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:46019*  Cite 
Description

Plate 26271 - 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/W9CIL46019
Archival Resource Key (ARK)
ark:/b7295/w9cil46019
Compounds
BRD-A00776891
BRD-A01717918
BRD-A03764094
BRD-A05823365
BRD-A06149038
BRD-A06158172
BRD-A06578049
BRD-A08759443
BRD-A08820802
BRD-A11130173
BRD-A13210451
BRD-A14424697
BRD-A16119053
BRD-A20731954
BRD-A23345137
BRD-A24714998
BRD-A26952628
BRD-A28153253
BRD-A30962679
BRD-A32128687
BRD-A37105798
BRD-A42246453
BRD-A42433574
BRD-A43164341
BRD-A44068497
BRD-A44990218
BRD-A47137250
BRD-A47416464
BRD-A48913311
BRD-A51540388
BRD-A52377240
BRD-A53463743
BRD-A55408860
BRD-A55722685
BRD-A57285050
BRD-A57457448
BRD-A61778798
BRD-A63342325
BRD-A64237946
BRD-A65592966
BRD-A67521865
BRD-A68949340
BRD-A71666580
BRD-A71722688
BRD-A71880598
BRD-A73590800
BRD-A74152721
BRD-A75421526
BRD-A77328129
BRD-A78355490
BRD-A78982410
BRD-A80035237
BRD-A81407814
BRD-A84764193
BRD-A85231803
BRD-A89471191
BRD-A94740628
BRD-A96183603
BRD-A96334094
BRD-A96537953
BRD-K00377328
BRD-K00914921
BRD-K01121723
BRD-K02159791
BRD-K02274100
BRD-K03791970
BRD-K04108962
BRD-K05940224
BRD-K06152379
BRD-K06250424
BRD-K06428422
BRD-K06830450
BRD-K07383982
BRD-K07484899
BRD-K07706477
BRD-K09146396
BRD-K09663164
BRD-K10181552
BRD-K10705624
BRD-K11275619
BRD-K11442063
BRD-K11757577
BRD-K12239796
BRD-K12306640
BRD-K12782513
BRD-K12925598
BRD-K13086002
BRD-K13190943
BRD-K13788250
BRD-K14813771
BRD-K15393664
BRD-K16387460
BRD-K16800391
BRD-K17416171
BRD-K17956418
BRD-K18296568
BRD-K18600476
BRD-K18635665
BRD-K19196783
BRD-K19536737
BRD-K19645475
BRD-K19817946
BRD-K20024676
BRD-K20061970
BRD-K20733942
BRD-K20829034
BRD-K21036759
BRD-K21125528
BRD-K21355275
BRD-K21409337
BRD-K22069962
BRD-K22338979
BRD-K22418614
BRD-K22608982
BRD-K22797212
BRD-K24312231
BRD-K24387453
BRD-K24523560
BRD-K24977393
BRD-K25256659
BRD-K25638876
BRD-K25954314
BRD-K26582498
BRD-K26634905
BRD-K27147269
BRD-K27484191
BRD-K28017317
BRD-K28140029
BRD-K28433349
BRD-K28483134
BRD-K28753508
BRD-K28774883
BRD-K29418729
BRD-K29475348
BRD-K29975122
BRD-K30013451
BRD-K30173809
BRD-K30530468
BRD-K30699866
BRD-K30799912
BRD-K30910725
BRD-K31242007
BRD-K31783598
BRD-K32000549
BRD-K32146668
BRD-K32506050
BRD-K33767223
BRD-K34377350
BRD-K34447537
BRD-K34858602
BRD-K35098144
BRD-K35975002
BRD-K36111748
BRD-K36208388
BRD-K36941678
BRD-K37019305
BRD-K37055068
BRD-K37203382
BRD-K37253893
BRD-K37515001
BRD-K37656403
BRD-K38704569
BRD-K38713368
BRD-K39013648
BRD-K39029546
BRD-K39227064
BRD-K39267096
BRD-K39318389
BRD-K39809702
BRD-K39961819
BRD-K40001806
BRD-K40220562
BRD-K40276277
BRD-K40776502
BRD-K37507363
BRD-K37582866
BRD-K41662297
BRD-K43624274
BRD-K44212150
BRD-K44426506
BRD-K44483161
BRD-K44548010
BRD-K45222498
BRD-K45398957
BRD-K45519638
BRD-K45947503
BRD-K46269666
BRD-K46298577
BRD-K47084999
BRD-K47881755
BRD-K48143921
BRD-K48691513
BRD-K48756106
BRD-K49443464
BRD-K49681465
BRD-K50210179
BRD-K50721666
BRD-K50815029
BRD-K51608472
BRD-K51754677
BRD-K52731958
BRD-K53095870
BRD-K53544328
BRD-K54067431
BRD-K54198678
BRD-K54751293
BRD-K54872884
BRD-K55220938
BRD-K56253099
BRD-K56408846
BRD-K56890200
BRD-K57457519
BRD-K57734337
BRD-K57778236
BRD-K57782577
BRD-K58193973
BRD-K58762810
BRD-K59507746
BRD-K59571728
BRD-K59744424
BRD-K59747214
BRD-K59957885
BRD-K59975583
BRD-K60131990
BRD-K60772078
BRD-K60781525
BRD-K61027868
BRD-K61039403
BRD-K61660466
BRD-K61924304
BRD-K62226454
BRD-K62309465
BRD-K62504352
BRD-K62758843
BRD-K63584084
BRD-K63743653
BRD-K63859730
BRD-K63997411
BRD-K65228230
BRD-K66030669
BRD-K66434795
BRD-K66675422
BRD-K66909712
BRD-K67426191
BRD-K67478255
BRD-K68072222
BRD-K68459574
BRD-K69347147
BRD-K69468381
BRD-K70941976
BRD-K71194915
BRD-K71296038
BRD-K72034681
BRD-K73176613
BRD-K73296174
BRD-K74114857
BRD-K74176533
BRD-K75380271
BRD-K76125116
BRD-K76645599
BRD-K76755209
BRD-K77177732
BRD-K77320034
BRD-K77343050
BRD-K78615842
BRD-K78866630
BRD-K78907873
BRD-K79561909
BRD-K80851151
BRD-K80858297
BRD-K81124412
BRD-K81200901
BRD-K81522725
BRD-K81821040
BRD-K83125173
BRD-K83690550
BRD-K83708628
BRD-K83898111
BRD-K83952475
BRD-K84246050
BRD-K84348716
BRD-K84769529
BRD-K84794783
BRD-K84836394
BRD-K86677819
BRD-K86774687
BRD-K87929769
BRD-K87951090
BRD-K88016677
BRD-K88478877
BRD-K90151990
BRD-K90284572
BRD-K90358614
BRD-K90444258
BRD-K91084609
BRD-K91094364
BRD-K91180296
BRD-K91271834
BRD-K91421454
BRD-K91944762
BRD-K92374432
BRD-K92524823
BRD-K92794990
BRD-K93486796
BRD-K93491540
BRD-K93933512
BRD-K94629607
BRD-K94992087
BRD-K96560179
BRD-K96817767
BRD-K97526959
BRD-K97733472
BRD-K97921950
BRD-K97929312
BRD-K97977764
BRD-K98089885
BRD-K98408574
BRD-K98408839
BRD-K98889734
BRD-K99302735