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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1016
total RNA-seq
899
ChIP-seq
181
ATAC-seq
179
single cell RNA-seq
178
DNase-seq
87
RNA microarray
27
WGBS
24
pCHi-C
18
snATAC-seq
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1211
Transcription
899
DNA binding
381
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
620
histone modification
619
histone
319
narrow histone mark
300
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
279
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
February, 2023
77
July, 2019
73
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2024
40
November, 2019
39
May, 2021
36
March, 2020
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
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
1899
bam
1764
bigWig
1072
tsv
913
bed narrowPeak
555
bigBed narrowPeak
371
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
153
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
1
bedpe
1
tagAlign bed3+
Organism
2654
Homo sapiens
Biosample type
2663
tissue
791
primary cell
626
cell line
361
in vitro differentiated cells
8
stem cell
Organ
546
connective tissue
487
adipose tissue
470
pancreas
360
liver
299
kidney
277
heart
264
brain
150
bone element
122
limb
98
blood vessel
98
vasculature
82
musculature of body
43
nerve
38
artery
25
eye
25
spleen
20
lung
18
ureter
8
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
epithelium
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
2597
AMP
47
KPMP
19
LungMap
T1D
Genome assembly (visualization)
1816
GRCh38
1714
hg19
Lab
2338
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
25
Kyle Gaulton, UCSD
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:
26
missing controlled_by
Audit category:
inconsistent control read length
1
inconsistent assembly
assay_title!
CRISPR genome editing followed by sgRNA sequencing
audit.WARNING.category!
inconsistent control read length
award.project!
T1D
month_released!
February, 2023
BIOSAMPLE
ASSAY
2663 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
285
69
57
6
1
4
1
3
1
1
4
adipose tissue
382
2
2
3
1
liver
167
144
20
1
2
3
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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