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

CIL:45972*  Cite 
Description

Plate 25985 - 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/W9CIL45972
Archival Resource Key (ARK)
ark:/b7295/w9cil45972
Compounds
1-[1-(2-BENZO[B]THIENYL)CYCLOHEXYL]PYRROLIDINE
1-(2-METHOXYPHENYL)-4-(4-SUCCINIMIDOBUTYL)PIPERAZINE
1-(4'-AMINOPHENYL)-3,5-DIHYDRO-7,8-DIMETHOXY-4H-2,3-BENZODIAZEPIN-4-ONE
3'-FLUOROBENZYLSPIPERONE
4a-phorbol
4-methyldaphnetin
5,7-dichlorokynurenic acid
6,3'-dimethoxyflavone
6-methoxyharmalan
7-(chloroethyl)theophylline
8-methoxymethyl-IBMX
A-3
acetazolamide
acetohexamide
acetylsalicylsalicylic acid
acetyltryptophan
alfadolone acetate
alfaxalone
aloisine
alprostadil
ambroxol
Amino-1,8-naphthalimide [4-Amino-1,8-naphthalimide]
amitriptyline
ANANDAMIDE (20:4, n-6)
ANPIRTOLINE
apiin
atrazine
azaperone
azlocillin
benazepril
benzylpenicillin
betulinic acid
bezafibrate
bisindolylmaleimide IV
BP 554
BRD-K40782193
BRD-K41143549
BRD-K37537261
BRD-K41431477
BRD-K41564320
BRD-K41567364
BRD-K41853443
BRD-K41869275
BRD-K42452249
BRD-K42500029
BRD-K42663584
BRD-K42679050
BRD-K42693031
BRD-K42748308
BRD-K43068349
BRD-K43330982
BRD-K43744935
BRD-K43796186
BRD-K44309363
BRD-K45042519
BRD-K45117373
BRD-K45296539
BRD-K45437867
BRD-K46384212
BRD-K46469693
BRD-K46766488
BRD-K47150025
BRD-K47328134
BRD-K47337578
BRD-K47659338
BRD-K47717570
BRD-K47895166
BRD-K48059230
BRD-K48213854
BRD-K48300629
BRD-K48311056
BRD-K48629186
BRD-K48684885
BRD-K48735772
BRD-K49027941
BRD-K49049886
BRD-K49119234
BRD-K49236613
BRD-K49294207
BRD-K49519092
BRD-K49745710
BRD-K49759007
BRD-K49890030
BRD-K49945136
BRD-K50325075
BRD-K50837542
BRD-K51541829
BRD-K51557114
BRD-K51575138
BRD-K51918615
BRD-K52219182
BRD-K52394958
BRD-K52397688
BRD-K52512893
BRD-K53523901
BRD-K53545112
BRD-K53878242
BRD-K53979406
BRD-K54095730
BRD-K54233340
BRD-K54554531
BRD-K54704028
BRD-K54708045
BRD-K55160477
BRD-K55344148
BRD-K55430733
BRD-K55677650
BRD-K55748775
BRD-K56115039
BRD-K56231354
BRD-K56403959
BRD-K56429665
BRD-K56509348
BRD-K57244822
BRD-K57304726
BRD-K58299615
BRD-K58336011
BRD-K59184148
BRD-K59332007
BRD-K59333713
BRD-K59419204
BRD-K59637651
BRD-K59650319
BRD-K59765110
BRD-K60060639
BRD-K60298136
BRD-K60511616
BRD-K61097567
bromhexine
butylated hydroxytoluene
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C2 ceramide
calycanthine
canrenoic acid
capsazepine
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CHLORMETHIAZOLE
chlorogenic acid
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CITCO
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coumafos
crotamiton
CYANOPINDOLOL(+)
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cyclopamine
danazol
daunorubicin
dephostatin
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dexamethasone acetate
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dilazep
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dipyrocetyl
dosulepin
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duartin
E-4031
E6 berbamine
emodin
enalapril
epicatechin monogallate
esculetin
estropipate
eticlopride
evoxine
famciclovir
fenbendazole
fenofibrate
flavoxate
flufenamic acid
flunisolide
fluocinonide
formononetin
furegrelate
galantamine
gangaleoidin
GBR 12935
gentisic acid
glycocholic acid
GR 103691
GR 55562
hexamethyleneamiloride
HHBPDDE
hycanthone methanesulfonate
hymecromone
hymecromone methyl ether
icosapent
indometacin
iobenguane
irigenin,7-benzyl ether
irigenin,dibenzyl ether
ketanserin
koparin 2'-methyl ether
lidocaine
L-phenylalaninol
lupinine
MDL-28170
MDL 29951
meclofenamic acid
medrysone
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MG-132
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NS-1619
NU 1025
oxalamine
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paracetamol
PCO-400
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pentetrazol
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PP1
pramocaine
prazosin
prednicarbate
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protriptyline
purvalanol A
QX 314
R 59022
R(+)-6-bromo-APB
(R)-(+)-atenolol
remoxipride
rescinnamine
RHC-80267
risperidone
ritanserin
ritodrine
Ro 04-6790 dihydrochloride[4-Amino-N-[2,6-bis(methylamino)-4-pyrimidinyl]-benzenesulfonamide dihydrochloride]
RO-16-6941
robustic acid
RS 67333
RS 67506
santonin
SB-202190
SCH-23390
spiperone
Src kinase inhibitor I
ST638
sulfabenzamide
sulfadoxine
sulfaethidole
sulfafurazole
sulfapyridine
suloctidil
sulpiride
syringic acid
tacedinaline
TAS 301
tetracaine
tiapride
tioxolone
TMB 8
tolazoline
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tolnaftate
trioxysalen
tripelannamine
tyramine
tyrphostin 1
tyrphostin 46
tyrphostin 51
tyrphostin-8
tyrphostin AG 1295
tyrphostin AG 18
tyrphostin AG 527
tyrphostin AG879
tyrphostin B42
U-50488
ubenimex
valaciclovir
valsartan
VERATRIDINE
vinpocetine
W-13
W-5
WHI-P154
Y27632
YC-1
zimelidine
zolpidem
Z-prolyl-prolinal