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:45873*  Cite 
Description

Plate 25581 - 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/W9CIL45873
Archival Resource Key (ARK)
ark:/b7295/w9cil45873
Compounds
4-{[5-ethyl-3-(4-methoxybenzoyl)-2-thienyl]amino}-4-oxobutanoic acid
BRD-A00037023
BRD-A01039955
BRD-A01535438
BRD-A02131228
BRD-A03635368
BRD-A05804296
BRD-A07245571
BRD-A10037427
BRD-A10076362
BRD-A11287070
BRD-A11930354
BRD-A12083771
BRD-A13250557
BRD-A13640438
BRD-A17482646
BRD-A17718913
BRD-A17756301
BRD-A19202454
BRD-A19719704
BRD-A21829694
BRD-A22060346
BRD-A22840179
BRD-A26257412
BRD-A28535779
BRD-A30366854
BRD-A30630604
BRD-A33167617
BRD-A33738668
BRD-A36627915
BRD-A36720314
BRD-A40924994
BRD-A45498171
BRD-A45894813
BRD-A48807531
BRD-A49581609
BRD-A53769312
BRD-A55485536
BRD-A56159527
BRD-A59700631
BRD-A60657908
BRD-A61141482
BRD-A61263491
BRD-A61567545
BRD-A63865611
BRD-A65898531
BRD-A68777930
BRD-A69759535
BRD-A70919457
BRD-A71195027
BRD-A71402194
BRD-A74068007
BRD-A74482850
BRD-A74743671
BRD-A74968392
BRD-A75588258
BRD-A76528299
BRD-A76790334
BRD-A77134384
BRD-A78031612
BRD-A78942403
BRD-A81850691
BRD-A82360798
BRD-A82599961
BRD-A83799988
BRD-A84954848
BRD-A85608679
BRD-A89386355
BRD-A94935229
BRD-A95363369
BRD-A96652063
BRD-A97481919
BRD-A98156784
BRD-K00354297
BRD-K00605115
BRD-K00788800
BRD-K00823222
BRD-K00869355
BRD-K01145373
BRD-K02059094
BRD-K02695342
BRD-K03671950
BRD-K05321936
BRD-K05450596
BRD-K05711643
BRD-K05880304
BRD-K06081918
BRD-K06251503
BRD-K06430644
BRD-K06449947
BRD-K07254242
BRD-K07988229
BRD-K08180399
BRD-K08304598
BRD-K08654649
BRD-K09382144
BRD-K09658832
BRD-K09701277
BRD-K10105887
BRD-K10217029
BRD-K11144896
BRD-K11242933
BRD-K11649652
BRD-K11802924
BRD-K12080874
BRD-K13185608
BRD-K13847800
BRD-K14038372
BRD-K14448458
BRD-K15034896
BRD-K15857477
BRD-K16791875
BRD-K17042159
BRD-K18483075
BRD-K18493561
BRD-K18917286
BRD-K19155347
BRD-K19274991
BRD-K19429700
BRD-K19746214
BRD-K21775175
BRD-K22907015
BRD-K23327969
BRD-K23716090
BRD-K23871803
BRD-K23893493
BRD-K24412544
BRD-K24484078
BRD-K25018561
BRD-K26504715
BRD-K26612210
BRD-K26706039
BRD-K27345350
BRD-K27431305
BRD-K27802570
BRD-K27871068
BRD-K28338890
BRD-K29125586
BRD-K29184319
BRD-K29832021
BRD-K30018352
BRD-K30138610
BRD-K30896793
BRD-K31054869
BRD-K32342297
BRD-K32364382
BRD-K32701113
BRD-K33002548
BRD-K33100391
BRD-K33825574
BRD-K34265805
BRD-K34521600
BRD-K34595206
BRD-K34632925
BRD-K34937366
BRD-K36022879
BRD-K36511139
BRD-K36546935
BRD-K36610285
BRD-K37239108
BRD-K37398898
BRD-K39125958
BRD-K39566703
BRD-K40032296
BRD-K40158731
BRD-K40552468
BRD-K41649958
BRD-K41914390
BRD-K41923942
BRD-K42046390
BRD-K42720656
BRD-K42873364
BRD-K44416900
BRD-K44542386
BRD-K45481296
BRD-K45576576
BRD-K46095033
BRD-K46660150
BRD-K46766754
BRD-K47430271
BRD-K47973609
BRD-K48790928
BRD-K48905682
BRD-K49512803
BRD-K49651897
BRD-K50513469
BRD-K50516081
BRD-K50534277
BRD-K50835094
BRD-K52113409
BRD-K52527039
BRD-K52885700
BRD-K53101923
BRD-K53548934
BRD-K53856942
BRD-K54377788
BRD-K54839924
BRD-K54963811
BRD-K55762076
BRD-K56016191
BRD-K56051118
BRD-K56209150
BRD-K57070584
BRD-K57074520
BRD-K57352453
BRD-K57718988
BRD-K57769329
BRD-K58803272
BRD-K59561846
BRD-K59723758
BRD-K59868063
BRD-K60865828
BRD-K61302363
BRD-K61748355
BRD-K62089705
BRD-K62978630
BRD-K63155091
BRD-K63560610
BRD-K63916899
BRD-K64353415
BRD-K64467849
BRD-K64471376
BRD-K64567705
BRD-K65116911
BRD-K65829502
BRD-K66558095
BRD-K66816205
BRD-K67649668
BRD-K67659633
BRD-K67776920
BRD-K67857808
BRD-K68385893
BRD-K69203373
BRD-K69295359
BRD-K69494685
BRD-K69651984
BRD-K70466982
BRD-K70710663
BRD-K70946285
BRD-K71138416
BRD-K71626576
BRD-K71865996
BRD-K72154771
BRD-K72244395
BRD-K73731096
BRD-K73941824
BRD-K73967057
BRD-K74571580
BRD-K74574168
BRD-K75309766
BRD-K75504177
BRD-K75713800
BRD-K75738997
BRD-K76601901
BRD-K76826745
BRD-K77315003
BRD-K77597038
BRD-K77992016
BRD-K78332990
BRD-K78519035
BRD-K78549798
BRD-K78992216
BRD-K79153815
BRD-K80164063
BRD-K80232722
BRD-K80551287
BRD-K80680312
BRD-K80717167
BRD-K81153510
BRD-K81545621
BRD-K81691462
BRD-K82122338
BRD-K82554000
BRD-K82867190
BRD-K83647900
BRD-K83659333
BRD-K83728430
BRD-K84005816
BRD-K84707708
BRD-K85135497
BRD-K85470517
BRD-K85540497
BRD-K85658753
BRD-K85671602
BRD-K85694064
BRD-K86263388
BRD-K86468448
BRD-K86634627
BRD-K86948160
BRD-K87099627
BRD-K87605280
BRD-K88339047
BRD-K88459478
BRD-K88715136
BRD-K89304620
BRD-K89433368
BRD-K89468109
BRD-K90117425
BRD-K90314108
BRD-K90608119
BRD-K90658144
BRD-K90940383
BRD-K91814273
BRD-K91994666
BRD-K92764098
BRD-K93489341
BRD-K94025172
BRD-K94957107
BRD-K95956887
BRD-K97458917
BRD-K97895199
BRD-K98155297
BRD-K98983552
BRD-K99022678
BRD-K99154245
BRD-K99790355
BRD-K99932050
graveoline
suptopin-2
visnagin