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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1391
ChIP-seq
1136
total RNA-seq
289
ATAC-seq
DNase-seq
171
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
WGBS
20
Hi-C
18
snATAC-seq
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-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
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1391
DNA binding
1325
Transcription
311
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
666
histone modification
665
histone
455
transcription factor
343
narrow histone mark
322
broad histone mark
270
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
641
February, 2021
397
November, 2017
282
August, 2017
266
October, 2019
265
August, 2021
194
May, 2020
120
July, 2018
115
May, 2019
101
February, 2023
80
April, 2019
78
November, 2018
77
July, 2019
74
October, 2018
66
May, 2022
61
May, 2021
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
40
May, 2024
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2302
bam
2107
bigWig
1209
bed narrowPeak
1187
tsv
794
fastq
737
bigBed narrowPeak
258
tagAlign
158
txt
95
bed broadPeak
64
xls
58
bigBed broadPeak
31
bed bed3+
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
3220
Homo sapiens
Biosample type
2580
tissue
1057
primary cell
652
cell line
364
in vitro differentiated cells
10
stem cell
Organ
758
liver
589
pancreas
545
connective tissue
486
adipose tissue
352
heart
249
kidney
238
brain
194
blood vessel
194
vasculature
158
bone element
135
artery
93
epithelium
86
limb
61
blood
61
bodily fluid
53
eye
50
musculature of body
41
nerve
24
spleen
16
skeleton
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3143
AMP
47
KPMP
40
T1D
2
community
Genome assembly (visualization)
2136
GRCh38
2114
hg19
Lab
2852
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
182
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
assay_title!
DNase-seq
lab.title!
Xin Sun, UCSD
organ_slims!
embryo
BIOSAMPLE
ASSAY
3232 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
Hi-C
snATAC-seq
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
...and 3 more
tissue
islet of Langerhans
71
292
68
6
4
3
7
1
4
1
adipose tissue
2
382
3
1
3
liver
145
167
20
1
1
3
1
1
1
kidney
27
49
75
64
1
6
1
1
bone element
84
+ See 159 more…
cell line
HepG2
378
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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