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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1026
total RNA-seq
875
ChIP-seq
259
ATAC-seq
179
single cell RNA-seq
146
DNase-seq
87
RNA microarray
24
pCHi-C
19
snATAC-seq
15
small RNA-seq
11
WGBS
10
Hi-C
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1220
Transcription
875
DNA binding
428
DNA accessibility
11
DNA methylation
10
3D chromatin structure
Target of assay
603
histone modification
602
histone
315
narrow histone mark
287
broad histone mark
183
control
94
transcription factor
28
RNA binding protein
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
255
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
131
June, 2019
120
July, 2018
108
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
64
May, 2022
57
July, 2019
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
35
March, 2020
23
February, 2020
23
October, 2017
19
April, 2020
17
November, 2018
15
May, 2023
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
1
August, 2022
1
January, 2018
Available data
1860
bam
1712
bigWig
1069
tsv
930
bed narrowPeak
520
bigBed narrowPeak
372
fastq
223
tagAlign
172
bed bed3+
168
bed broadPeak
156
txt
144
bigBed broadPeak
64
xls
bed bedMethyl
22
bigBed bedMethyl
9
hic
8
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2653
Homo sapiens
Biosample type
2662
tissue
1057
primary cell
659
cell line
394
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
491
pancreas
486
adipose tissue
360
liver
306
heart
298
kidney
264
brain
158
bone element
132
blood vessel
132
vasculature
121
limb
musculature of body
73
artery
56
eye
43
nerve
20
lung
20
spleen
18
ureter
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
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2573
AMP
47
KPMP
23
T1D
19
LungMap
Genome assembly (visualization)
1799
GRCh38
1684
hg19
Lab
2318
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
44
Kyle Gaulton, UCSD
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:
90
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bedMethyl
month_released!
January, 2021
organ_slims!
musculature of body
target.investigated_as!
other context
BIOSAMPLE
ASSAY
2662 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
snATAC-seq
small RNA-seq
WGBS
Hi-C
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
71
68
6
1
4
3
3
1
4
adipose tissue
382
2
3
1
1
liver
167
145
20
1
2
1
1
3
1
kidney
49
27
75
64
13
6
1
1
bone element
84
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