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:45943*  Cite 
Description

Plate 25904 - 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/W9CIL45943
Archival Resource Key (ARK)
ark:/b7295/w9cil45943
Compounds
BRD-K00175211
BRD-K00262667
BRD-K00342680
BRD-K00544996
BRD-K01352631
BRD-K01979737
BRD-K02492147
BRD-K02545368
BRD-K03116835
BRD-K03727241
BRD-K03807141
BRD-K04395157
BRD-K04402444
BRD-K04585040
BRD-K04937680
BRD-K05481476
BRD-K05645732
BRD-K06155953
BRD-K06163447
BRD-K06380464
BRD-K07359994
BRD-K07456098
BRD-K07601300
BRD-K07678162
BRD-K08039553
BRD-K08173649
BRD-K08731287
BRD-K08926145
BRD-K08972808
BRD-K08995626
BRD-K09397553
BRD-K09623383
BRD-K09804899
BRD-K09845511
BRD-K10134498
BRD-K10270435
BRD-K10645566
BRD-K10721194
BRD-K10927790
BRD-K11097458
BRD-K12564766
BRD-K12718908
BRD-K12791594
BRD-K12857449
BRD-K12884539
BRD-K13002201
BRD-K13190592
BRD-K13275849
BRD-K13299591
BRD-K13304927
BRD-K13539834
BRD-K14151426
BRD-K14654869
BRD-K15477190
BRD-K16704189
BRD-K17742539
BRD-K18480277
BRD-K18947893
BRD-K19203541
BRD-K19325173
BRD-K19426893
BRD-K19466708
BRD-K19752742
BRD-K19890875
BRD-K19965545
BRD-K20121890
BRD-K20220643
BRD-K20307883
BRD-K20342806
BRD-K21472896
BRD-K21536131
BRD-K21643869
BRD-K21660676
BRD-K22109269
BRD-K22173650
BRD-K22181332
BRD-K22215387
BRD-K22562809
BRD-K22668950
BRD-K22778942
BRD-K23301583
BRD-K23872111
BRD-K23876588
BRD-K23911230
BRD-K24017250
BRD-K24084946
BRD-K24172839
BRD-K24277661
BRD-K24656059
BRD-K24742410
BRD-K25165092
BRD-K25234731
BRD-K25644061
BRD-K25688236
BRD-K25955619
BRD-K26127000
BRD-K26128727
BRD-K26399147
BRD-K26606423
BRD-K26862028
BRD-K27161987
BRD-K27483344
BRD-K27635561
BRD-K27699706
BRD-K27757818
BRD-K28421747
BRD-K28430035
BRD-K28540419
BRD-K28649344
BRD-K29063218
BRD-K29371459
BRD-K29452018
BRD-K29567467
BRD-K29911749
BRD-K30033690
BRD-K30377815
BRD-K30571172
BRD-K31099173
BRD-K31327364
BRD-K31462841
BRD-K31487253
BRD-K31705167
BRD-K31774852
BRD-K31830316
BRD-K32068846
BRD-K32453902
BRD-K32972218
BRD-K33711030
BRD-K34324287
BRD-K34839715
BRD-K34898196
BRD-K35035541
BRD-K35196676
BRD-K36160951
BRD-K36232819
BRD-K36250651
BRD-K36558227
BRD-K36618106
BRD-K37106459
BRD-K37684537
BRD-K38037265
BRD-K38481268
BRD-K40478655
BRD-K40892926
BRD-K40985138
BRD-K41096823
BRD-K41440211
BRD-K41597316
BRD-K41863121
BRD-K41927787
BRD-K42256568
BRD-K42960483
BRD-K43249401
BRD-K44029853
BRD-K44547539
BRD-K44760520
BRD-K44801029
BRD-K45138525
BRD-K45221651
BRD-K45358679
BRD-K45383509
BRD-K45919129
BRD-K46040098
BRD-K46155530
BRD-K47995524
BRD-K49931834
BRD-K50149017
BRD-K50657769
BRD-K51241952
BRD-K52473019
BRD-K52653383
BRD-K52938793
BRD-K52971351
BRD-K53421673
BRD-K54199214
BRD-K54202584
BRD-K54627309
BRD-K54792609
BRD-K54980807
BRD-K55078218
BRD-K55578148
BRD-K56298028
BRD-K56345641
BRD-K56943062
BRD-K58539957
BRD-K59183712
BRD-K59330510
BRD-K59598504
BRD-K59958061
BRD-K60092199
BRD-K60188503
BRD-K60201835
BRD-K60360711
BRD-K61388502
BRD-K61649900
BRD-K62039221
BRD-K62130095
BRD-K62143565
BRD-K62213032
BRD-K62456065
BRD-K62531236
BRD-K62917551
BRD-K63211622
BRD-K63269129
BRD-K63285694
BRD-K63366817
BRD-K63813530
BRD-K64120525
BRD-K64497770
BRD-K64556793
BRD-K64706654
BRD-K65368843
BRD-K66378473
BRD-K66910993
BRD-K67285049
BRD-K67328514
BRD-K67518269
BRD-K67673602
BRD-K68095812
BRD-K68737064
BRD-K69006460
BRD-K70237789
BRD-K70447364
BRD-K70581786
BRD-K70689011
BRD-K70765133
BRD-K70766049
BRD-K71035792
BRD-K71552149
BRD-K71799397
BRD-K72261411
BRD-K73061717
BRD-K73118655
BRD-K73127443
BRD-K73261664
BRD-K73340768
BRD-K73483999
BRD-K73573525
BRD-K73701301
BRD-K74009886
BRD-K74083848
BRD-K74140407
BRD-K74511610
BRD-K74830065
BRD-K74900896
BRD-K75095704
BRD-K75395214
BRD-K75809222
BRD-K75938736
BRD-K76166520
BRD-K76285876
BRD-K76462626
BRD-K76896049
BRD-K77053153
BRD-K77182083
BRD-K77221189
BRD-K77429897
BRD-K77564294
BRD-K77603027
BRD-K77660367
BRD-K77709215
BRD-K77918164
BRD-K78419283
BRD-K79596575
BRD-K80893668
BRD-K81189877
BRD-K82062373
BRD-K82399474
BRD-K82765406
BRD-K82822203
BRD-K82830100
BRD-K82925070
BRD-K82991167
BRD-K83325143
BRD-K83400219
BRD-K83407176
BRD-K83546471
BRD-K84024786
BRD-K84715825
BRD-K85664836
BRD-K85806228
BRD-K85861721
BRD-K87517219
BRD-K88045846
BRD-K88104720
BRD-K88114920
BRD-K88328468
BRD-K88652561
BRD-K88968415
BRD-K89062214
BRD-K89112856
BRD-K90233481
BRD-K90505752
BRD-K91021522
BRD-K92036763
BRD-K92951265
BRD-K93569571
BRD-K93713304
BRD-K93763482
BRD-K94025757
BRD-K94241935
BRD-K94317551
BRD-K94454791
BRD-K94711641
BRD-K94913400
BRD-K95041551
BRD-K95265783
BRD-K95286989
BRD-K96431673
BRD-K96660315
BRD-K96977391
BRD-K97045804
BRD-K97440159
BRD-K97829610
BRD-K98638910
BRD-K98814272
BRD-K98830854
BRD-K98881366
BRD-K99268544
BRD-K99700039