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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1343
ChIP-seq
1144
total RNA-seq
289
ATAC-seq
180
DNase-seq
180
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
snATAC-seq
20
Hi-C
16
small RNA-seq
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
1343
DNA binding
1342
Transcription
501
DNA accessibility
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
661
histone modification
660
histone
424
transcription factor
341
narrow histone mark
319
broad histone mark
258
control
91
RNA binding protein
89
recombinant protein
30
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
641
February, 2021
397
November, 2017
273
August, 2021
272
October, 2019
270
August, 2017
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
61
May, 2021
59
July, 2019
56
November, 2019
51
March, 2020
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
2423
bam
2241
bigWig
1352
bed narrowPeak
1195
tsv
880
bigBed narrowPeak
742
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3339
Homo sapiens
Biosample type
2691
tissue
1030
primary cell
661
cell line
351
in vitro differentiated cells
7
stem cell
Organ
708
liver
591
pancreas
541
connective tissue
482
adipose tissue
370
heart
317
kidney
264
brain
197
blood vessel
197
vasculature
158
bone element
139
artery
121
limb
94
epithelium
77
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
3244
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2270
GRCh38
2240
hg19
Lab
2953
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
9
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
month_released!
December, 2017
assay_slims!
DNA methylation
BIOSAMPLE
ASSAY
3352 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
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
shRNA RNA-seq
...and 2 more
tissue
islet of Langerhans
71
292
68
1
6
4
7
3
4
1
adipose tissue
2
382
3
1
liver
107
167
20
2
1
1
1
1
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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