BUSCADOR RECOLECTA

This file lists the High Confidence Drivers identified as part of the pan-cancer12 initiative, published in the paper Comprehensive identification of mutational cancer driver genes across 12 tumor types" Scientific Reports 3:2650, 2013, doi:10.1038/srep02650

Genes and pathways affected by expression and copy number changes in tumors across projects and cancer types.

Bioinformatics method to identify individual driver mutations.

This database contains the results of the driver analysis performed by the Cancer Genome Interpreter across 6,792 exomes of a pan-cancer cohort of 28 tumor types. Validated oncogenic mutations are identified according to the state-of-the-art clinical and experimental data, whereas the effect of the mutations of unknown significance is predicted by the OncodriveMUT method.

Mutations, genes and pathways involved in tumorigenesis across 4,623 cancer genomes/exomes from 13 cancer sites. IntOGen-mutations identifies cancer drivers across tumor types. Nature Methods 10, 2013, doi:10.1038/nmeth.2642

CGI drug prescription assigns targeted drugs to a tumor, based on its genomic alterations, according different levels of evidence (from pre-clinical assays to clinical guidelines).

The effect of different dietary composition on liver lipid accumulation was analyzed. Diets with the same caloric content were given, but which differed in the percentage content (both in weight and derived energy) of proteins and lipids: Control diet (19% protein + 12.5% ​​lipids + 67% carbohydrates), Cafeteria diet (11% protein + 39% fat + 48% carbohydrates), Hyperlipidic diet (HF) (14% protein + 37% fat + 48% carbohydrates), hyperprotein diet (HP) (40% protein + 12% fat + 47% carbohydrates). Cafeteria and HL diets, despite having the same lipid content, differed in their lipid composition. Animals were treated for 30 days with these diets and intake was assessed. Blood and tissue samples were taken after the animals were sacrificed. The usual plasma parameters were measured and in this case, the content of cholesterol and triacylglycerols was determined in the liver, as well as the expression (RNA) of different enzymes involved in its metabolism.

Dades experimentals a partir de les quals s'han calculat activitats enzimàtiques i expressions d'enzims (i altres proteïnes) relacionats amb el cicle de la urea en diferents localitzacions (masses) de teixit adipós blanc de rates (mascles i femelles). Els arxius contenen les dades experimentals directes i els paràmetres de control i de referència, derivats dels animals, que han estat processats per a la publicació. També inclouen algunes fases del processament de les dades per assolir els resultats finals, de forma que el conjunt es pugui comprendre globalment.

Background. White adipose tissue (WAT) is a complex, diffuse, multifunctional organ which contains adipocytes, and a large proportion of fat, but also other cell types, active in defence, regeneration and signalling functions. Studies with adipocytes often require their isolation from WAT by breaking up the matrix of collagen fibres, however, it is unclear to what extent adipocyte number in primary cultures correlates with their number in intact WAT, since recovery and viability are often unknown. Experimental design. Epididymal WAT of 4-6 young adult rats was used to isolate adipocytes with collagenase. Careful recording of lipid content of tissue, and all fraction volumes and weights, allowed us to trace the amount of initial WAT fat remaining in the cell preparation. Functionality was estimated by incubation with glucose and measurement of lactate, glycerol and NEFA production. Non-adipocyte cells were also recovered and their sizes (and those of adipocytes) were also measured. The presence of non-nucleated cells (erythrocytes) was also estimated. Results. Cell numbers and sizes were correlated from all fractions to intact WAT. Tracing the lipid content, the recovery of adipocytes in the final, metabolically active, preparation was in the range of 70-75%. Adipocytes were 7%, erythrocytes 68% and other stromal (nucleated cells) 24% of total WAT cells. However, their overall volumes were, 91%, 0.05%, and 0.2% of WAT. Non-fat volume of adipocytes was 2.5% of WAT. Conclusions. The methodology presented here allows for a direct quantitative reference to the original tissue of studies using isolated cells. We have found, also, that the "live cell mass" of adipose tissue is very small (about 25 µL/g for adipocytes and 2 µL/g stromal, plus about 1 µL/g blood). This fact, translates (with respect to the actual "live cytoplasm" size) into an extremely high metabolic activity, which make WAT an even more significant agent in the control of energy metabolism.

Background: Diet deeply affects the food selection and ingestion both in humans and rodents, often resulting in excess energy intake. Methods: We investigated this process comparing two different high-fat dietary approaches to induce obesity, in which all rats received about 40% of their energy intake as lipids. The main nutrient difference between the diets, when compared with controls fed standard lab chow, was the lipid content. Cafeteria diets (K) were devised to be tasty, and thus highly desirable to the rats, mainly for its diverse mix of tastes, particularly salty and sweet. This diet was compared with another high-fat (HF) potentially obesogenic diet, devised not to be as tasty as K, and prepared just supplementing standard chow pellets with fat. We also analysed the influence of sex on the effects of the diets. Results: K rats grew faster, especially the males, although females showed a higher proportion of body lipid, because of a high lipid, sugar and protein intake. HF weight change rates were not different from those of controls. In addition to high sugar, K rats also ingested large amounts of salt. With this study we have shown that the key factor eliciting the excess energy intake in a high-energy diet rat model was not solely or mainly their fat intake. The changes in body fat accrual were more a consequence of their appetence for the food. Conclusions: The results show that the significant presence of sugar and salt is a powerful factor promoting excess food intake, more effective than increasing diet lipid content. These effects were already observed after a relatively short treatment, additionally confirming the differential effects of sex on the hedonic and obesogenic response to diet.