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Perfil transcriptómico y proteómico de MCF7, CCD18 y Jurkat .

Perfil transcriptómico y proteómico de MCF7, CCD18 y Jurkat. Anotación del cromosoma 16. Chromosome 16. 486 HPA antibodies for Chr16 proteins , 121 for unknown. ENSEMBL V68 SWISSPROT V2012_06 GPMDBV102012 HPA V10.0. 110 OMIM hits Obesity Neurodegenerative diseases Cancer.

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Perfil transcriptómico y proteómico de MCF7, CCD18 y Jurkat .

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  1. Perfiltranscriptómico y proteómico de MCF7, CCD18 y Jurkat.

  2. Anotación del cromosoma 16 Chromosome 16 486 HPA antibodiesfor Chr16 proteins, 121 forunknown ENSEMBL V68 SWISSPROT V2012_06 GPMDBV102012 HPA V10.0 110 OMIM hits Obesity Neurodegenerativediseases Cancer 2300 genes 870 proteincodinggenes 305 unknownproteins Proteinexpressionvectorsfor260 Chr16 proteins, 58 unknown Coverage of 71% gene products in Lynphoidcells Epitelial cells Fibroblasts Shotgun Proteomic analysis Transcriptomic analysis Data integration Gene expressionprofile Proteinprofile Global and celltypespecificoutcomes Correlationproteome/transcriptome Proteomecoverage and chromosomedistribution Chr16 proteomecoverage

  3. Análisis transcriptómico GeneChip AffymetrixHuGene 1.0 ST RMA normalization Filtering of low expression probes Selection: expressionthreshold R/Bioconductor FACTORY Transcriptionfactors INGENUITY Networks, pathways and functions MCF7 CCD18 Jurkat www.affymetrix.com

  4. Cálculo del umbral de expresión génica Upon data normalization, an expression threshold was calculated to eliminate low intensity probe sets that are considered technical noise. FDR values > 95% were discarded meaning that 80% of the probe sets were considered for further analyses.

  5. Resumen de los resultados de expresión génica • A total of 19340 genes were expressed in at least one of the three cell lines, 82% were common, 1% were specifically detected in MCF7 cells, 2.6% in CCD18 and 0.9% in Jurkat cells. • Up to 1533 genes from Chr16 were not detected, most of them being non protein coding genes. Genes que codifican proteínas no detectados en las condiciones analíticas del experimento

  6. Shotgunproteomics. Resumen de resultados • Assuming a FDR below 1% at the protein level, 9488 proteins were identified; 6092 proteins were identified in MCF7, 5547 in CCD18 and 7197 in Jurkat cells; among them, 40% were commonly found in the three cell lines. • Among the identified proteins, 388 are encoded by Chr16 genes, representing a 44,6% of the 870 protein coding genes (Ensv68) located in this chromosome.

  7. Distribución cromosómica de los genes y proteínas

  8. Comparación transcriptómica/proteómica

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