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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1031
total RNA-seq
833
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1227
Transcription
833
DNA binding
294
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
623
histone modification
622
histone
322
narrow histone mark
300
broad histone mark
175
control
63
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
545
February, 2021
282
August, 2017
238
October, 2019
229
August, 2021
193
May, 2020
120
July, 2018
111
May, 2019
95
February, 2023
82
November, 2017
76
April, 2019
76
July, 2019
66
May, 2022
63
October, 2018
47
September, 2023
December, 2017
40
March, 2020
40
May, 2021
40
November, 2019
35
May, 2024
25
February, 2020
23
October, 2017
19
April, 2020
17
November, 2018
15
May, 2023
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
Available data
1838
bam
1711
bigWig
1076
tsv
924
bed narrowPeak
507
bigBed narrowPeak
316
fastq
238
tagAlign
213
bed broadPeak
203
bed bed3+
bigBed broadPeak
157
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2517
Homo sapiens
Biosample type
2526
tissue
1033
primary cell
542
cell line
341
in vitro differentiated cells
7
stem cell
Organ
540
connective tissue
491
pancreas
481
adipose tissue
310
liver
276
heart
238
brain
230
kidney
158
bone element
125
blood vessel
125
vasculature
86
limb
68
artery
53
eye
50
musculature of body
41
nerve
24
spleen
20
lung
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2429
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1622
GRCh38
1538
hg19
Lab
2179
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
35
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:
90
inconsistent ontology term
9
audit script error
Audit category:
25
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bigBed broadPeak
month_released!
December, 2017
organ_slims!
pericardium
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
2526 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
292
69
68
6
7
4
3
1
1
4
1
adipose tissue
382
2
3
3
1
liver
167
107
20
1
3
1
1
1
1
kidney
49
26
75
64
6
1
1
1
bone element
84
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