Gene set: BRENTANI_CYTOSKELETON

Standard name BRENTANI_CYTOSKELETON
Brief description Cancer related genes also related to the cytoskeleton
Full description or abstract AB - Whereas genome sequencing defines the genetic potential of an organism transcript sequencing defines the utilization of this potential and links the genome with most areas of biology. To exploit the information within the human genome in the fight against cancer we have deposited some two million expressed sequence tags (ESTs) from human tumors and their corresponding normal tissues in the public databases. The data currently define approximately 23 500 genes of which only approximately 1 250 are still represented only by ESTs. Examination of the EST coverage of known cancer-related (CR) genes reveals that <1% do not have corresponding ESTs indicating that the representation of genes associated with commonly studied tumors is high. The careful recording of the origin of all ESTs we have produced has enabled detailed definition of where the genes they represent are expressed in the human body. More than 100 000 ESTs are available for seven tissues indicating a surprising variability of gene usage that has led to the discovery of a significant number of genes with restricted expression and that may thus be therapeutically useful. The ESTs also reveal novel nonsynonymous germline variants (although the one-pass nature of the data necessitates careful validation) and many alternatively spliced transcripts. Although widely exploited by the scientific community vindicating our totally open source policy the EST data generated still provide extensive information that remains to be systematically explored and that may further facilitate progress toward both the understanding and treatment of human cancers.
Collection C2: curated gene sets
CGP: chemical and genetic perturbations
Source publication Pubmed 14593198 Authors: Brentani H,Caballero OL,Camargo AA,da Silva AM,da Silva WA Jr,Dias Neto E,Grivet M,Gruber A,Guimaraes PE,Hide W,Iseli C,Jongeneel CV,Kelso J,Nagai MA,Ojopi EP,Osorio EC,Reis EM,Riggins GJ,Simpson AJ,de Souza S,Stevenson BJ,Strausberg RL,Tajara EH,Verjovski-Almeida S,Acencio ML,Bengtson,Bettoni F,Bodmer WF,Briones MR,Camargo LP,Cavenee W,Cerutti JM,Coelho Andrade LE,Costa dos Santos PC,Ramos Costa MC,da Silva IT,Estecio MR,Sa Ferreira K,Furnari FB,Faria M Jr,Galante PA,Guimaraes GS,Holanda AJ,Kimura ET,Leerkes MR,Lu X,Maciel RM,Martins EA,Massirer KB,Melo AS,Mestriner CA,Miracca EC,Miranda LL,Nobrega FG,Oliveira PS,Paquola AC,Pandolfi JR,Campos Pardini MI,Passetti F,Quackenbush J,Schnabel B,Sogayar MC,Souza JE,Valentini SR,Zaiats AC,Amaral EJ,Arnaldi,de Araujo AG,de Bessa SA,Bicknell DC,Ribeiro de Camaro ME,Carraro DM,Carrer H,Carvalho AF,Colin C,Costa F,Curcio C,Guerreiro da Silva ID,Pereira da Silva N,Dellamano M,El-Dorry H,Espreafico EM,Scattone Ferreira AJ,Ayres Ferreira C,Fortes MA,Gama AH,Giannella-Neto D,Giannella ML,Giorgi RR,Goldman GH,Goldman,Hackel C,Ho,Kimura EM,Kowalski LP,Krieger JE,Leite LC,Lopes A,Luna AM,Mackay A,Mari SK,Marques AA,Martins WK,Montagnini A,Mourao Neto M,Nascimento AL,Neville AM,Nobrega MP,O'Hare MJ,Otsuka AY,Ruas de Melo AI,Paco-Larson ML,Guimaraes Pereira G,Pereira da Silva N,Pesquero JB,Pessoa JG,Rahal P,Rainho CA,Rodrigues V,Rogatto SR,Romano CM,Romeiro JG,Rossi BM,Rusticci M,Guerra de Sa R,Sant' Anna SC,Sarmazo ML,Silva TC,Soares FA,Sonati Mde F,de Freitas Sousa J,Queiroz D,Valente V,Vettore AL,Villanova FE,Zago MA,Zalcberg H CN Human Cancer Genome Project/Cancer Genome Anatomy Project Annotation Consortium CN Human Cancer Genome Project Sequencing Consortium
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Organism Human
Contributed by Broad Institute
Source Platform GENE_SYMBOL
Download gene set format: grp | text | gmt | gmx | xml
Annotate by computing overlaps C1: positional gene sets
C2: curated gene sets
      CGP: chemical and genetic perturbations
      CP: canonical pathways
C3: motif gene sets
      MIR: microRNA targets
      TFT: transcription factor targets
C4: computational gene sets
      CM: cancer modules
      CGN: cancer gene neighborhoods
C5: GO gene sets
      CC: GO cellular component
      BP: GO biological process
      MF: GO molecular function
Compendia expression profiles Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
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