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:45777*  Cite 
Description

Plate 24590 - 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/W9CIL45777
Archival Resource Key (ARK)
ark:/b7295/w9cil45777
Compounds
BRD1640
BRD4805
BRD8846
BRD-K59220177
BRD-K59232212
BRD-K59324446
BRD-K59335919
BRD-K59385073
BRD-K59446585
BRD-K59491482
BRD-K59522787
BRD-K59609877
BRD-K59657378
BRD-K59957369
BRD-K60017729
BRD-K60068268
BRD-K60093216
BRD-K60132279
BRD-K60287661
BRD-K60296400
BRD-K60353472
BRD-K60429174
BRD-K60430317
BRD-K60587793
BRD-K60653414
BRD-K60695671
BRD-K60713554
BRD-K60713831
BRD-K60719499
BRD-K60738705
BRD-K60744874
BRD-K60759770
BRD-K60807536
BRD-K60812542
BRD-K60848736
BRD-K60905390
BRD-K60946512
BRD-K61034310
BRD-K61078510
BRD-K61139423
BRD-K61189585
BRD-K61199074
BRD-K61491580
BRD-K61621900
BRD-K61623863
BRD-K61698250
BRD-K61726189
BRD-K61733751
BRD-K61791241
BRD-K61845512
BRD-K61934967
BRD-K61978712
BRD-K62000282
BRD-K62072978
BRD-K62152527
BRD-K62154563
BRD-K62294866
BRD-K62312047
BRD-K62324460
BRD-K62358193
BRD-K62463442
BRD-K62492257
BRD-K62536891
BRD-K62682892
BRD-K62885083
BRD-K62921520
BRD-K62935726
BRD-K62942008
BRD-K62964360
BRD-K62982533
BRD-K63017287
BRD-K63030320
BRD-K63209730
BRD-K63299476
BRD-K63436783
BRD-K63493628
BRD-K63500288
BRD-K63665694
BRD-K63730594
BRD-K63864310
BRD-K63864604
BRD-K63998843
BRD-K64066545
BRD-K64075179
BRD-K64091938
BRD-K64183190
BRD-K64245731
BRD-K64347765
BRD-K64353470
BRD-K64509231
BRD-K64553072
BRD-K64567083
BRD-K64577478
BRD-K64663625
BRD-K64665523
BRD-K64763803
BRD-K64824710
BRD-K64953645
BRD-K65005022
BRD-K65054381
BRD-K65086352
BRD-K65257143
BRD-K65266979
BRD-K65291993
BRD-K65432894
BRD-K65438558
BRD-K65496998
BRD-K65598127
BRD-K65725294
BRD-K65729622
BRD-K65733046
BRD-K65831955
BRD-K65836113
BRD-K65868510
BRD-K65891102
BRD-K65945126
BRD-K65959331
BRD-K66016089
BRD-K66214118
BRD-K66216147
BRD-K66538269
BRD-K66616402
BRD-K66707905
BRD-K66802550
BRD-K66805710
BRD-K66838288
BRD-K66973998
BRD-K67024719
BRD-K67150949
BRD-K67229323
BRD-K67278762
BRD-K67319345
BRD-K67491390
BRD-K67525206
BRD-K67535324
BRD-K67591072
BRD-K67715154
BRD-K67725403
BRD-K68084083
BRD-K68160857
BRD-K68178119
BRD-K68298468
BRD-K68303333
BRD-K68383485
BRD-K68395284
BRD-K68485855
BRD-K68544484
BRD-K68618340
BRD-K68635551
BRD-K68836091
BRD-K68890376
BRD-K68949590
BRD-K69132276
BRD-K69206710
BRD-K69342591
BRD-K69408624
BRD-K69480055
BRD-K69491845
BRD-K69505608
BRD-K69515345
BRD-K69532760
BRD-K69580972
BRD-K69624346
BRD-K69668461
BRD-K69705285
BRD-K69744558
BRD-K69834831
BRD-K69942587
BRD-K70050144
BRD-K70127757
BRD-K70183558
BRD-K70254692
BRD-K70289438
BRD-K70322385
BRD-K70426100
BRD-K70530990
BRD-K70695911
BRD-K70717477
BRD-K70856965
BRD-K70945620
BRD-K70992537
BRD-K71005143
BRD-K71040831
BRD-K71177762
BRD-K71240454
BRD-K71345532
BRD-K71368065
BRD-K71420819
BRD-K71452779
BRD-K71493640
BRD-K71496240
BRD-K71614913
BRD-K71631414
BRD-K71801719
BRD-K71807663
BRD-K71919612
BRD-K72098698
BRD-K72135113
BRD-K72161690
BRD-K72173400
BRD-K72255288
BRD-K72278003
BRD-K72298899
BRD-K72386335
BRD-K72424071
BRD-K72439355
BRD-K72519034
BRD-K72531838
BRD-K72588970
BRD-K72609226
BRD-K72681425
BRD-K72687327
BRD-K72717797
BRD-K72754669
BRD-K72800151
BRD-K72833997
BRD-K72894736
BRD-K73025859
BRD-K73039647
BRD-K73048554
BRD-K73114074
BRD-K73126584
BRD-K73177528
BRD-K73296134
BRD-K73297432
BRD-K73539077
BRD-K73573090
BRD-K73582217
BRD-K73637411
BRD-K73841784
BRD-K73952959
BRD-K74103290
BRD-K74129999
BRD-K74261250
BRD-K74289419
BRD-K74382273
BRD-K74522958
BRD-K74598339
BRD-K74659851
BRD-K74712962
BRD-K74785745
BRD-K74794014
BRD-K74803017
BRD-K74842791
BRD-K74849766
BRD-K74879991
BRD-K74908937
BRD-K74933734
BRD-K74968522
BRD-K74978191
BRD-K75038114
BRD-K75100119
BRD-K75186244
BRD-K75206417
BRD-K75224334
BRD-K75275329
BRD-K75453159
BRD-K75545951
BRD-K75551005
BRD-K75606012
BRD-K75625428
BRD-K75648723
BRD-K75669394
BRD-K75688032
BRD-K75807882
BRD-K75842461
BRD-K75853175
BRD-K75900642
BRD-K75985122
BRD-K76005220
BRD-K76067434
BRD-K76115264
BRD-K76147162
BRD-K76154866
BRD-K76173551
BRD-K76309489
BRD-K76389813
BRD-K76449854
BRD-K76461283
BRD-K76482408
BRD-K76492619
BRD-K76544773
BRD-K76558091
BRD-K76640951
BRD-K76680796
BRD-K76729384
BRD-K76748254
BRD-K76833108
BRD-K76889263
BRD-K76893279
BRD-K77041516
BRD-K77074748
BRD-K77181307
BRD-K77203880
BRD-K77221872
BRD-K77223020
BRD-K77246148
BRD-K77279904
BRD-K77392050
BRD-K77407030
BRD-K77483143
BRD-K77718491
BRD-K77743611
BRD-K77775127
BRD-K77824583
BRD-K77869482
BRD-K77894681
BRD-K77939573
BRD-K77987907
BRD-K78015598
BRD-K78106941
BRD-K78149572
BRD-K78238858
BRD-K78252315
BRD-K78306305
BRD-K78310215
BRD-K78337983
BRD-K78365192
BRD-K78530095