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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
764
ChIP-seq
260
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
27
WGBS
27
snATAC-seq
25
pCHi-C
16
Hi-C
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1211
Transcription
764
DNA binding
293
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
527
histone modification
526
histone
285
narrow histone mark
241
broad histone mark
162
control
77
transcription factor
22
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
258
August, 2017
238
October, 2019
229
August, 2021
193
May, 2020
120
July, 2018
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
65
May, 2022
61
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
23
October, 2017
19
April, 2020
17
November, 2018
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
5
March, 2019
4
November, 2020
4
September, 2017
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1776
bam
1663
bigWig
1060
tsv
891
bed narrowPeak
468
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2432
Homo sapiens
Biosample type
2441
tissue
1044
primary cell
659
cell line
369
in vitro differentiated cells
7
stem cell
Organ
539
connective tissue
480
adipose tissue
474
pancreas
352
liver
264
heart
230
kidney
206
brain
158
bone element
79
limb
78
blood vessel
78
vasculature
64
artery
53
eye
41
musculature of body
41
nerve
24
spleen
20
lung
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
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2344
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1547
GRCh38
1457
hg19
Lab
2089
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:
90
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
12
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
small RNA-seq
month_released!
May, 2019
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
2441 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
298
50
68
7
4
3
1
1
4
1
adipose tissue
382
2
3
3
1
liver
167
142
20
1
3
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
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