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:46267*  Cite 
Description

Plate 26670 - 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/W9CIL46267
Archival Resource Key (ARK)
ark:/b7295/w9cil46267
Compounds
BRD-K00697836
BRD-K00754679
BRD-K01520647
BRD-K01798544
BRD-K02602944
BRD-K03515977
BRD-K04061325
BRD-K04147035
BRD-K04643052
BRD-K05643885
BRD-K05649470
BRD-K05657439
BRD-K05717370
BRD-K06482871
BRD-K06832445
BRD-K07591847
BRD-K08171986
BRD-K08394807
BRD-K08477148
BRD-K08707982
BRD-K09416407
BRD-K09817289
BRD-K09876067
BRD-K09880340
BRD-K09927308
BRD-K10600561
BRD-K10701104
BRD-K10837140
BRD-K11345845
BRD-K11436949
BRD-K12805419
BRD-K12981857
BRD-K13094522
BRD-K13272610
BRD-K13417398
BRD-K13544395
BRD-K13896696
BRD-K14302953
BRD-K14336497
BRD-K14356681
BRD-K14437503
BRD-K14622703
BRD-K15420741
BRD-K15912020
BRD-K15989099
BRD-K16113530
BRD-K16512302
BRD-K16794723
BRD-K17427497
BRD-K17546203
BRD-K18481678
BRD-K19054042
BRD-K19073426
BRD-K19558952
BRD-K19593593
BRD-K19645992
BRD-K20016217
BRD-K20191348
BRD-K20736932
BRD-K20793945
BRD-K20827972
BRD-K20954269
BRD-K21216453
BRD-K21230248
BRD-K22846014
BRD-K22863062
BRD-K23051555
BRD-K23091084
BRD-K23406211
BRD-K24164383
BRD-K24522647
BRD-K24680618
BRD-K25736729
BRD-K25755601
BRD-K25799352
BRD-K26199553
BRD-K27113545
BRD-K27237215
BRD-K27433204
BRD-K28001738
BRD-K28149578
BRD-K28589277
BRD-K29390829
BRD-K29802265
BRD-K31122916
BRD-K31422806
BRD-K32030161
BRD-K32083350
BRD-K32106123
BRD-K32503834
BRD-K33064169
BRD-K34007913
BRD-K34553907
BRD-K34940426
BRD-K35562235
BRD-K36701739
BRD-K37284732
BRD-K37451830
BRD-K38370145
BRD-K39779204
BRD-K39812368
BRD-K40425733
BRD-K41028488
BRD-K41215666
BRD-K37526905
BRD-K37537598
BRD-K41767152
BRD-K42365464
BRD-K42379673
BRD-K43036943
BRD-K43179840
BRD-K43407975
BRD-K43411248
BRD-K43771394
BRD-K44911253
BRD-K45466167
BRD-K45466793
BRD-K45525014
BRD-K46017924
BRD-K46118045
BRD-K46120075
BRD-K46407773
BRD-K46751125
BRD-K46811158
BRD-K47204106
BRD-K47423282
BRD-K47663354
BRD-K48257023
BRD-K49178877
BRD-K49299173
BRD-K49383373
BRD-K49620695
BRD-K49640920
BRD-K50570214
BRD-K50670216
BRD-K50949213
BRD-K51147043
BRD-K51640940
BRD-K51826244
BRD-K52303942
BRD-K52379384
BRD-K52918979
BRD-K53193280
BRD-K54022924
BRD-K54565270
BRD-K55106539
BRD-K55251364
BRD-K55813437
BRD-K56325098
BRD-K57228329
BRD-K57476701
BRD-K58129723
BRD-K58524976
BRD-K58593815
BRD-K58679476
BRD-K59352217
BRD-K59455917
BRD-K59689930
BRD-K59793998
BRD-K60807183
BRD-K61161989
BRD-K61519911
BRD-K62123687
BRD-K62124038
BRD-K62366931
BRD-K62395041
BRD-K62902932
BRD-K63753040
BRD-K64937432
BRD-K65160163
BRD-K65541951
BRD-K65729053
BRD-K65761985
BRD-K65836281
BRD-K66602457
BRD-K66860235
BRD-K67086788
BRD-K68303822
BRD-K68908437
BRD-K69097792
BRD-K69425327
BRD-K69493165
BRD-K69521358
BRD-K71533863
BRD-K71761800
BRD-K72383170
BRD-K72956282
BRD-K73228437
BRD-K73517214
BRD-K74043769
BRD-K74066682
BRD-K74101931
BRD-K74152422
BRD-K74530260
BRD-K74732057
BRD-K74799293
BRD-K74835229
BRD-K75882457
BRD-K75990896
BRD-K76595742
BRD-K76991985
BRD-K77318689
BRD-K78247419
BRD-K78704198
BRD-K78845122
BRD-K79025148
BRD-K79900369
BRD-K80201761
BRD-K80313395
BRD-K81054062
BRD-K82019527
BRD-K82150563
BRD-K82332258
BRD-K82494420
BRD-K82779934
BRD-K83058591
BRD-K83183082
BRD-K84061726
BRD-K84307821
BRD-K84368021
BRD-K84443834
BRD-K84673192
BRD-K85072179
BRD-K85568664
BRD-K85656047
BRD-K85689251
BRD-K85727265
BRD-K86530412
BRD-K86578973
BRD-K86654865
BRD-K86684694
BRD-K87539610
BRD-K87688096
BRD-K87758256
BRD-K87833465
BRD-K87838848
BRD-K88272013
BRD-K88990907
BRD-K88995397
BRD-K89332300
BRD-K89440651
BRD-K89507938
BRD-K89960068
BRD-K90004145
BRD-K90496835
BRD-K90562112
BRD-K90671064
BRD-K90781287
BRD-K91834385
BRD-K92399508
BRD-K92770212
BRD-K93406741
BRD-K93666423
BRD-K93680063
BRD-K93681700
BRD-K93736495
BRD-K94081674
BRD-K96779965
BRD-K97031447
BRD-K97165733
BRD-K97258019
BRD-K97865175
BRD-K99299141
BRD-K99327410
BRD-K99786514
BRD-M03817478
BRD-M08461891
BRD-M09121311
BRD-M12376605
BRD-M17304464
BRD-M18093923
BRD-M18345234
BRD-M20534100
BRD-M22422412
BRD-M23605671
BRD-M24732042
BRD-M28080892
BRD-M29192968
BRD-M31111440
BRD-M31871110
BRD-M32495507
BRD-M39787390
BRD-M40773246
BRD-M41154708
BRD-M41610223
BRD-M45350951
BRD-M51208417
BRD-M51239075
BRD-M53302603
BRD-M53346459
BRD-M54814689
BRD-M56188090
BRD-M58692868
BRD-M60886831
BRD-M63389385
BRD-M64817521
BRD-M65187017
BRD-M69191681
BRD-M69929484
BRD-M70861773
BRD-M73564418
BRD-M76499661
BRD-M76969896
BRD-M77293869
BRD-M78319284
BRD-M80240720
BRD-M85886474
BRD-M85914958
BRD-M87776818
BRD-M88044810
BRD-M88324697
BRD-M88429329
BRD-M90541854
BRD-M91342002
BRD-M91876180
BRD-M92802283
BRD-M94053246
BRD-M95331451
BRD-M95763088
BRD-M97109212