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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1033
total RNA-seq
907
ChIP-seq
247
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1223
Transcription
907
DNA binding
429
DNA accessibility
38
DNA methylation
16
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
537
February, 2021
284
August, 2017
242
October, 2019
223
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
85
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
65
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
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
4
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
Available data
1899
bam
1772
bigWig
1076
tsv
976
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
204
bed bed3+
176
bigBed broadPeak
152
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
1
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2724
Homo sapiens
Biosample type
2732
tissue
1032
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
493
pancreas
488
adipose tissue
361
liver
313
heart
293
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
81
musculature of body
73
artery
56
eye
43
nerve
25
spleen
18
ureter
skeleton
15
epithelium
10
lung
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
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
urinary bladder
Project
2655
AMP
47
KPMP
21
T1D
9
LungMap
Genome assembly (visualization)
1851
GRCh38
1742
hg19
Lab
2407
AMP-T2D consortium
136
Katalin Susztak, Upenn
47
KPMP
42
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
9
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
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
lab.title!
Maike Sander, UCSD
assay_title!
snATAC-seq
organ_slims!
skeleton
BIOSAMPLE
ASSAY
2732 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
71
67
1
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
2
1
3
1
1
1
1
kidney
49
27
75
13
64
1
1
1
bone element
84
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