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:45894*  Cite 
Description

Plate 25665 - 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/W9CIL45894
Archival Resource Key (ARK)
ark:/b7295/w9cil45894
Compounds
4-[4-(2-chlorobenzyl)piperazino]-1H-indole
BRD-A04432778
BRD-A05126040
BRD-A05717240
BRD-A05731432
BRD-A06194089
BRD-A06637569
BRD-A07573940
BRD-A07950339
BRD-A10482588
BRD-A13316921
BRD-A14083717
BRD-A14101427
BRD-A14459189
BRD-A14804000
BRD-A15623573
BRD-A15648469
BRD-A18130483
BRD-A18392827
BRD-A20108388
BRD-A21765353
BRD-A27391717
BRD-A28107346
BRD-A28524368
BRD-A29734053
BRD-A36538931
BRD-A37531650
BRD-A41174898
BRD-A41944878
BRD-A44456650
BRD-A44863846
BRD-A46351047
BRD-A47175490
BRD-A51303904
BRD-A53911481
BRD-A54347351
BRD-A56452063
BRD-A56574618
BRD-A57056524
BRD-A57255476
BRD-A57879426
BRD-A59034900
BRD-A59045260
BRD-A59157860
BRD-A60144891
BRD-A60330222
BRD-A65739997
BRD-A68063230
BRD-A70270981
BRD-A73166520
BRD-A74020693
BRD-A76042151
BRD-A80297901
BRD-A80753229
BRD-A80887762
BRD-A81682135
BRD-A83180796
BRD-A84909344
BRD-A86265053
BRD-A90029851
BRD-A91387504
BRD-A94224584
BRD-A96219290
BRD-A99081601
BRD-A99278039
BRD-K00168920
BRD-K00440737
BRD-K00460925
BRD-K00663376
BRD-K00784777
BRD-K01068895
BRD-K01141296
BRD-K01230938
BRD-K01585627
BRD-K01916921
BRD-K02582347
BRD-K03014438
BRD-K04296252
BRD-K04900726
BRD-K05038253
BRD-K05539455
BRD-K06262795
BRD-K06379841
BRD-K06383818
BRD-K06700239
BRD-K06728383
BRD-K06856626
BRD-K06945574
BRD-K07068495
BRD-K07197317
BRD-K07669546
BRD-K07826724
BRD-K08562725
BRD-K09117598
BRD-K09485859
BRD-K09609446
BRD-K09727345
BRD-K11474067
BRD-K11667893
BRD-K12347712
BRD-K12460001
BRD-K12490527
BRD-K12534010
BRD-K13095116
BRD-K13454229
BRD-K13456602
BRD-K13812094
BRD-K13856120
BRD-K13892375
BRD-K14163110
BRD-K14898660
BRD-K15006508
BRD-K15272340
BRD-K15436786
BRD-K15609062
BRD-K16329620
BRD-K16509257
BRD-K17067504
BRD-K17676574
BRD-K20267824
BRD-K20323744
BRD-K20493347
BRD-K21443386
BRD-K21515220
BRD-K21631125
BRD-K21882709
BRD-K22196502
BRD-K22384930
BRD-K22484535
BRD-K22613457
BRD-K22995054
BRD-K23021066
BRD-K23129785
BRD-K23162611
BRD-K23173968
BRD-K23752005
BRD-K25632735
BRD-K26615633
BRD-K27142197
BRD-K27410480
BRD-K27497213
BRD-K27782106
BRD-K27799167
BRD-K28078576
BRD-K28335320
BRD-K28548873
BRD-K28839261
BRD-K29034888
BRD-K29197136
BRD-K29385375
BRD-K30673737
BRD-K30724865
BRD-K30733398
BRD-K30757915
BRD-K30898048
BRD-K31701661
BRD-K32230012
BRD-K33978208
BRD-K33997700
BRD-K34088856
BRD-K34681982
BRD-K34751329
BRD-K35176031
BRD-K36412733
BRD-K36842948
BRD-K37051611
BRD-K37108405
BRD-K37767551
BRD-K38407067
BRD-K38924818
BRD-K39183317
BRD-K39803678
BRD-K39903135
BRD-K40038819
BRD-K40218785
BRD-K41283208
BRD-K41844058
BRD-K42133523
BRD-K42215100
BRD-K43404287
BRD-K43842271
BRD-K43873821
BRD-K43916369
BRD-K44412224
BRD-K44962714
BRD-K45662799
BRD-K46160960
BRD-K46389999
BRD-K46573336
BRD-K46743959
BRD-K46868036
BRD-K47370953
BRD-K47432556
BRD-K47898291
BRD-K48550683
BRD-K49105611
BRD-K49620646
BRD-K49725326
BRD-K50757825
BRD-K50937034
BRD-K50973412
BRD-K51635240
BRD-K52000255
BRD-K55560514
BRD-K55933216
BRD-K55944090
BRD-K56312355
BRD-K56493309
BRD-K56597705
BRD-K56805700
BRD-K57070101
BRD-K58062490
BRD-K58123928
BRD-K58358077
BRD-K58499307
BRD-K59864142
BRD-K60281757
BRD-K60390492
BRD-K60442535
BRD-K60936953
BRD-K61108991
BRD-K61198461
BRD-K62247167
BRD-K62275715
BRD-K62353197
BRD-K62693371
BRD-K62766089
BRD-K62839070
BRD-K63433685
BRD-K63694910
BRD-K63954116
BRD-K64297007
BRD-K64319851
BRD-K64400622
BRD-K64994910
BRD-K66428718
BRD-K67171928
BRD-K67336695
BRD-K67708305
BRD-K67716771
BRD-K68029780
BRD-K68050045
BRD-K68370757
BRD-K68457497
BRD-K68481647
BRD-K68950773
BRD-K69589866
BRD-K69985339
BRD-K70374480
BRD-K70427147
BRD-K70496062
BRD-K70940371
BRD-K71139800
BRD-K72102394
BRD-K72344935
BRD-K72468780
BRD-K72500001
BRD-K73191918
BRD-K73251805
BRD-K73337972
BRD-K73725567
BRD-K74281619
BRD-K75102759
BRD-K75743408
BRD-K75868825
BRD-K75940498
BRD-K76285604
BRD-K76466229
BRD-K76527769
BRD-K77033609
BRD-K77526282
BRD-K78170979
BRD-K78222036
BRD-K79157993
BRD-K79431139
BRD-K79857601
BRD-K79921797
BRD-K80290312
BRD-K80943789
BRD-K81825262
BRD-K82632099
BRD-K82783598
BRD-K82848510
BRD-K83271507
BRD-K83575166
BRD-K84279050
BRD-K84954258
BRD-K85418839
BRD-K85718703
BRD-K85858150
BRD-K85899538
BRD-K86495486
BRD-K88382587
BRD-K88500641
BRD-K88704851
BRD-K89151668
BRD-K89190195
BRD-K89246892
BRD-K89619254
BRD-K90057874
BRD-K90675185
BRD-K92677297
BRD-K93142287
BRD-K93226431
BRD-K93579229
BRD-K94418733
BRD-K95066879
BRD-K95147379
BRD-K95159965
BRD-K96341939
BRD-K96520375
BRD-K96653464
BRD-K97231379
BRD-K97368094
BRD-K97850117
BRD-K99791875
BRD-K99886365
BRD-M24734294
N2-(3-pyridyl)-4-phenyl-1,3-thiazol-2-amine
triflupromazine