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:46278*  Cite 
Description

Plate 26782 - 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/W9CIL46278
Archival Resource Key (ARK)
ark:/b7295/w9cil46278
Compounds
BRD-K00113100
BRD-K00224166
BRD-K00411687
BRD-K00549983
BRD-K00918977
BRD-K01202062
BRD-K01383339
BRD-K01607762
BRD-K02058097
BRD-K02189204
BRD-K02217114
BRD-K02222982
BRD-K02322717
BRD-K02522894
BRD-K03077507
BRD-K03222452
BRD-K03445781
BRD-K03601317
BRD-K04025047
BRD-K04630954
BRD-K05050883
BRD-K06217925
BRD-K06418154
BRD-K06714535
BRD-K07157902
BRD-K07323881
BRD-K07522124
BRD-K07572455
BRD-K07625901
BRD-K07634536
BRD-K07790303
BRD-K08078340
BRD-K08247301
BRD-K08371414
BRD-K08377525
BRD-K08936794
BRD-K09936924
BRD-K10578928
BRD-K10844902
BRD-K12279187
BRD-K12805559
BRD-K12858756
BRD-K13448237
BRD-K13626871
BRD-K13782405
BRD-K13983359
BRD-K14385562
BRD-K14395166
BRD-K14854082
BRD-K15230829
BRD-K15377376
BRD-K15535200
BRD-K15793745
BRD-K15966733
BRD-K16034108
BRD-K16422757
BRD-K16724492
BRD-K16782389
BRD-K17139153
BRD-K17906992
BRD-K18351060
BRD-K18456137
BRD-K18767302
BRD-K19190776
BRD-K19405573
BRD-K19933506
BRD-K19995388
BRD-K20763692
BRD-K20978396
BRD-K21904592
BRD-K22494201
BRD-K22508185
BRD-K23033683
BRD-K23153756
BRD-K23557133
BRD-K23589333
BRD-K23680395
BRD-K24058148
BRD-K24123159
BRD-K23753356
BRD-K24578841
BRD-K24781398
BRD-K25471349
BRD-K25940840
BRD-K25963301
BRD-K26041656
BRD-K26125024
BRD-K26862321
BRD-K27343142
BRD-K27744061
BRD-K27798440
BRD-K28738449
BRD-K29528387
BRD-K29642180
BRD-K29785053
BRD-K29957577
BRD-K30199293
BRD-K30270755
BRD-K30737452
BRD-K31369513
BRD-K31920348
BRD-K32322802
BRD-K32345392
BRD-K32655366
BRD-K32882027
BRD-K33490627
BRD-K33610498
BRD-K33778189
BRD-K33909884
BRD-K34392222
BRD-K35243934
BRD-K35400569
BRD-K36424197
BRD-K36962815
BRD-K37551767
BRD-K38210246
BRD-K38232832
BRD-K38290133
BRD-K38405570
BRD-K38870294
BRD-K39447340
BRD-K39988373
BRD-K40219191
BRD-K40358966
BRD-K37554272
BRD-K37589876
BRD-K41404328
BRD-K41540007
BRD-K41579429
BRD-K41723088
BRD-K42140123
BRD-K42207609
BRD-K42709418
BRD-K43108514
BRD-K43283393
BRD-K43851624
BRD-K43862194
BRD-K43939579
BRD-K43982847
BRD-K44029733
BRD-K44080306
BRD-K44482328
BRD-K44787412
BRD-K45077070
BRD-K45595662
BRD-K46065939
BRD-K46965430
BRD-K47284302
BRD-K47303556
BRD-K48710616
BRD-K49283005
BRD-K49512493
BRD-K49525301
BRD-K49634971
BRD-K50120786
BRD-K50131741
BRD-K50171542
BRD-K50887310
BRD-K51164971
BRD-K51322285
BRD-K51774400
BRD-K52203672
BRD-K52831370
BRD-K53181055
BRD-K53912655
BRD-K54327934
BRD-K54652275
BRD-K55009937
BRD-K55313038
BRD-K56130969
BRD-K56328447
BRD-K56535275
BRD-K56763965
BRD-K56805970
BRD-K56864693
BRD-K56865671
BRD-K57502578
BRD-K57754556
BRD-K58439833
BRD-K58514045
BRD-K58679238
BRD-K58945843
BRD-K58958454
BRD-K59725859
BRD-K59867372
BRD-K60298771
BRD-K60595380
BRD-K61415682
BRD-K61881697
BRD-K61997144
BRD-K62455331
BRD-K62734359
BRD-K62836482
BRD-K63164430
BRD-K63270290
BRD-K63532493
BRD-K63827443
BRD-K63987424
BRD-K64391475
BRD-K64619734
BRD-K65418120
BRD-K65657366
BRD-K65909937
BRD-K65927786
BRD-K66033125
BRD-K66299073
BRD-K66775134
BRD-K67058688
BRD-K67697926
BRD-K67983441
BRD-K68445037
BRD-K68749296
BRD-K68780601
BRD-K69178842
BRD-K69548259
BRD-K70003473
BRD-K70166659
BRD-K70200040
BRD-K70617194
BRD-K70631162
BRD-K70653194
BRD-K70663894
BRD-K70797508
BRD-K70861166
BRD-K71100175
BRD-K71278614
BRD-K71540580
BRD-K71650306
BRD-K72109199
BRD-K72150200
BRD-K72217541
BRD-K72352929
BRD-K72620090
BRD-K72772617
BRD-K72780683
BRD-K72980353
BRD-K73082254
BRD-K73166612
BRD-K73627655
BRD-K74428993
BRD-K74548617
BRD-K74702716
BRD-K75425370
BRD-K75639577
BRD-K75732649
BRD-K76358141
BRD-K76436920
BRD-K76624532
BRD-K76637414
BRD-K76665419
BRD-K76665741
BRD-K76729250
BRD-K78023266
BRD-K79437423
BRD-K79490177
BRD-K80408519
BRD-K80559952
BRD-K80741006
BRD-K80806285
BRD-K80852934
BRD-K81666293
BRD-K82154894
BRD-K83016905
BRD-K83341069
BRD-K83391808
BRD-K83600073
BRD-K84391460
BRD-K84853311
BRD-K85616320
BRD-K85930698
BRD-K85932041
BRD-K86162390
BRD-K86265052
BRD-K86619642
BRD-K86671899
BRD-K87838487
BRD-K88361133
BRD-K88602713
BRD-K88607897
BRD-K88786596
BRD-K88797027
BRD-K88967430
BRD-K89266502
BRD-K89412540
BRD-K89491100
BRD-K89631978
BRD-K89644093
BRD-K89692527
BRD-K90141430
BRD-K90305015
BRD-K90546933
BRD-K90680884
BRD-K91758467
BRD-K92754298
BRD-K92860459
BRD-K93301765
BRD-K93487374
BRD-K94243176
BRD-K94509791
BRD-K94646939
BRD-K94708051
BRD-K95021846
BRD-K95204731
BRD-K95328825
BRD-K95650611
BRD-K95917977
BRD-K96044609
BRD-K96047861
BRD-K96569047
BRD-K96707310
BRD-K97048125
BRD-K97196700
BRD-K97585006
BRD-K98036459
BRD-K98668154
BRD-K98956791
BRD-K99149118
BRD-K99547414
BRD-K99615821
BRD-K99647384