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E-GEOD-5258

Title: Transcription profiling of human cell lines freely cycling treated with 164 distinct small molecules - Broad Connectivity Map CMAP Set 1
Organism(s): Homo sapiens
Description: A reference collection of genome-wide transcriptional expression data for bioactive small molecules. Experiment Overall Design: The current collection (build01) contains data for 164 distinct small molecules applied to freely cycling human cell lines, represented by 453 individual treatment and matched vehicle control pairs.
Design(s): transcription profiling by array
Experimental factor(s):
time
2 recorded
6 hour 12 hour
compound
187 recorded
nocodazole benserazide genistein rofecoxib clofibrate none 15-deoxy-Delta(12,14)-prostaglandin J2 paclitaxel metformin LY294002 chlorpromazine fasudil hydrochloride 1-(2,4-dichlorobenzoyl)-1H-1,2,3-benzotriazole FK506 tacrolimus (anhydrous) ikarugamycin haloperidol diclofenac doxycycline trichostatin A valproic acid celecoxib arachidonic acid tioguanine verapamil nordihydroguaiaretic acid N-oxalyolglycine 1-(2,4-dichlorobenzoyl)-1H-benzimidazole Pyrvinium pyrvinium pirinixic acid fenamic acid topiramate indomethacin indometacin fludrocortisone sodium phenylbutyrate bucladesine 17alpha-estradiol prochlorperazine all-trans-retinoic acid raloxifene hydrochloride raloxifene tamoxifen mercaptopurine staurosporine wortmannin fulvestrant imatinib Y-27632 Y-27632 medication radicicol oligomycin estradiol monastrol 17-allylamino-geldanamycin 3-3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl-2,2-dimethylpropanoic acid 3-1-(p-Chlorobenzyl)-5-(isopropyl)-3-t-butylthioindol-2-yl-2,2-dimethylpropanoic Acid fisetin sirolimus rottlerin arotinoid acid yohimbine SC-58125 LM-1685 rosiglitazone tetraethylenepentamine 3-(4-bromophenyl)amino-3-(4-methoxyphenyl)-1-phenylpropan-1-one 3-(4-bromophenyl)amino-3-(4-methoxyphenyl)-1-phenyl-1-propanone dexamethasone novobiocin N-(5-acetyl-3-thienyl)methyl-2-chloroacetamide semicarbazone N-({5-N-(aminocarbonyl)ethanehydrazonoyl-3-thienyl}methyl)-2-chloroacetamide depudecin dopamine monensin A iloprost N-(4-bromophenyl)-2-(4-{(4-bromophenyl)aminocarbonyl}phenyl)-1,3-dioxo-5-isoindolinecarboxamide N-(4-bromophenyl)-2-{4-(4-bromophenyl)carbamoylphenyl}-1,3-dioxo-2,3-dihydro-1H-isoindole-5-carboxamide troglitazone N-2-(4-ethylphenyl)-1,3-benzoxazol-5-yl-3-nitrobenzamide cobalt dichloride N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal cyclosporin A geldanamycin docosa-4,7,10,13,16,19-hexaenoic acid Quinpirole quinpirole sulfasalazine clotrimazole clozapine copper(2+) sulfate acetylsalicylic acid fluphenazine pararosaniline calmidazolium sulindac sulfone N-(2,6-dimethylphenyl)-N(2)-(3,5-dimethylphenyl)glycinamide N~1~-(2,6-dimethylphenyl)-N~2~-(3,5-dimethylphenyl)glycinamide AACOCF3 N-{4-(1E)-3-oxo-3-phenylprop-1-en-1-ylphenyl}-2,2-diphenylacetamide N-4-(3-oxo-3-phenyl-1-propen-1-yl)phenyl-2,2-diphenylacetamide 4-nitrophenyl (1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl)acetate 4-nitrophenyl phthalimidoacetate chlorpropamide tomelukast colchicine felodipine desferrioxamine B tanespimycin 4-1-(benzylamino)ethylidene-2-(2,4-dibromophenyl)-5-methyl-2,4-dihydro-3H-pyrazol-3-one 4-1-(benzylamino)ethylidene-2-(2,4-dibromophenyl)-5-methyl-2,4-dihydropyrazol-3-one carbamazepine thalidomide 4,5-dianilinophthalimide nifedipine minocycline 2-chloro-N-(2-nitrophenyl)-5-(1-piperidinylsulfonyl)benzamide sulindac sulfide oxaprozin phenanthridone 3-hydroxykynurenine phenyl biguanide phentolamine 2-benzoylbenzene-1,4-diyl bis(4-bromo-3-nitrobenzoate) 2-benzoyl-1,4-phenylene bis(4-bromo-3-nitrobenzoate) hydroxy-2-naphthalenyl-methyl phosphonic acid trisacetoxymethylester BW B70C forskolin quercetin (+)-vernolic acid 17-DMAG alvespimycin trifluoperazine gefitinib 