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*CIL – Cell Image Library accession number. Please use this to reference an image.

CIL:45970*  Cite 
Description

Plate 25983 - Phenotypic profiling attempts to summarize multiparametric, feature-based analysis of cellular phenotypes of each sample so that similarities between profiles reflect similarities between samples. This image set provides a basis for testing image-based profiling methods wrt. to their ability to distinguish the effects of small molecules. Images The images are of U2OS cells treated with each of 1600 known bioactive compounds and labeled with six labels that characterize seven organelles (the .cell-painting. assay). This pilot experiment consists of 20 plates. Each plate has 384 wells and each well has 9 fields of view for a total of 69,120 fields of view. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale image file, so there are 345,600 image files in 16-bit TIFF format.

Technical Details

Gustafsdottir et al. (doi:10.1371/journal.pone.0080999) have developed a multiplex cytological profiling assay that "paints the cell" with as many fluorescent markers as possible without compromising our ability to extract rich, quantitative profiles in high throughput. The assay detects seven major cellular components. In a pilot screen of bioactive compounds, the assay detected a range of cellular phenotypes and it clustered compounds with similar annotated protein targets or chemical structure based on cytological profiles. The results demonstrate that the assay captures subtle patterns in the combination of morphological labels, thereby detecting the effects of chemical compounds even though their targets are not stained directly. This image-based assay provides an unbiased approach to characterize compound- and disease-associated cell states to support future probe discovery. Using the cell-painting assay, the Broad Institute has assembled a reference dataset of profiles for U2OS osteosarcoma cells treated with ~30,000 compounds. The compound collection includes DOS-derived compounds (20,000), as well as chemically diverse MLI compounds with biologically diverse performance identified through analysis of PubChem (10,000), and known bioactive compounds to serve as landmarks (2,500). The DOS compounds consist of structurally diverse and stereochemically rich compounds with structures distinct from the current MLSMR. The compound collection also includes 267 distinct compounds nominated by MLPCN Centers from projects for which the Centers would like to identify new chemical series with similar activities. The experiment consists of 413 microtiter plates. Each plate has 384 wells. Each well has 9 fields of view. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale 16-bit TIFF image file.

