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

CIL:45957*  Cite 
Description

Plate 25937 - 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/W9CIL45957
Archival Resource Key (ARK)
ark:/b7295/w9cil45957
Compounds
1,3-dideacetyldeoxykhivorin
18-alpha-glycyrrhetinic acid
3alpha-acetoxydihydrodeoxygedunin
3-beta-hydroxydeoxodihydrogedunin
4-PHENYL-1,2,3,4-TETRAHYDROISOQUINOLINE
5-iodotubercidin
7-hydroxy-2-N,N-dipropylaminotetralin
8-beta-hydroxycarapin-3,8-hemiacetal
(+/-)-abscisic acid
acebutolol
aceclidine
alexidine
alfuzosin
alprenolol
ambelline
amcinonide
aminoglutethimide
amlodipine
amylocaine
anabasamine
anabasine
anthothecol
apomorphine
atenolol
azadirachtin
BADGE
bambuterol
Bax channel blocker
BayK-8644
benfluorex
bergenin
betaxolol
BH3I-1
biperiden
bongkrekic acid
BRD-A00100033
BRD-A00267231
BRD-A00327403
BRD-A00520476
BRD-A03359064
BRD-A03503284
BRD-A03816571
BRD-A04231641
BRD-A04258855
BRD-A04661934
BRD-A04706586
BRD-A04975445
BRD-A06276885
BRD-A07232941
BRD-A07870296
BRD-A07875874
BRD-A09828896
BRD-A10355991
BRD-A10903566
BRD-A11609859
BRD-A11813248
BRD-A12372458
BRD-A12822115
BRD-A13964793
BRD-A13983189
BRD-A14344385
BRD-A14566392
BRD-A14574269
BRD-A15415227
BRD-A15435692
BRD-A15454510
BRD-A15530910
BRD-A15914070
BRD-A16827030
BRD-A17065207
BRD-A18202423
BRD-A20182314
BRD-A20968261
BRD-A21723284
BRD-A22707317
BRD-A22783572
BRD-A23226398
BRD-A23683907
BRD-A23723433
BRD-A24436948
BRD-A26032986
BRD-A27080191
BRD-A27143604
BRD-A27290375
BRD-A27924917
BRD-A28318179
BRD-A29437505
BRD-A30547447
BRD-A30590053
BRD-A31007383
BRD-A31195449
BRD-A31575449
BRD-A31576716
BRD-A31916785
BRD-A32164164
BRD-A32949107
BRD-A34706053
BRD-A34842997
BRD-A34891365
BRD-A35338386
BRD-A35511923
BRD-A35871558
BRD-A36074203
BRD-A37056613
BRD-A37347161
BRD-A37432947
BRD-A37523642
BRD-A37776212
BRD-A38747044
BRD-A38898897
BRD-A39255369
BRD-A39522003
BRD-A39969961
BRD-A41833852
BRD-A42553870
BRD-A42831637
BRD-A43930669
BRD-A43974499
bucladesine
buphenine
bupivacaine
bupropion
butoconazole
BW 723C86
calcimycin
canrenone
cantharidin
carbinoxamine
carteolol
carvedilol tartrate
cephalotaxine
cetirizine
CGP-37157
CGP 52432
chlormadinone acetate
chlormezanone
chlorphenamine
chlorphensin carbamate
chlorthalidone
clindamycin
cyclopenthiazide
cyclopiazonic acid
cyclothiazide
cytisine
dehydrodihydrorotenone
demeclocycline
deoxyandirobin
deoxygedunin
deoxykhivorin
dibutyryl cyclic GMP
dichlorobenzimidazole riboside
dihydrodeoxygedunin
dihydrogambogic acid
dihydromunduletone
dihydro-obliquin
dihydroquinidine
diperodon
disopyramide
doxazosin
doxycycline
doxylamine
drofenine
dropropizine
dyphylline
efaroxan
enilconazole
entandrophragmin
epibatidine
epoxygedunin
eriodictyol
estradiol benzoate
estradiol valerate
etilefrine
ezetimibe
famprofazone
felodipine
fenbutyramide
fissinolide
flavanone
flecainide
flucloxacillin
fluoxetine
F-met-leu-phe
fusidic acid
gelsemine
gemifloxacin
gitoxigenin diacetate
glafenine
heliotrine
hexestrol
homatropine hydrobromide
homatropine methylbromide
homochlorcyclizine
homosalate
hydroxyprogesterone
ibuprofen
idazoxan
ifenprodil tartrate
indoprofen
iocetamic acid
iopanoic acid
ISAMOLTANE
isoetarine
isoprenaline
karakoline
ketorolac tromethamine
L-744832
labetalol
L-abrine
laudanosine
LFM-A12
LFM-A13
lomatin
lorglumide
LY-278584
MDL 72832
mebeverine
mepivacaine
meptazinol
mesoridazine
metanephrine
methocarbamol
METHOPRENE ACID
methoxamine
methscopolamine bromide
metitepine
metixene
met-leu-phe
metolachlor
metoprolol tartrate
modafinil
naftopidil
necrostatin-1
N-FORMYLMETHIONYLPHENYLALANINE
nicardipine
nitrendipine
nomifensine
nomilin hydrochloride
norethindrone acetate
obacunol
ofloxacin
oleanoic acid
oleanolic acid acetate
ondansetron
ONDANSETRON
orciprenaline
ornidazole
oxeprenolol
oxfendazole
pantoprazole
PCA 4248
pencillic acid
pentobarbital
pheniramine
phenothrin
phensuximide
PK-11195
potassium canrenoate
practolol
prasterone
praziquantel
procaterol
procyclidine
proglumide
propafenone
propranolol
proscillaridin
proxyphylline
pseudopelletierine
puromycin
racecadotril
rebamipide
RO-20-1724
rolipram
SACLOFEN
safrolglycol
salmeterol
SB-203580
SB 218078
securinine
SKF 82958
sotalol
stictic acid
strychnine
sulfinpyrazone
sulindac
sulmazole
sulpiride
suprofen
suprofen methyl ester
telithromycin
tenoxicam
terfenadine
tetracycline
tetrahydropalmatine
tetryzoline
thiamylal sodium
thiocolchicoside
tolperisone
trandolapril
TRANS-7-HYDROXY-PIPAT
triadimefon
triamcinolone diacetate
trichlormethiazide
tridesacetoxykhivorin
trimeprimine
tubaic acid
tulobuterol
ursolic acid
verapamil
vitexin
warfarin
WB 4101
wiskostatin
wortmannin
Y-25130
YO-2
Zopiclone[Imovane]