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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
980
total RNA-seq
641
ChIP-seq
174
DNase-seq
167
single cell RNA-seq
148
ATAC-seq
87
RNA microarray
27
WGBS
25
pCHi-C
22
snATAC-seq
16
small RNA-seq
15
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1163
Transcription
641
DNA binding
348
DNA accessibility
38
DNA methylation
15
3D chromatin structure
Target of assay
422
histone modification
421
histone
213
broad histone mark
208
narrow histone mark
128
control
93
transcription factor
27
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
225
August, 2017
167
October, 2019
161
June, 2019
143
May, 2020
120
July, 2018
110
May, 2019
99
August, 2021
80
April, 2019
76
July, 2019
74
October, 2018
66
May, 2022
60
February, 2023
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
23
February, 2020
19
April, 2020
16
November, 2017
9
October, 2017
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1873
bam
1745
bigWig
1072
tsv
858
bed narrowPeak
536
bigBed narrowPeak
377
fastq
tagAlign
209
bed broadPeak
201
bed bed3+
172
bigBed broadPeak
100
txt
25
bed bedMethyl
25
bigBed bedMethyl
10
bedpe bed3+
10
hic
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2322
Homo sapiens
Biosample type
2324
tissue
979
primary cell
582
cell line
354
in vitro differentiated cells
10
stem cell
Organ
539
connective tissue
489
pancreas
480
adipose tissue
313
heart
291
liver
158
bone element
157
kidney
147
brain
133
blood vessel
133
vasculature
122
limb
artery
67
musculature of body
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2227
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1622
hg19
1606
GRCh38
Lab
2114
AMP-T2D consortium
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
files.file_type!
tagAlign
lab.title!
Katalin Susztak, Upenn
month_released!
August, 2020
organ_slims!
artery
BIOSAMPLE
ASSAY
2324 results
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Clear Filters
total RNA-seq
ChIP-seq
DNase-seq
single cell RNA-seq
ATAC-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
62
1
6
68
4
7
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
75
2
1
20
3
1
1
1
1
kidney
27
13
53
1
1
bone element
84
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