Alternate header for print version


Licensing
Public Domain: This image is in the public domain and thus free of any copyright restrictions. However, as is the norm in scientific publishing and as a matter of courtesy, any user should credit the content provider for any public or private use of this image whenever possible. Learn more
tweet  
*CIL – Cell Image Library accession number. Please use this to reference an image.

CIL:45883*  Cite 
Description

Plate 25594 - 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/W9CIL45883
Archival Resource Key (ARK)
ark:/b7295/w9cil45883
Compounds
1-(2,3-dihydro-1H-indol-1-yl)-2-(phenylsulfanyl)-1-ethanone
BRD-A00522887
BRD-A00881124
BRD-A01717111
BRD-A01848933
BRD-A03121430
BRD-A03940741
BRD-A05883068
BRD-A06327019
BRD-A06837695
BRD-A07214340
BRD-A07861932
BRD-A08191729
BRD-A09115727
BRD-A11350423
BRD-A16313205
BRD-A17635048
BRD-A19766589
BRD-A19962819
BRD-A20213616
BRD-A20305532
BRD-A20463452
BRD-A24223049
BRD-A24369193
BRD-A26165232
BRD-A28219573
BRD-A30758703
BRD-A32018906
BRD-A36938160
BRD-A40010674
BRD-A41208012
BRD-A43575461
BRD-A45349889
BRD-A47109850
BRD-A47798787
BRD-A48228341
BRD-A52024592
BRD-A52729710
BRD-A52749901
BRD-A54389315
BRD-A54490075
BRD-A54769817
BRD-A55411938
BRD-A57474391
BRD-A57762296
BRD-A61522392
BRD-A61767497
BRD-A62469171
BRD-A64774838
BRD-A74615450
BRD-A75087829
BRD-A75607876
BRD-A77181042
BRD-A78125048
BRD-A80723361
BRD-A81879813
BRD-A88691416
BRD-A89354030
BRD-A89575866
BRD-A90450579
BRD-A94465834
BRD-A94885304
BRD-A95442017
BRD-A96308662
BRD-A98714080
BRD-A98795688
BRD-A99445203
BRD-A99990159
BRD-K00883748
BRD-K01314849
BRD-K01377768
BRD-K02065805
BRD-K02241673
BRD-K02866760
BRD-K03361106
BRD-K03857568
BRD-K05086663
BRD-K05261060
BRD-K05392698
BRD-K05462252
BRD-K05471809
BRD-K06117861
BRD-K06208863
BRD-K06330738
BRD-K06408981
BRD-K06489778
BRD-K07160586
BRD-K07313741
BRD-K07350528
BRD-K07615667
BRD-K07794261
BRD-K08036779
BRD-K08259535
BRD-K08489825
BRD-K08679933
BRD-K08702524
BRD-K08723967
BRD-K09108485
BRD-K09721123
BRD-K09878843
BRD-K10191318
BRD-K10211218
BRD-K10684867
BRD-K10798676
BRD-K11342801
BRD-K11636255
BRD-K12035825
BRD-K12460566
BRD-K12918607
BRD-K13807637
BRD-K14166090
BRD-K15123815
BRD-K15620114
BRD-K15742845
BRD-K17372597
BRD-K17574409
BRD-K17649115
BRD-K17885598
BRD-K18000429
BRD-K18087940
BRD-K18334106
BRD-K19387722
BRD-K19702946
BRD-K19770687
BRD-K21201014
BRD-K21313369
BRD-K21678546
BRD-K21819164
BRD-K21936026
BRD-K21969044
BRD-K22063616
BRD-K22185032
BRD-K22215695
BRD-K22701871
BRD-K22812176
BRD-K23029982
BRD-K23196166
