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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1035
total RNA-seq
859
ChIP-seq
248
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
86
RNA microarray
28
snATAC-seq
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1225
Transcription
859
DNA binding
458
DNA accessibility
16
3D chromatin structure
11
DNA methylation
Target of assay
623
histone modification
622
histone
322
narrow histone mark
300
broad histone mark
175
control
63
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
545
February, 2021
275
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
81
February, 2023
80
April, 2019
74
October, 2018
66
May, 2022
65
July, 2019
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
23
October, 2017
20
November, 2018
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
2
December, 2019
2
January, 2018
1
August, 2022
Available data
1842
bam
1720
bigWig
1073
tsv
936
bed narrowPeak
525
bigBed narrowPeak
319
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
11
hic
10
bedpe bed3+
9
bed bedMethyl
9
bigBed bedMethyl
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2678
Homo sapiens
Biosample type
2687
tissue
682
primary cell
582
cell line
346
in vitro differentiated cells
7
stem cell
Organ
541
connective tissue
501
pancreas
482
adipose tissue
309
liver
305
heart
299
kidney
265
brain
158
bone element
131
blood vessel
131
vasculature
121
limb
81
musculature of body
73
artery
56
eye
43
nerve
23
spleen
20
lung
18
ureter
16
skeleton
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
2590
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1807
GRCh38
1707
hg19
Lab
2335
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:
91
inconsistent ontology term
8
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
WGBS
organ_slims!
epithelium
month_released!
December, 2017
BIOSAMPLE
ASSAY
2687 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
71
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
1
liver
167
107
20
2
1
1
1
1
1
kidney
49
27
75
13
64
6
1
1
1
bone element
84
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