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

CIL:45772*  Cite 
Description

Plate 24352 - 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/W9CIL45772
Archival Resource Key (ARK)
ark:/b7295/w9cil45772
Compounds
1,3-dipropyl-8-cyclopentylxanthine
24,25-dihydroxyvitamin D3
2,4-dichlorophenoxyacetic acid
3,4-dimethoxy-6-nitrobenzaldehyde
4-(3-(Pyridin-2-yl)-(1H)-pyrazol-4-yl]quinoline
4-nonylphenol
5-alpha-PREGNAN-3-alpha-OL-20-ONE
5-nitroso-8-cinnolinol
5-NONYLOXYTRYPTAMINE
6-FORMYLINDOLO [3,2-B] CARBAZOLE
7-nitroindazole
9,21-dehydroryanodine
acetyltryptophanamide
ADRENIC ACID (22:4, n-6)
adrenosterone
alochlor
alpha-cyano-3-hydroxycinnamic acid
AM-580
aminoacridine
aminogenistein
aminophenazone
amoxapine
anthraquinone
apoptosis activator II
arachidonic acid
artemisinin
BAY 11-7082
bemegride
benzbromarone
benzo(a)pyrene
benzopurpurine 4B
bergaptene
beta-peltatin
boldine
BRD-A98378129
BRD-A98725278
BRD-A98888138
BRD-K00206590
BRD-K00312224
BRD-K00313803
BRD-K00610438
BRD-K00662280
BRD-K00675675
BRD-K00676343
BRD-K01648091
BRD-K02283807
BRD-K02590140
BRD-K03015355
BRD-K03109492
BRD-K03384561
BRD-K03470412
BRD-K03642198
BRD-K04414442
BRD-K05151076
BRD-K05181084
BRD-K05464208
BRD-K05977380
BRD-K06014311
BRD-K06024458
BRD-K06159959
BRD-K06221026
BRD-K06426971
BRD-K06439119
BRD-K07396820
BRD-K07507905
BRD-K08132273
BRD-K08438429
BRD-K08640512
BRD-K08890269
BRD-K08996725
BRD-K08998509
BRD-K09100418
BRD-K09132007
BRD-K09203354
BRD-K09549677
BRD-K10177585
BRD-K10505056
BRD-K10670311
BRD-K10673031
BRD-K11107424
BRD-K11373525
BRD-K11612998
BRD-K11634954
BRD-K11696279
BRD-K11911061
BRD-K11927976
BRD-K12120659
BRD-K12184470
BRD-K12336887
BRD-K12357156
BRD-K12932420
BRD-K14262397
BRD-K14441456
BRD-K14618467
BRD-K14767410
BRD-K14807180
BRD-K15196155
BRD-K15424032
BRD-K15522385
BRD-K15588452
BRD-K15601958
BRD-K15616905
BRD-K15791587
BRD-K15933101
BRD-K16444452
BRD-K16551401
BRD-K16695519
BRD-K17693482
BRD-K17705806
BRD-K17796732
BRD-K17874705
BRD-K17896185
bromocriptine
BTCP hydrochloride
butein
butylparaben
caffeine
carbenoxolone
catechin pentabenzoate
CDC
cefdinir
cefoperazone
cefotiam
cefuroxime
celecoxib
chloroxylenol
ciclosporin
cinnarizine
cinoxacin
ciprofloxacin
clebopride
clemizole
clioquinol
clofoctol
clopamide
cloprostenol
CLOTHIAPINE
clotrimazole
cloxacillin
colchicine
corynanthine
cosmosiin
curcumin
dantron
deferoxamine
deltaline
desoxypeganine
diazepam
diclofenac
dicloxacillin
difenidol
diflorasone diacetate
dihydrospatheliachromene
diloxanide furoate
DO 897/99
DOCOSATRIENOIC ACID (22:3 n-3)
dubinidine
emetine
equilin
esculin
estriol
ethisterone
ethyl everninate
eudesmic acid
famotidine
FCCP
fenbufen
fenoterol
FGIN-1-27
finasteride
florfenicol
fluconazole
fludroxycortide
FLUPERLAPINE
fluvastatin
furazolidone
gamolenic acid
gemfibrozil
glipizide
GSK-3beta inhibitor VI
GTP-14564
GW-405833
HA-1004
harmane
harmol
harmolol
hexylcaine
hispidin
Hoechst 33342
hydrochlorothiazide
imperatorin
indirubin
indole-3-carbinol
isokobusone
juarezic acid
kaempherol
KB-R7943
ketoprofen
kuhlmannin
L-701,252
L-701,324
L741,626
L-741,742
lasalocid
LE-135
L-erythro-MAPP
levofloxacin
limonin
linoleic acid
lovastatin
m-3M3-FBS
MCG-D0103
MEAD ethanolamide
meclofenoxate
MEK1/2 inhibitor
mephentermine
metacetamol
methiazole
METHYL-6,7-DIMETHOXY-4-ETHYL-beta-CARBOLINE-3-CARBOXYLATE
minaprine
minoxidil
MT-21
nadolol
nafcillin
naringin
NBQX
N-DESMETHYLCLOZAPINE
neocuproine
nialamide
nobiletin
nocodazole
norfloxacin
NU7026
oxybuprocaine
oxymetazoline
pachyrrhizin
papaverine hydrochloride
PAPP
parbendazole
PDMP
penitrem A
pentoxyverine
pepstatin
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phenanthridone
phenformin
phenylbutazone
pimozide
pindolol
pipemidic acid
piperidolate
pirinixic acid
PP3
pridinol
promazine
propanil
propranolol
prostaglandin A1
protein tyrosine phosphatase inhibitor IV
psoromic acid
ptaeroxylin
PXD101
pyrazolanthrone
Quinerolane
R(-)-2,10,11-trihydroxy-N-propyl-noraporphine
raclopride
resveratrol 4'-methyl ether
R(-)-N-allylnorapomorphine
RO 31-8220
roscovitine
rotenone
R(-)-propylnorapomorphine
RS-23597-190
rutilantinone
salicyl alcohol
saquinavir
SC-10
SCH-79797
SDZ-205557
selinidin
sericetin
sericetin dimethyl ether
S-(+)-ibuprofen
simazine
SR 57227A[4-amino-1-(6-chloro-2-pyridyl)-piperidine hydrochloride]
succinylsulfathiazole
sulfadimidine
sulfamethoxypyridazine
sulfamonomethoxine
sulfaphenazole
sulfathiazole
syrosingopine
tanshinone IIA
telenzepine
terguride
tetrandrine
thioproperazine
thiotepa
ticlopidine hydrochloride
timolol
TPEN
tremorine
trimethoprim
triprolidine
tubocurarine chloride
tyrphostin AG-1288
tyrphostin AG 538
tyrphostin AG 82
tyrphostin AG 835
tyrphostin B44
valdecoxib
velnacrine
veratric acid
vesamicol
vincristine
xylometazoline
YS-035
zaprinast
ZL3VS