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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
916
total RNA-seq
731
ChIP-seq
252
ATAC-seq
176
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
12
Hi-C
6
WGBS
4
MeRIP-seq
3
snDrop-seq
1
FAIRE-seq
Assay category
1090
Transcription
731
DNA binding
457
DNA accessibility
12
3D chromatin structure
6
DNA methylation
Target of assay
504
histone
504
histone modification
274
narrow histone mark
230
broad histone mark
158
control
71
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
24
February, 2020
23
October, 2017
19
April, 2020
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
1673
bam
1531
bigWig
939
tsv
911
bed narrowPeak
537
bigBed narrowPeak
202
fastq
187
bed broadPeak
179
bed bed3+
179
tagAlign
176
bigBed broadPeak
157
txt
64
xls
11
hic
10
bedpe bed3+
6
bed bedMethyl
6
bigBed bedMethyl
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2413
Homo sapiens
Biosample type
2415
tissue
998
primary cell
662
cell line
326
in vitro differentiated cells
10
stem cell
Organ
480
connective tissue
421
adipose tissue
352
pancreas
299
liver
295
kidney
293
heart
254
brain
158
bone element
126
blood vessel
126
vasculature
117
limb
72
artery
56
eye
49
musculature of body
43
nerve
25
spleen
20
lung
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
spinal cord
1
stomach
1
urinary bladder
Project
2318
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1640
GRCh38
1515
hg19
Lab
2063
AMP-T2D consortium
142
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:
4
missing controlled_by
Audit category:
1
inconsistent control read length
organ_slims!
spinal cord
month_released!
July, 2019
August, 2017
BIOSAMPLE
ASSAY
2415 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
WGBS
MeRIP-seq
snDrop-seq
FAIRE-seq
tissue
adipose tissue
382
3
1
islet of Langerhans
209
29
68
7
4
3
4
liver
165
97
20
2
1
1
1
kidney
49
27
75
13
64
6
1
bone element
84
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