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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
1150
total RNA-seq
289
ATAC-seq
180
DNase-seq
174
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
snATAC-seq
20
Hi-C
16
small RNA-seq
11
WGBS
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
2
RRBS
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
1342
Transcription
501
DNA accessibility
20
3D chromatin structure
13
DNA methylation
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
279
August, 2017
273
August, 2021
272
October, 2019
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
80
April, 2019
80
November, 2018
74
October, 2018
66
May, 2022
63
July, 2019
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
19
April, 2020
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
2489
bam
2294
bigWig
1388
bed narrowPeak
1195
tsv
916
bigBed narrowPeak
804
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
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
3400
Homo sapiens
Biosample type
2752
tissue
1078
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
760
liver
591
pancreas
545
connective tissue
486
adipose tissue
372
heart
317
kidney
264
brain
198
blood vessel
198
vasculature
158
bone element
139
artery
121
limb
94
epithelium
79
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
23
spleen
20
lung
18
ureter
16
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3305
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2306
GRCh38
2276
hg19
Lab
3014
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
19
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:
183
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
files.file_type!
bed bedMethyl
BIOSAMPLE
ASSAY
3413 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
WGBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
RRBS
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
71
298
68
1
4
7
3
4
1
adipose tissue
2
382
3
1
1
liver
145
167
20
2
1
1
1
1
3
kidney
27
49
75
13
64
6
1
1
bone element
84
+ See 175 more…
cell line
HepG2
378
14
1
2
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
1
+ See 14 more…
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