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:45842*  Cite 
Description

Plate 25420 - 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/W9CIL45842
Archival Resource Key (ARK)
ark:/b7295/w9cil45842
Compounds
BRD-A04935495
BRD-A04956113
BRD-A08075568
BRD-A08703841
BRD-A08986082
BRD-A09839523
BRD-A10557930
BRD-A16891671
BRD-A23340311
BRD-A28409908
BRD-A29544928
BRD-A32930744
BRD-A35442115
BRD-A35991484
BRD-A38054473
BRD-A39089577
BRD-A39869104
BRD-A41619259
BRD-A42359060
BRD-A43658783
BRD-A44803380
BRD-A45390777
BRD-A49765532
BRD-A51205214
BRD-A54431720
BRD-A54760339
BRD-A57961536
BRD-A63882908
BRD-A64180536
BRD-A68579503
BRD-A69594173
BRD-A69992442
BRD-A70653874
BRD-A73243731
BRD-A73547039
BRD-A74368234
BRD-A75150014
BRD-A75539147
BRD-A78995875
BRD-A80220789
BRD-A81508267
BRD-A81729309
BRD-A82293681
BRD-A82982666
BRD-A84760076
BRD-A87973172
BRD-A88485418
BRD-A91543130
BRD-A91821072
BRD-A93967003
BRD-A96767816
BRD-A99565171
BRD-A99845239
BRD-K00289030
BRD-K01383926
BRD-K01425987
BRD-K01804914
BRD-K01997760
BRD-K02234826
BRD-K02260952
BRD-K02347735
BRD-K02491227
BRD-K02615925
BRD-K03078367
BRD-K04006746
BRD-K04279360
BRD-K04781025
BRD-K05139097
BRD-K05321880
BRD-K05326558
BRD-K05522035
BRD-K06708756
BRD-K07723978
BRD-K08050560
BRD-K08198475
BRD-K08227755
BRD-K08265891
BRD-K08703598
BRD-K09173891
BRD-K09285442
BRD-K09331333
BRD-K09581323
BRD-K09963346
BRD-K10098695
BRD-K10810958
BRD-K11710893
BRD-K11914247
BRD-K12235135
BRD-K13283010
BRD-K13510101
BRD-K13741983
BRD-K13788958
BRD-K14289056
BRD-K14442800
BRD-K14456313
BRD-K15038311
BRD-K15976239
BRD-K16491556
BRD-K17341006
BRD-K17378892
BRD-K18197487
BRD-K20284192
BRD-K20406181
BRD-K20856604
BRD-K20937978
BRD-K21056537
BRD-K21240553
BRD-K21375586
BRD-K22390355
BRD-K23550710
BRD-K23568283
BRD-K23826019
BRD-K23890108
BRD-K23758834
BRD-K24198990
BRD-K24503088
BRD-K24760559
BRD-K26371873
BRD-K26567371
BRD-K26748151
BRD-K26748504
BRD-K26985219
BRD-K27008127
BRD-K27286000
BRD-K28006365
BRD-K28657502
BRD-K29039767
BRD-K29326308
BRD-K29697183
BRD-K30320072
BRD-K30639617
BRD-K30879928
BRD-K31350144
BRD-K31388867
BRD-K31444829
BRD-K31611708
BRD-K32086160
BRD-K32329727
BRD-K33088594
BRD-K33375612
BRD-K33960484
BRD-K34072195
BRD-K34748852
BRD-K34842511
BRD-K34968258
BRD-K35396724
BRD-K35448613
BRD-K35907578
BRD-K36095190
BRD-K37827001
BRD-K38087085
BRD-K38588507
BRD-K38686857
BRD-K39109183
BRD-K39329527
BRD-K39399785
BRD-K40049195
BRD-K41006170
BRD-K37564172
BRD-K41920118
BRD-K42395056
BRD-K42411129
BRD-K42941887
BRD-K42951459
BRD-K43325186
BRD-K43401718
BRD-K44084227
BRD-K44111592
BRD-K44144588
BRD-K44240812
BRD-K44536345
BRD-K45202051
BRD-K45599961
BRD-K45845354
BRD-K46839081
BRD-K47243638
BRD-K47254543
BRD-K47562470
BRD-K48613747
BRD-K49281678
BRD-K49532631
BRD-K49808825
BRD-K50104180
BRD-K50450241
BRD-K50682746
BRD-K50842855
BRD-K50874768
BRD-K51358889
BRD-K52094785
BRD-K52241838
BRD-K52435917
BRD-K52542093
BRD-K52586039
BRD-K52886246
BRD-K53662664
BRD-K53667631
BRD-K54097850
BRD-K54725510
BRD-K55078657
BRD-K55145427
BRD-K55224251
BRD-K55286161
BRD-K55697397
BRD-K56024096
BRD-K56979584
BRD-K57324894
BRD-K57765549
BRD-K57778080
BRD-K57808487
BRD-K58387147
BRD-K58784344
BRD-K60277684
BRD-K61046611
BRD-K61105570
BRD-K61487648
BRD-K61494026
BRD-K61807159
BRD-K62132202
BRD-K62723829
BRD-K62800580
BRD-K63141600
BRD-K63816485
BRD-K63881275
BRD-K64015442
BRD-K64344152
BRD-K64483217
BRD-K64876000
BRD-K65452667
BRD-K65500369
BRD-K65709100
BRD-K65927155
BRD-K66028208
BRD-K66197367
BRD-K66549663
BRD-K66631864
BRD-K66768592
BRD-K67547420
BRD-K67677217
BRD-K69046399
BRD-K70195702
BRD-K70760275
BRD-K70816752
BRD-K71120545
BRD-K71329101
BRD-K71832874
BRD-K72025565
BRD-K73426366
BRD-K73766778
BRD-K74055156
BRD-K74195971
BRD-K74231754
BRD-K74936979
BRD-K75200342
BRD-K77393308
BRD-K77958737
BRD-K78200415
BRD-K78226178
BRD-K78479643
BRD-K78753758
BRD-K78817124
BRD-K79207495
BRD-K79516550
BRD-K79824643
BRD-K79925921
BRD-K80616260
BRD-K81524053
BRD-K81572714
BRD-K81742580
BRD-K82063557
BRD-K82116022
BRD-K82371836
BRD-K82612152
BRD-K83125254
BRD-K83152417
BRD-K83349888
BRD-K83500212
BRD-K83579280
BRD-K83583123
BRD-K83749296
BRD-K84635282
BRD-K84812831
BRD-K85147224
BRD-K85351291
BRD-K85382097
BRD-K86471821
BRD-K86726862
BRD-K87226979
BRD-K87267431
BRD-K87460837
BRD-K87573578
BRD-K87985355
BRD-K88734341
BRD-K89041560
BRD-K89380698
BRD-K89523629
BRD-K90006227
BRD-K90976916
BRD-K91045668
BRD-K91427846
BRD-K91540193
BRD-K91686435
BRD-K91979367
BRD-K92282284
BRD-K93001141
BRD-K93059446
BRD-K93401341
BRD-K93863961
BRD-K94144404
BRD-K94452775
BRD-K94540066
BRD-K94592778
BRD-K95534312
BRD-K96789916
BRD-K97050484
BRD-K98065297
BRD-K98197259
BRD-K98636592
BRD-K98879597
diethanolamine
evoxine