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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1298
ChIP-seq
1085
total RNA-seq
287
ATAC-seq
167
single cell RNA-seq
31
pCHi-C
28
WGBS
27
snATAC-seq
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
3
RNA microarray
3
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1298
DNA binding
1270
Transcription
321
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
617
histone modification
616
histone
411
transcription factor
322
narrow histone mark
294
broad histone mark
270
control
89
RNA binding protein
89
recombinant protein
28
chromatin remodeller
5
nucleotide modification
4
other context
4
other post-translational modification
Date released
552
February, 2021
333
November, 2017
267
October, 2019
258
August, 2017
216
August, 2021
194
May, 2020
120
July, 2018
115
May, 2019
97
February, 2023
80
April, 2019
78
November, 2018
77
July, 2019
74
October, 2018
61
May, 2021
59
May, 2022
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
40
May, 2024
35
December, 2018
30
January, 2019
25
February, 2020
19
April, 2020
19
October, 2017
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
4
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
Available data
2489
bam
2294
bigWig
1388
bed narrowPeak
1195
tsv
916
bigBed narrowPeak
804
fastq
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
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
3003
Homo sapiens
Biosample type
2407
tissue
1039
primary cell
602
cell line
390
in vitro differentiated cells
10
stem cell
Organ
701
liver
570
pancreas
544
connective tissue
485
adipose tissue
352
heart
229
brain
194
blood vessel
194
vasculature
188
kidney
135
artery
94
epithelium
86
limb
70
bone element
61
blood
61
bodily fluid
53
eye
41
nerve
36
musculature of body
24
spleen
20
lung
12
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2901
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2087
GRCh38
2029
hg19
Lab
2675
AMP-T2D consortium
85
Katalin Susztak, Upenn
51
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, 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
Audit category:
98
inconsistent ontology term
28
inconsistent control
3
audit script error
1
inconsistent replicate
Audit category:
37
missing controlled_by
Audit category:
19
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
txt
bed broadPeak
BIOSAMPLE
ASSAY
3009 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
RNA microarray
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 3 more
tissue
islet of Langerhans
65
286
66
6
4
7
3
1
4
1
1
adipose tissue
2
382
3
1
3
liver
145
167
20
1
1
3
1
1
1
kidney
27
75
51
6
1
1
1
heart left ventricle
35
3
2
18
1
4
1
1
+ See 158 more…
cell line
HepG2
320
14
1
2
1
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
+ See 13 more…
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