Biological Sources
NCBI Organism Classification
Homo sapiens
Cell Line
U-2 OS
Cellular Component
cell
Biological Context
Biological Process
response to chemical stimulus
Attribution
Names
Sigrun Gustafsdottir
Vebjorn Ljosa
Katherine Sokolnicki
Joshua Bittker
Nicole Bodycombe
Mark Bray
Vlado Dancik
Tom Hasaka
Suk Hon
Melissa Kemp
Kejie Li
Deepika Walpita
Mathias Wawer
Todd Golub
Stuart Schreiber
Paul Clemons
Anne Carpenter
Alykhan Shamji
Link
Broad Institute
Citation
Digital Object Identifier (DOI)
doi:10.7295/W9CIL45970
Archival Resource Key (ARK)
ark:/b7295/w9cil45970
Compounds
1-(1,3-BENZODIOXOL-5-YLCARBONYL)PIPERIDINE
1-phenylbiguanide
2,4-dinitrophenol
3,4-dichloroisocoumarin
4-chlorophenylguanidine hydrochloride
5-AIQ
5-alpha-PREGNANE-3-alpha-2,1-DIOL-20-ONE
5-methoxytryptamine
6-CYANO-7-NITROQUINOXALINE-2,3-DIONE
8-CYCLOPENTYLTHEOPHYLLINE
A-77636
ABT-702
acetylleucine
aklomide
aldicarb
alpha-linolenic acid
alrestatin
anabasine
anandamide(22:4,n-6)
arvanil
astemizole
azathioprine
azinphos methyl
baeomycesic acid
bentazone
benzthiazide
benzydamine
benzylbutylphthalate
bergenin
betamethasone
bisacodyl
bithionol
BML-257
BRD-K18316707
BRD-K18779551
BRD-K18799075
BRD-K19040732
BRD-K19533706
BRD-K19605405
BRD-K20141153
BRD-K21667562
BRD-K22385716
BRD-K22715231
BRD-K22745370
BRD-K23335153
BRD-K23383398
BRD-K23432132
BRD-K23922020
BRD-K24201553
BRD-K24240364
BRD-K24526313
BRD-K24556098
BRD-K24925364
BRD-K25280080
BRD-K25649279
BRD-K25875056
BRD-K25906698
BRD-K26160755
BRD-K26373640
BRD-K26376097
BRD-K26429091
BRD-K26573499
BRD-K26954192
BRD-K26997899
BRD-K27265817
BRD-K27911943
BRD-K28115081
BRD-K28137194
BRD-K28863208
BRD-K29133151
BRD-K29542628
BRD-K29546239
BRD-K29555132
BRD-K29668683
BRD-K30990140
BRD-K31054881
BRD-K31238592
BRD-K31633810
BRD-K31699485
BRD-K31843556
BRD-K31912990
BRD-K31987754
BRD-K32292990
BRD-K32526544
BRD-K33104513
BRD-K33400588
BRD-K33459542
BRD-K33818169
BRD-K33864865
BRD-K33882852
BRD-K34034388
BRD-K34170797
BRD-K34608650
BRD-K34663752
BRD-K35133923
BRD-K35430135
BRD-K35629949
BRD-K36009368
BRD-K36198571
BRD-K36258877
BRD-K36376229
BRD-K36864847
BRD-K37392901
BRD-K37618799
BRD-K37714784
BRD-K38477985
BRD-K39670393
BRD-K39733634
BRD-K40578143
BRD-K40656405
Bromo-7-nitroindazole [3-Bromo-7-nitroindazole]
broxyquinoline
buflomedil
bumetanide
butaclamol
butamben
calcitriol
carbacyclin
CD-437
cearoin
cefalotin
ceforanide
CGS-12066A
chelidonine
chloramphenicol
chlorotrianisene
chrysin
cicloheximide
cilostamide
cimetidine
cinnarazine
clemastine
clocortolone pivalate
clofibric acid
clomifene
clozapine
coralyne
coumarin
cyclic PFT-alpha
cyproheptadine
denbufylline
dexamethasone
dextromethorphan
diacylglycerol kinase inhibitor II
dictamnine
diflunisal
digoxigenin
digoxin
DIHOMO-GAMMA-LINOLENIC ACID
diltiazem
dimaprit
dinoprostone
dioxybenzone
diphenylpyraline
disulfiram
dizocilpine
doconexent
domperidone
ebselen
EHNA
epiafzelechin trimethyl ether
epicatechin
epigallocatechin
epirizole
ERGOCORNINE
erythromycin propionate
estradiol
etamivan
ethaverine
ethionamide
etoposide
euparin
felamidin
fenspiride
fillalbin
fipexide
fisetin
flunarizine
fluprostenol
flutamide
GF-109203X
glibenclamide
gossypol
gramine
guanfacine
H-8
H-89
harmine
hesperetin
hesperidin
hinokitiol
hydrocotarnine
hydroflumethiazide
hypericin
ichthynone
imipramine
INCA-6
isobergaptene
(+)-isocorydine
isoliquiritigenin
ketoconazole
ketotifen
L694,247
L-750,667 trihydrochloride[(?)-3-[4-Iodophenyl)-1-piperazyl] methylpyrrolo [2,3-b] pyrimidine]
lavendustin A
levobunolol
levocabastine
levonorgestrel
levothyroxine
L-hyoscyamine
lonchocarpic acid
loxapine
LY-2183240
LY-294002
lysergol
maprotiline
m-chlorophenylbiguanide
MCI-186
mefexamide
megestrol acetate
mestranol
METHYL-beta-CARBOLINE-3-CARBOXYLATE
methylergometrine
methyl everninic acid
methylprednisolone
methyl robustone
methysergide
mifepristone
mitoxantrone
MK 212
moracizine
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mycophenolic acid
N-(4-BROMOBENZYL)-5-METHOXYTRYPTAMINE
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nafcillin
naproxol
neopine
neostigmine bromide
niclosamide
nilutamide
nitrocaramiphen
N,N-Dipropyl-5-carboxamidotryptamine maleate
nomegestrol acetate
noreleagnine
NS3694
orsellinic acid
ouabain
oxaprozin
paraxanthine
paroxetine
paxilline
pectolinarin
perillic acid (-)
phenacetin
phenamil
phenylpropanolamine
pinosylvin methyl ether
piperlongumine
pirenperone
piromidic acid
pregnenolone-16(alpha)-carbonitrile
primidone
procaine
prochlorperazine
proguanil
prometryn
propazine
propoxycaine
puromycin
pyrantel
pyrithyldione
quinpirole
R(-)-2,10,11-trihydroxyaporphine
ramelteon
reserpic acid
RG-14620
rhein
rhoifolin
riluzole
rimexolone
rofecoxib
roxithromycin
RS 39604
RS 56812
SB 203186[1-Piperidinylethyl-1H-indole-3-carboxylate hydrochloride]
SB 216641
seneciphylline
simvastatin
SKI-II
skimmianine
sphondin
splitomycin
SR-95639A
S-trans,trans-farnesyl-L-cysteine methylester
SU1498
sulfacetamide
sulfachlorpyridazine
sulfadiazine
sulfamethizole
sulfamethoxazole
tilorone
timolol
tolazamide
torasemide
tracazolate
TRIM
trimethobenzamide
triptolide
tyrphostin A9
tyrphostin B7
U0126
U-46619
U-54494A
vanoxerine
xylazine
yohimbic acid
yohimbine hydrochloride
zardaverine
zuclopenthixol