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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
215
ATAC-seq
174
single cell RNA-seq
164
ChIP-seq
139
total RNA-seq
87
RNA microarray
31
pCHi-C
28
snATAC-seq
20
Hi-C
11
RRBS
10
MeRIP-seq
10
WGBS
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
315
Transcription
244
DNA accessibility
164
DNA binding
21
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
130
histone
130
histone modification
68
narrow histone mark
62
broad histone mark
27
control
12
transcription factor
5
nucleotide modification
1
RNA binding protein
Date released
265
August, 2021
114
August, 2017
101
February, 2023
94
February, 2021
57
October, 2019
47
September, 2023
42
May, 2022
37
March, 2020
25
February, 2020
19
April, 2020
18
May, 2021
15
May, 2023
14
November, 2017
13
July, 2019
10
November, 2020
8
January, 2021
8
October, 2017
4
July, 2018
4
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
2
November, 2019
1
April, 2019
1
August, 2022
1
December, 2018
1
May, 2020
1
October, 2022
Available data
bam
2254
bigWig
1348
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
904
Homo sapiens
Biosample type
830
tissue
479
primary cell
103
in vitro differentiated cells
80
cell line
7
stem cell
Organ
205
kidney
141
heart
108
liver
105
pancreas
92
bone element
53
eye
49
connective tissue
48
adipose tissue
46
blood vessel
46
vasculature
43
epithelium
39
artery
39
brain
38
musculature of body
20
lung
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
blood
1
bodily fluid
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
808
AMP
47
KPMP
34
T1D
19
LungMap
2
community
Genome assembly (visualization)
128
hg19
117
GRCh38
Lab
576
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
38
Bing Ren, UCSD
33
Kyle Gaulton, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
117
inconsistent ontology term
9
audit script error
Audit category:
1
missing controlled_by
Audit category:
1
inconsistent assembly
files.file_type!
bam
BIOSAMPLE
ASSAY
910 results
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Clear Filters
ATAC-seq
single cell RNA-seq
ChIP-seq
total RNA-seq
RNA microarray
pCHi-C
snATAC-seq
Hi-C
RRBS
MeRIP-seq
WGBS
STARR-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
shRNA RNA-seq
...and 2 more
tissue
kidney
75
64
49
6
1
1
islet of Langerhans
30
41
26
4
7
3
1
4
bone element
84
liver
20
1
23
20
1
1
1
3
subcutaneous abdominal adipose tissue
36
3
+ See 71 more…
cell line
HepG2
19
9
2
2
2
EndoC_BH1
18
1
6
3
2
2
1
EndoC-BH1
1
HEK293T
2
GM12878
1
+ See 7 more…
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