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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
867
ChIP-seq
260
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
15
DNase-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
867
DNA binding
279
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
187
control
89
transcription factor
23
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
223
August, 2021
193
May, 2020
June, 2019
120
July, 2018
115
May, 2019
93
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
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
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
Available data
1744
bam
1569
bigWig
1076
tsv
781
bed narrowPeak
398
bigBed narrowPeak
377
fastq
238
tagAlign
156
txt
64
xls
50
bed broadPeak
41
bed bed3+
25
bed bedMethyl
25
bigBed bedMethyl
13
bigBed broadPeak
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2538
Homo sapiens
Biosample type
2546
tissue
977
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
546
connective tissue
490
pancreas
487
adipose tissue
361
liver
246
heart
240
brain
225
kidney
158
bone element
130
blood vessel
130
vasculature
90
limb
71
artery
53
eye
49
musculature of body
43
nerve
25
spleen
16
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
2469
AMP
47
KPMP
21
T1D
9
LungMap
Genome assembly (visualization)
1656
GRCh38
1607
hg19
Lab
2260
AMP-T2D consortium
136
Katalin Susztak, Upenn
47
KPMP
42
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
9
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
7
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
June, 2019
assay_title!
snATAC-seq
BIOSAMPLE
ASSAY
2546 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
DNase-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
71
68
4
3
1
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
1
3
1
1
1
2
1
kidney
49
27
75
64
1
1
1
bone element
84
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