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:45794*  Cite 
Description

Plate 24631 - 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/W9CIL45794
Archival Resource Key (ARK)
ark:/b7295/w9cil45794
Compounds
BRD-A22502289
BRD-K00010082
BRD-K00247543
BRD-K01263144
BRD-K01278504
BRD-K01853144
BRD-K02375958
BRD-K02403042
BRD-K02654447
BRD-K03056434
BRD-K03143744
BRD-K03546460
BRD-K03789334
BRD-K04462989
BRD-K04701596
BRD-K04714488
BRD-K04771555
BRD-K04928505
BRD-K04988998
BRD-K05221385
BRD-K05278519
BRD-K05511449
BRD-K05535086
BRD-K05586628
BRD-K05602812
BRD-K05660087
BRD-K05857639
BRD-K07501326
BRD-K07602825
BRD-K09144687
BRD-K09295309
BRD-K09464310
BRD-K09788251
BRD-K10182289
BRD-K10588890
BRD-K10623075
BRD-K10639460
BRD-K10749593
BRD-K10785504
BRD-K11120091
BRD-K11523030
BRD-K11672886
BRD-K11873306
BRD-K12762764
BRD-K12764160
BRD-K13627844
BRD-K13928638
BRD-K14589361
BRD-K15029434
BRD-K15045100
BRD-K15389388
BRD-K16429826
BRD-K16479870
BRD-K16602560
BRD-K16717061
BRD-K16888026
BRD-K17315445
BRD-K17923226
BRD-K18099024
BRD-K18165270
BRD-K18518644
BRD-K19011391
BRD-K19103931
BRD-K19691332
BRD-K19768903
BRD-K20062569
BRD-K20578716
BRD-K20646717
BRD-K20673170
BRD-K21077610
BRD-K21216961
BRD-K21610715
BRD-K21898755
BRD-K22224629
BRD-K22420960
BRD-K22458526
BRD-K22757615
BRD-K23002629
BRD-K23701005
BRD-K24393110
BRD-K24538875
BRD-K25328765
BRD-K25525067
BRD-K25822126
BRD-K25845233
BRD-K25916267
BRD-K26257310
BRD-K27011412
BRD-K27446479
BRD-K27788205
BRD-K27870441
BRD-K28446462
BRD-K28536057
BRD-K28772163
BRD-K28919392
BRD-K29148593
BRD-K29371434
BRD-K29744282
BRD-K29840501
BRD-K30642434
BRD-K31210612
BRD-K31234009
BRD-K31509669
BRD-K31644794
BRD-K32893898
BRD-K32939988
BRD-K33075278
BRD-K33194123
BRD-K33218708
BRD-K33655272
BRD-K34425014
BRD-K34942615
BRD-K35051827
BRD-K35095050
BRD-K35894044
BRD-K36325276
BRD-K36340167
BRD-K37161540
BRD-K37953574
BRD-K38120474
BRD-K38557256
BRD-K38601916
BRD-K38630470
BRD-K39441628
BRD-K39664334
BRD-K41597374
BRD-K41714444
BRD-K41729242
BRD-K42643683
BRD-K43390655
BRD-K43628610
BRD-K44110036
BRD-K44194970
BRD-K45400577
BRD-K45415253
BRD-K46093892
BRD-K46395222
BRD-K46401136
BRD-K47391428
BRD-K47435423
BRD-K47510632
BRD-K47887272
BRD-K47906330
BRD-K47926785
BRD-K48408404
BRD-K48671182
BRD-K48782834
BRD-K50432649
BRD-K50891280
BRD-K51163606
BRD-K51298794
BRD-K52372795
BRD-K52383401
BRD-K52435112
BRD-K52872067
BRD-K52908798
BRD-K53046515
BRD-K53121121
BRD-K53343197
BRD-K53978514
BRD-K54332342
BRD-K54374611
BRD-K54470262
BRD-K54505735
BRD-K55218950
BRD-K55478267
BRD-K55939029
BRD-K56011618
BRD-K56032186
BRD-K56161792
BRD-K56658444
BRD-K56939159
BRD-K56962879
BRD-K57079327
BRD-K57091606
BRD-K57406954
BRD-K57969360
BRD-K58408512
BRD-K58434742
BRD-K58548487
BRD-K58993815
BRD-K59544784
BRD-K59626557
BRD-K59701963
BRD-K59913416
BRD-K60688287
BRD-K60751806
BRD-K61711624
BRD-K62433889
BRD-K62566987
BRD-K62841603
BRD-K62909525
BRD-K63069046
BRD-K63157607
BRD-K63199400
BRD-K63304393
BRD-K63800697
BRD-K64264170
BRD-K64618192
BRD-K65587364
BRD-K65598536
BRD-K66328525
BRD-K66539236
BRD-K66856134
BRD-K67342890
BRD-K67832115
BRD-K67978098
BRD-K68041812
BRD-K68328788
BRD-K68379391
BRD-K69330661
BRD-K69701217
BRD-K69758940
BRD-K69968541
BRD-K70116395
BRD-K70412800
BRD-K71264152
BRD-K71448503
BRD-K71465204
BRD-K71778797
BRD-K71824916
BRD-K71840205
BRD-K72394925
BRD-K72767220
BRD-K72942104
BRD-K73080020
BRD-K73143323
BRD-K73689375
BRD-K73748146
BRD-K73769678
BRD-K74040368
BRD-K74096348
BRD-K74116035
BRD-K74611044
BRD-K74862734
BRD-K75784799
BRD-K75944637
BRD-K76654183
BRD-K77023196
BRD-K77210381
BRD-K77314101
BRD-K77355185
BRD-K77547131
BRD-K77791585
BRD-K77906431
BRD-K77958314
BRD-K78162975
BRD-K78701404
BRD-K79501199
BRD-K80066561
BRD-K80455228
BRD-K81246784
BRD-K82571240
BRD-K82594742
BRD-K82948689
BRD-K83062056
BRD-K83276573
BRD-K83667863
BRD-K83721789
BRD-K83941994
BRD-K84023371
BRD-K84151275
BRD-K84265814
BRD-K84748056
BRD-K85232515
BRD-K85375794
BRD-K85456301
BRD-K86143816
BRD-K86265745
BRD-K86434577
BRD-K86694287
BRD-K87261428
BRD-K87689816
BRD-K87875370
BRD-K88357881
BRD-K88437756
BRD-K88457220
BRD-K88702379
BRD-K88802328
BRD-K88830558
BRD-K89459607
BRD-K91098396
BRD-K91238308
BRD-K91410469
BRD-K91490116
BRD-K91548063
BRD-K92144098
BRD-K92180676
BRD-K92518554
BRD-K92666980
BRD-K93233756
BRD-K93268593
BRD-K93311750
BRD-K94005961
BRD-K94034047
BRD-K94115999
BRD-K94587952
BRD-K94634315
BRD-K94802329
BRD-K95435237
BRD-K96096192
BRD-K96192558
BRD-K96604397
BRD-K96687717
BRD-K96970199
BRD-K97620396
BRD-K97645882
BRD-K97886487
BRD-K97901556
BRD-K98018160
BRD-K98431950
BRD-K98784811
BRD-K98956010
BRD-K99111770
BRD-K99131664
BRD-K99179079
BRD-K99231888
BRD-K99259037
BRD-K99736408
BRD-K99962919