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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1150
total RNA-seq
404
ChIP-seq
174
single cell RNA-seq
87
RNA microarray
71
ATAC-seq
31
pCHi-C
28
WGBS
28
snATAC-seq
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
whole genome sequencing assay
Assay category
1340
Transcription
404
DNA binding
100
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
270
control
111
histone
111
histone modification
59
narrow histone mark
52
broad histone mark
28
transcription factor
5
nucleotide modification
4
RNA binding protein
1
recombinant protein
Date released
619
February, 2021
218
August, 2017
195
August, 2021
167
May, 2020
120
July, 2018
106
October, 2019
90
November, 2017
70
July, 2019
60
May, 2021
48
March, 2020
47
September, 2023
38
February, 2023
29
October, 2018
28
May, 2022
25
February, 2020
24
November, 2019
22
May, 2019
19
April, 2020
15
April, 2019
15
May, 2023
14
November, 2018
12
December, 2017
11
October, 2017
10
November, 2020
9
January, 2019
8
January, 2021
6
April, 2018
6
September, 2017
5
December, 2018
5
March, 2019
3
December, 2019
3
January, 2018
1
August, 2022
1
October, 2022
Available data
2489
bam
2294
bigWig
bed narrowPeak
1195
tsv
916
bigBed narrowPeak
804
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
2044
Homo sapiens
Biosample type
1793
tissue
793
primary cell
262
in vitro differentiated cells
256
cell line
6
stem cell
Organ
534
connective tissue
475
adipose tissue
453
pancreas
341
liver
194
heart
157
kidney
150
bone element
87
blood vessel
87
vasculature
73
brain
67
epithelium
65
artery
31
musculature of body
30
limb
26
eye
20
lung
16
nerve
11
spleen
8
embryo
8
skeleton
7
blood
7
bodily fluid
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
1947
AMP
47
KPMP
36
T1D
19
LungMap
community
Genome assembly (visualization)
1108
hg19
1082
GRCh38
Lab
1808
AMP-T2D consortium
78
Katalin Susztak, Upenn
47
KPMP
39
Kyle Gaulton, UCSD
24
Bing Ren, UCSD
20
Karen Mohlke, UNC
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
158
inconsistent ontology term
9
audit script error
Audit category:
23
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed narrowPeak
award.project!
community
BIOSAMPLE
ASSAY
2049 results
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Clear Filters
total RNA-seq
ChIP-seq
single cell RNA-seq
RNA microarray
ATAC-seq
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
...and 1 more
tissue
islet of Langerhans
298
51
31
4
7
3
1
4
adipose tissue
382
1
2
1
3
liver
167
63
1
1
3
1
1
1
kidney
49
7
64
11
6
1
1
bone element
84
+ See 92 more…
cell line
HepG2
14
71
2
1
2
2
EndoC_BH1
33
2
18
1
6
3
2
2
1
smooth muscle cell of the coronary artery
52
2
H1-hESC
8
Panc1
7
1
+ See 13 more…
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