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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
360
total RNA-seq
187
single cell RNA-seq
179
ATAC-seq
143
ChIP-seq
56
snATAC-seq
48
WGBS
23
pCHi-C
14
Hi-C
10
RRBS
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
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
551
Transcription
237
DNA accessibility
143
DNA binding
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
118
control
24
histone
24
histone modification
12
broad histone mark
12
narrow histone mark
9
transcription factor
3
nucleotide modification
RNA binding protein
1
recombinant protein
Date released
148
May, 2020
134
May, 2022
129
February, 2021
99
May, 2021
94
February, 2023
67
November, 2017
59
September, 2020
48
July, 2018
43
April, 2018
31
August, 2021
31
July, 2019
28
October, 2019
27
September, 2018
26
August, 2017
11
March, 2020
10
November, 2020
8
January, 2019
8
January, 2021
8
June, 2019
7
August, 2020
6
November, 2018
5
December, 2019
4
November, 2019
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
December, 2018
January, 2018
1
May, 2019
Available data
1117
bam
1061
bigWig
768
fastq
bed narrowPeak
393
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
99
bed broadPeak
99
bigBed broadPeak
40
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
3
cool
3
tar
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1044
Homo sapiens
Biosample type
1789
tissue
793
primary cell
255
cell line
253
in vitro differentiated cells
7
stem cell
Organ
364
epithelium
349
pancreas
99
liver
70
vasculature
68
blood vessel
61
heart
56
artery
25
kidney
22
connective tissue
14
blood
14
bodily fluid
10
brain
9
vein
8
embryo
5
musculature of body
2
adipose tissue
2
eye
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
594
AMP
324
HPAP
127
T1D
2
community
1
ITG
Genome assembly (visualization)
469
hg19
381
GRCh38
Lab
565
AMP-T2D consortium
324
Klaus Kaestner, Upenn
130
Kyle Gaulton, UCSD
20
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
100
inconsistent ontology term
31
audit script error
Audit category:
13
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed narrowPeak
month_released!
January, 2018
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
1048 results
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Clear Filters
total RNA-seq
single cell RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
MPRA
shRNA RNA-seq
...and 2 more
primary cell
Langerhans cell
85
48
pancreatic alpha cell
52
12
29
6
31
1
pancreatic beta cell
21
12
16
6
16
1
monocyte
54
2
1
1
1
exocrine cell
39
+ See 87 more…
cell line
HepG2
14
69
1
2
2
2
EndoC_BH1
33
18
2
1
6
3
2
2
1
smooth muscle cell of the coronary artery
52
2
H1-hESC
8
Panc1
7
1
+ See 14 more…
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