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

CIL:45770*  Cite 
Description

Plate 24279 - 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/W9CIL45770
Archival Resource Key (ARK)
ark:/b7295/w9cil45770
Compounds
1,3,5-trimethoxybenzene
1-(3-trifluoromethylphenyl)piperazine
1,5-isoquinolinediol
17-phenyl-trinor-prostaglandin E2
2-[1-(4-PIPERONYL)PIPERAZINYL]BENZOTHIAZOLE
2,3-dihydroxy-6,7-dichloroquinoxaline
2,4,5-trichlorophenoxyacetic acid
2-CHLORO-11-(4-METHYLPIPERAZINO)DIBENZ[B,F]OXEPIN
4,5,6,7-tetrabromobenzotriazole
5-carboxamidotryptamine
5-[(DIMETHYLAMINO)METHYL]-3-(1-METHYL-1H-INDOL-3-YL)-1,2,4-OXADIAZOLE
6-nitroquipazine
7-chlorokynurenic acid
AC55649
AG 592
ajmalicine
Ala-Ala-Phe-CMK
albendazole
aloisine A
alverine
AM251
AMI-193
amiloride
aminophylline
anandamide(18:2,n-6)
anhydrobrazilic acid
aniracetam
anisomycin
arecoline
asaronaldehyde
austricine
azacyclonol
beclomethasone dipropionate
benperidol
benzamil
betahistine
betamipron
BHQ
biotin
BML-190
BMS-191011
Boc-GVV-CHO
BRD-K78496197
BRD-K78637815
BRD-K78844995
BRD-K79231725
BRD-K79366068
BRD-K79684402
BRD-K79930101
BRD-K80315159
BRD-K80451230
BRD-K80639402
BRD-K80778372
BRD-K81209512
BRD-K81225797
BRD-K81376179
BRD-K81729199
BRD-K81807412
BRD-K81876028
BRD-K82484965
BRD-K82823076
BRD-K83023055
BRD-K83063356
BRD-K83192048
BRD-K83322645
BRD-K83508485
BRD-K83637872
BRD-K84266862
BRD-K84709232
BRD-K85015012
BRD-K85104575
BRD-K85266041
BRD-K85555482
BRD-K86600316
BRD-K86882815
BRD-K86958018
BRD-K87194840
BRD-K87510569
BRD-K87696786
BRD-K87798455
BRD-K88358234
BRD-K88677950
BRD-K88741031
BRD-K88759641
BRD-K89274813
BRD-K89402695
BRD-K90065682
BRD-K90574291
BRD-K90574421
BRD-K90789829
BRD-K91243525
BRD-K91758890
BRD-K91904471
BRD-K92019075
BRD-K92492521
BRD-K92984783
BRD-K93188295
BRD-K93541117
BRD-K94217587
BRD-K94270326
BRD-K94832621
BRD-K94837957
BRD-K94920105
BRD-K95432622
BRD-K95435023
BRD-K95598440
BRD-K95739795
BRD-K95851186
BRD-K95899059
BRD-K96256403
BRD-K96271548
BRD-K96720755
BRD-K97194310
BRD-K97365803
BRD-K97487499
BRD-K97752965
BRD-K98143437
BRD-K98143539
BRD-K98157055
bromperidol
buspirone
BUTYL-beta-CARBOLINE-3-CARBOXYLATE
CAPE
carbimazole
Cdk1 inhibitor
cefotaxime
chelerythrine
chloropyramine
chlorothiazide
chlorphenamine
chlorpromazine
chlorpropamide
chlorzoxazone
chromocarb
CI-976
ciclacillin
citropten
clorsulon
cotinine
coumestrol
cuneatin methyl ether
cyclizine
cyclo-[Arg-Gly-Asp-D-Phe-Val]
damnacanthal
dantrolene
dehydrocholic acid
dehydroepiandrosterone 3-acetate
desoxycortone
DIBENZEPINE
dicoumarol
dienestrol
dihydro-beta-tubaic acid
dihydroergocristine
dimethoate
diphemanil metilsulfate
dipyridamole
doxorubicin
droperidol
EICOSADIENOIC ACID (20:2 n-6)
embelin
EMD 41000
emodic acid
epiafzelechin
estrone
ethiron
etofylline
exo1
fenamic acid
fenretinide
FPL-64176
FTT
fusaric acid
gabazine
GBR 12783
GBR 13069
gibberellic acid
gliquidone
graveoline
GW7647[2-(4-(2-(1-Cyclohexanebutyl)-3-cyclohexylureido)ethyl)phenylthio)-2-methylpropionic acid]
GW-9662
halcinonide
harmaline
herniarin
hydralazine
hydrastinine
hydrocortisone
IBMX
ioxaglic acid
iproniazid
irigenin trimethyl ether
irilin A dimethyl ether
isocarboxazid
iso-olomoucine
khellin
KN-93
kynurenic acid
lamotrigine
L-cis-DILTIAZEM
leflunomide
leoidin
letrozole
leucodin
lincomycin
liothyronine
lobaric acid
lonidamine
loratadine
mammea A/BA
manumycin A
MAZ51
mead acid
mefenamic acid
melatonin
mepyramine
MESULERGINE
metameconine
metampicillin
methanandamide
methomyl
methylephedrine
mevastatin
ML 3163
moxisylyte
MY-5445
N-AFC
naltrexone
N-ethylmaleimide
nitrofural
N,N-di-n-propyldopamine
norethisterone
noretynodrel
nortriptyline
noscapine
NPPB
obliquin
olmesartan medoxomil
olomoucine
orthothymotinic acid
paeonol
pargyline
periciazine
perindopril
phentolamine
picrotoxinin
pifithrin-mu
pilocarpine nitrate
pimethixene
pimpinellin
pinocembrin
pinosylvin
piperacillin
pirenzepine
piretanide
pirfenidone
PP2
prednisolone
prednisone
probenecid
propofol
propranolol
PROPYL-beta-CARBOLINE-3-CARBOXYLATE
prostaglandin B2
protopine
proxymetacaine
pseudoephedrine
pteryxin
pyrimethamine
pyrrolidine dithiocarbamic acid
quercetin
ramifenazone
(R)-angolensin
repaglinide
resveratrol
ricinine
R-(+)-methylindazone
ronidazole
RS-102221
RS 16566
R(+)-SKF-81297
SC 68376
scopolamine
scopoletin
selegiline
sildenafil
sinomenine
SKF-86002
S-(-)-Lisuride[S(-)-N'-[(8a)-9,10-Didehydro-6-methylergolin-8-yl]-N,N-diethyl-urea]
spironolactone
SRC kinase inhibitor II
strophanthidin
SU-6656
SU 9516
sulfamerazine
sulfametoxydiazine
suxibuzone
tamoxifen
tegaserod
terconazole
testosterone propionate
tetramethyl-haematoxylone
thiamphenicol
thonzylamine
thymoquinone
tinidazole
tolbutamide
tolmetin
tranylcypromine
trapidil
Trequinsin hydrochloride[HL 725]
triacetylresveratrol
triamterene
trifluoperazine
trimetazidine
umbelliferone
vincamine
W-7
WIN 55,212-2
ZM 449829
zomepirac