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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
969
total RNA-seq
907
ChIP-seq
178
DNase-seq
167
ATAC-seq
86
RNA microarray
74
single cell RNA-seq
27
WGBS
24
pCHi-C
16
small RNA-seq
14
Hi-C
snATAC-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1059
Transcription
907
DNA binding
349
DNA accessibility
38
DNA methylation
14
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
242
October, 2019
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
77
July, 2019
74
October, 2018
48
December, 2017
47
September, 2023
41
May, 2022
40
March, 2020
40
May, 2024
40
November, 2019
38
May, 2021
26
November, 2018
25
February, 2020
23
October, 2017
15
May, 2023
9
April, 2020
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
Available data
1883
bam
1772
bigWig
977
tsv
902
bed narrowPeak
561
bigBed narrowPeak
353
fastq
238
tagAlign
213
bed broadPeak
204
bed bed3+
176
bigBed broadPeak
93
txt
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2477
Homo sapiens
Biosample type
2484
tissue
796
primary cell
610
cell line
305
in vitro differentiated cells
10
stem cell
Organ
546
connective tissue
487
adipose tissue
451
pancreas
361
liver
265
brain
221
heart
171
kidney
158
bone element
127
blood vessel
127
vasculature
122
limb
81
musculature of body
71
artery
56
eye
43
nerve
25
spleen
18
ureter
16
skeleton
15
epithelium
10
lung
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2424
AMP
47
KPMP
9
LungMap
4
T1D
Genome assembly (visualization)
1795
GRCh38
1735
hg19
Lab
2324
AMP-T2D consortium
47
KPMP
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
14
Katalin Susztak, Upenn
9
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
7
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
snATAC-seq
files.file_type!
tar
lab.title!
Kyle Gaulton, UCSD
month_released!
August, 2021
BIOSAMPLE
ASSAY
2484 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
RNA microarray
single cell RNA-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
280
71
1
39
6
4
2
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
2
20
1
3
1
1
1
1
kidney
27
13
11
56
1
1
bone element
84
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