
epithelium
423
pancreas
413
liver
82
vasculature
79
heart
76
blood vessel
69
blood
69
bodily fluid
68
artery
39
connective tissue
29
kidney
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
1
vein
Project
1043
AMP
324
HPAP
168
T1D
2
community
1
ITG
Genome assembly (visualization)
1022
hg19
913
GRCh38
Lab
972
AMP-T2D consortium
324
Klaus Kaestner, Upenn
199
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
123
inconsistent ontology term
30
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
2
inconsistent assembly
month_released!
May, 2020
October, 2019
BIOSAMPLE
ASSAY
1538 results
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table-tab-icon
Clear Filters
ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
MPRA
shRNA RNA-seq
...and 2 more
primary cell
monocyte
85
52
13
1
1
pancreatic alpha cell
13
52
12
35
31
1
Langerhans cell
85
48
pancreatic beta cell
13
21
12
23
16
1
exocrine cell
39
+ See 71 more…
cell line
HepG2
378
14
1
1
1
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
+ See 10 more…
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