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

CIL:46205*  Cite 
Description

Plate 24319 - 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/W9CIL46205
Archival Resource Key (ARK)
ark:/b7295/w9cil46205
Compounds
10-DEBC
10-hydroxycamtothecin
1-(2-methoxyphenyl)piperazine
1-(3-chlorophenyl)piperazine
1,4-dimethoxy-9-thio(10H)-acridone
(1S,9R)-beta-hydrastine
2-amino-4-methylpyridine
2-arachidonoylglycerol
3-[2-[4-(2-METHOXYPHENYL)PIPERAZIN-1-YL]PYRIMIDO[5,4-B]INDOLE-2,4-DIONE
3-(4-ALLYLPIPERAZIN-1-YL)-2-QUINOXALINECARBONITRILE
3-hydroxybenzylhydrazine
3-hydroxymethyl-beta-carboline
3-methoxycholanthrene
6,7-dinitroquinoxaline-2,3-dione
7,7-dimethyleicosadienoic acid
ACA
aceclofenac
acemetacin
acetosyringone
adipiodone
AJ76(+)
alizarin
almotriptan
alpha-ergocryptine
alpha-yohimbine
altretamine
amantadine
aminopurvalanol A
anandamide(20:3,n-6)
apomorphine hydrochloride
austricine
aztreonam
benzanthrone
benzocaine
betulin
B-HT 920
BML-259
BRD-A47633927
BRD-K15086322
BRD-K23623876
BRD-K36395411
BRD-K41160163
BRD-K45988865
BRD-K59331372
BRD-K59339270
BRD-K61177364
BRD-K61220632
BRD-K61734568
BRD-K61831307
BRD-K62085719
BRD-K62206109
BRD-K62221994
BRD-K62289640
BRD-K62353524
BRD-K62537556
BRD-K62562723
BRD-K62929068
BRD-K63150726
BRD-K63151507
BRD-K63533170
BRD-K63758740
BRD-K63792901
BRD-K63874012
BRD-K63938928
BRD-K64044582
BRD-K64157027
BRD-K64178227
BRD-K64245000
BRD-K64246525
BRD-K64341947
BRD-K64402243
BRD-K64670467
BRD-K65285700
BRD-K65503129
BRD-K65786282
BRD-K65856711
BRD-K66782112
BRD-K67013324
BRD-K67016489
BRD-K67352070
BRD-K67439147
BRD-K67445247
BRD-K67537649
BRD-K67680372
BRD-K67831364
BRD-K68002543
BRD-K68103045
BRD-K68190965
BRD-K68246049
BRD-K68264559
BRD-K68341547
BRD-K68392338
BRD-K68438316
BRD-K68633617
BRD-K69763916
BRD-K69837166
BRD-K70241288
BRD-K70586315
BRD-K70914287
BRD-K71266197
BRD-K71430621
BRD-K71534238
BRD-K71731651
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BRD-K72462751
BRD-K72676686
BRD-K72703948
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BRD-K72783841
BRD-K72895815
BRD-K73290745
BRD-K73395020
BRD-K73991644
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BRD-K74305673
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BRD-K75516118
BRD-K75745696
BRD-K76133116
BRD-K76263570
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BRD-K76568384
BRD-K76674262
BRD-K76840893
BRD-K77171813
BRD-K77627880
BRD-K77634909
BRD-K77677632
BRD-K77987382
BRD-K78061844
BRD-K78122587
BRD-K92723993
brinzolamide
bromopride
bufalin
carbamazepine
carboxin
catechin tetramethylether
Cdk2/5 inhibitor
cefixime
cefoxitin
cilostazol
cinchophen
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corticosterone
cytisine
daidzein
daphnetin
dapsone
deracoxib
derrusnin
derrustone
diazoxide
dibenzoylmethane
dichlorophen
dichlorphenamide
dicycloverine
dihydrosamidin
diiodohydroxyquinoline
Diphenyleneiodonium Cl
diprotin A
diuron
dydrogesterone
EICOSATRIENOIC ACID (20:3 n-3)
enoxacin
esatenolol
etacrynic acid
etazolate
ETHYL-beta-CARBOLINE-3-CARBOXYLATE
etifenin
fasudil
fenamisal
fenthion
ferulic acid
FG 7142
FGIN-1-43
flumetasone
fluorometholone
flupentixol
fluspirilene
fluticasone propionate
fraxetin
fraxidin methyl ether
FTA
furosemide
genistein
genistin
GSK-3beta inhibitor VIII
GSK-3 inhibitor II
GW-843682X
haloperidol
hippeastrine
homopterocarpin
huperzine A
hydroxyfasudil
hydroxytoluic acid
ICARIIN
idoxuridine
iriflophenone trimethyl ether
isoginkgetin
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isopimpinellin
isotretinoin
(+/-)-kavain
kawain
kenpaullone
kinetin
L-689,560
lawsone
lecanoric acid
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lidoflazine
liquiritigenin dimethyl ether
lobeline
loperamide
MAPP,D-erythro
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meprylcaine
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ML-7
ML-9
molsidomine
monocrotaline
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MPEP
mycophenolic acid
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N9-isopropylolomoucine
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NAGCys
N-AGGC
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NAN-190
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nicergoline
nifuroxazide
nimesulide
nitrofurantoin
N-LINOLEOYLGLYCINE
norcyclobenzaprine
NSC95397
oxolinic acid
paclitaxel
palmidrol
PD 128907
PD169316
PD 98059
peucedanin
phenylacetohydroxamic acid
phenylephrine
phlorhizin
phorbol myristate acetate
phosalone
phosphodiesterase V inhibitor II
phthalylsulfathiazole
piceid
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pifithrin-alpha
pizotifen
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procainamide
progesterone
purmorphamine
quinapril
quinidine gluconate
quinisocaine
quipazine
raloxifene
RHO-kinase inhibitor II
riboflavin
ryanodine
sanguinarium chloride
SB-225002
SB-415286
SB-431542
scoulerine
semaxanib
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solanine alpha
STO 609
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tomelukast
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triptophenolide
tyrphostin 63
tyrphostin AG 1296
tyrphostin AG-1478
U-99194A
(+)-UH 232
urapidil
ursolic acid
valerylsalicylic acid
VEGF receptor 2 kinase inhibitor IV
W-12
zidovudine
ZM336372
zoxazolamine