1,4-Diamino-2,3-dicyano-1,4-bis(phenylthio)butadiene 1,4-diamino-2,3-dicyano-1,4-bis(phenylthio)butadiene resveratrol prazosin isoquinoline-1,5-diol tyrphostin AG 825 thioridazine 2-(benzoylamino)methyl-3,4,6-trichlorophenyl 4-nitrobenzoate 2-(benzoylamino)-4-nitrobenzoic acid N-(4-Aminobutyl)-5-chloro-2-naphthalenesulfonamide N-(4-aminobutyl)-5-chloronaphthalene-2-sulfonamide 2-propyn-1-yl 2,4,6-tribromophenyl phthalate exemestane cytochalasin B ionomycin butein 3-aminobenzamide blebbistatin sulindac (-)-demecolcine phenformin splitomicin 2-hydroxy-3-methoxybenzaldehyde 2-pyridinylhydrazone 2-hydroxy-3-methoxybenzaldehyde 2-pyridylhydrazone 6-chloro-3-phenyl1,2,4triazolo4,3-bpyridazine (-)-catechin DL-threo-1-phenyl-2-palmitoylamino-3-morpholino-1-propanol tolbutamide tyrphostin AG 1478 HC toxin amitriptyline NU 1025 probucol mesalamine vorinostat 2-deoxy-D-glucose azathioprine 4-methyl-2-oxo-2H-chromen-7-yl {3-(2,3-dihydro-1,4-benzodioxin-6-yl)-2-methyl-4-oxo-4H-chromen-7-yloxy}acetate 4-methyl-2-oxochromen-7-yl {3-(2,3-dihydro-1,4-benzodioxin-6-yl)-2-methyl-4-oxochromen-7-yloxy}acetate oxamic acid ethyl 4-(3-methoxyphenyl)-6-methyl-2-thioxo-1,2,3,4-tetrahydro-5-pyrimidinecarboxylate ethyl 4-(3-methoxyphenyl)-6-methyl-2-thioxo-1,2,3,4-tetrahydropyrimidine-5-carboxylate flufenamic acid nitrendipine ChemBridge catalog # 5151277 dexverapamil prednisolone pentamidine 5-aza-2'-deoxycytidine N-2-(1,3-benzoxazol-2-yl)phenyl-4-methylbenzenesulfonamide butirosin celastrol
vehicle
3 recorded
dimethyl sulfoxide ethanol growth medium
drug type
23 recorded
non-steroidal anti-inflammatory drug prostanoid tetracyclines arachidonic acid calcium channel blocker steroid (Hsp90 inhibitor) inhibitor of FLAP (5-lipoxygenase activating protein) (retinoic acid analog; selective RAR agonist) monoamine oxidase inhibitor cyclooxygenase 2 inhibitor possible NSAID antifungal agent leukotriene antagonist chelator (inhibitor of tyrosine kinase) inhibitor of 5-lipoxygenase long-chain fatty acid (inhibitor of MEK) ionophore ? regulates expression of genes in AA pathway potassium channel blocker tricyclic antidepressant
dose
42 recorded
1.0E-6 molar 1.0E-5 molar 1.0E-4 molar 1.0E-7 molar 1.7E-5 molar 2.0E-6 molar 1.44E-5 molar 0.0010 molar 5.0E-5 molar 1.25E-6 molar 3.0E-6 molar 1.0E-8 molar 2.0E-5 molar 2.29E-5 molar 1.2E-5 molar 2.5E-5 molar 1.09E-5 molar 5.0E-4 molar 1.3E-5 molar 2.1E-5 molar 2.0E-4 molar 5.0E-6 molar 1.8E-5 molar 1.5E-5 molar 1.1E-5 molar 1.05E-5 molar 3.0E-4 molar 5.12E-5 molar 9.2E-6 molar 1.15E-5 molar 7.0E-6 molar 3.16E-5 molar 2.0E-7 molar 2.52E-5 molar 0.0020 molar 2.08E-5 molar 0.01 molar 1.17E-5 molar 2.2E-5 molar 1.4E-5 molar 1.5E-4 molar 2.5E-6 molar
cellline
5 recorded
MCF-7 cell SKMEL5 PC-3 cell ssMCF7 HL-60 cell
Publication(s): Justin Lamb, Emily D Crawford, David Peck, Joshua W Modell, Irene C Blat, Matthew J Wrobel, Jim Lerner, Jean-Philippe Brunet, Aravind Subramanian, Kenneth N Ross, Michael Reich, Haley Hieronymus, Guo Wei, Scott A Armstrong, Stephen J Haggarty, Paul A Clemons, Ru Wei, Steven A Carr, Eric S Lander, Todd R Golub
The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. PubMed:17008526

Hieronymus H, Lamb J, Ross KN, Peng XP, Clement C, Rodina A, Nieto M, Du J, Stegmaier K, Raj SM, Maloney KN, Clardy J, Hahn WC, Chiosis G, Golub TR.
Gene expression signature-based chemical genomic prediction identifies a novel class of HSP90 pathway modulators. PubMed:17010675

Sample attribute(s):
CellLine
5 recorded
MCF-7 cell SKMEL5 PC-3 cell ssMCF7 HL-60 cell
Material Type
2 recorded
synthetic_RNA total_RNA
Label
1 recorded
biotin
organism
1 recorded
Homo sapiens
Contact(s): Justin Lamb
Release Date: 12/6/2008
Submission Date:
Metadata Downloads Download Study Metadata as ISAtabDownload Study Metadata as ISAtab
Assay Downloads
transcription profiling using DNA microarray
564 assays