BRD-K23430405
BRD-K23868551
BRD-K23957028
BRD-K24382357
BRD-K24532125
BRD-K25465939
BRD-K25805580
BRD-K26122955
BRD-K26200833
BRD-K26233698
BRD-K26844643
BRD-K27354087
BRD-K27949240
BRD-K29726765
BRD-K29850806
BRD-K30198800
BRD-K30217326
BRD-K30326216
BRD-K30865566
BRD-K30963311
BRD-K31536290
BRD-K32084247
BRD-K32124229
BRD-K32191695
BRD-K32881384
BRD-K33775409
BRD-K34069025
BRD-K34228325
BRD-K35724671
BRD-K35848924
BRD-K35909757
BRD-K36324810
BRD-K36397874
BRD-K38118311
BRD-K38358574
BRD-K38536183
BRD-K38831170
BRD-K38935430
BRD-K39773004
BRD-K39858575
BRD-K40001470
BRD-K40206099
BRD-K40649636
BRD-K41620124
BRD-K41798816
BRD-K42181022
BRD-K42797038
BRD-K44103530
BRD-K44705560
BRD-K44799944
BRD-K45677957
BRD-K45894579
BRD-K45969405
BRD-K46124507
BRD-K48020855
BRD-K48533326
BRD-K48899005
BRD-K49184477
BRD-K49292348
BRD-K49328983
BRD-K49473928
BRD-K49584663
BRD-K49666076
BRD-K50066702
BRD-K50068274
BRD-K50092006
BRD-K50700697
BRD-K51490301
BRD-K51546355
BRD-K51608228
BRD-K52473839
BRD-K52924481
BRD-K53547009
BRD-K54850621
BRD-K55104181
BRD-K55665639
BRD-K56013842
BRD-K56381552
BRD-K56431031
BRD-K56562541
BRD-K56572622
BRD-K57382977
BRD-K58930048
BRD-K59491389
BRD-K59560948
BRD-K59955428
BRD-K60907484
BRD-K61072684
BRD-K61247793
BRD-K61432982
BRD-K61681480
BRD-K61909412
BRD-K62325456
BRD-K63299069
BRD-K63614330
BRD-K64424704
BRD-K65112040
BRD-K65437543
BRD-K65824451
BRD-K66327237
BRD-K66375698
BRD-K66541877
BRD-K66717300
BRD-K66870022
BRD-K67007076
BRD-K67036882
BRD-K67950754
BRD-K69543414
BRD-K70057550
BRD-K71514806
BRD-K71592817
BRD-K72310865
BRD-K72591075
BRD-K73095160
BRD-K73523821
BRD-K73587666
BRD-K74665927
BRD-K74688087
BRD-K74948793
BRD-K75038426
BRD-K75130046
BRD-K75164441
BRD-K75260889
BRD-K75506133
BRD-K75772626
BRD-K76065617
BRD-K76541957
BRD-K76985713
BRD-K77490065
BRD-K77634326
BRD-K78074905
BRD-K78217087
BRD-K79179851
BRD-K79551673
BRD-K79877849
BRD-K80232129
BRD-K80332123
BRD-K81322049
BRD-K81463178
BRD-K81954791
BRD-K81997160
BRD-K83127279
BRD-K83270677
BRD-K83603369
BRD-K83715372
BRD-K85475457
BRD-K85656316
BRD-K86232198
BRD-K88388723
BRD-K88418404
BRD-K89278382
BRD-K89574562
BRD-K89650689
BRD-K90238417
BRD-K90562751
BRD-K90797575
BRD-K90956468
BRD-K91148820
BRD-K91810283
BRD-K92134254
BRD-K92176613
BRD-K92378241
BRD-K92712671
BRD-K92722247
BRD-K92981306
BRD-K93316985
BRD-K93391478
BRD-K93752373
BRD-K93811242
BRD-K94385157
BRD-K94443754
BRD-K94833531
BRD-K96758498
BRD-K97276563
BRD-K97337407
BRD-K97761115
BRD-K98201103
BRD-K98374711
BRD-K98772859
BRD-K98940411
BRD-K99944747
BRD-M34385771
salicylic acid