NoMAS: A Computational Approach to Find Mutated Subnetworks Associated With Survival in Genome-Wide Cancer Studies

NoMAS: A Computational Approach to Find Mutated Subnetworks Associated With Survival in Genome-Wide Cancer Studies Federico Altieri1, Tommy V. Hansen2 and Fabio Vandin1* 1Department of Information Engineering, University of Padova, Padova, Italy 2Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark Next-generation sequencing technologies allow to measure somatic mutations in a large number of patients from the same cancer type: one of the main goals in their analysis is the identification of mutations associated with clinical parameters. The identification of such relationships is hindered by extensive genetic heterogeneity in tumors, with different genes mutated in different patients, due, in part, to the fact that genes and mutations act in the context of pathways: it is therefore crucial to study mutations in the context of interactions among genes. In this work we study the problem of identifying subnetworks of a large gene-gene interaction network with mutations associated with survival time. We formally define the associated computational problem by using a score for subnetworks based on the log-rank statistical test to compare the survival of two given populations. We propose a novel approach, based on a new algorithm, called Network of Mutations Associated with Survival (NoMAS) to find subnetworks of a large interaction network whose mutations are associated with survival time. NoMAS is based on the color-coding tec...
Source: Frontiers in Genetics - Category: Genetics & Stem Cells Source Type: research

Related Links:

Deaths among people who have been fully vaccinated remain rare, but older adults and those with compromised immune systems are at much higher risk.
Source: NYT Health - Category: Consumer Health News Authors: Tags: your-feed-science Disease Rates Coronavirus (2019-nCoV) Vaccination and Immunization Cancer Multiple Myeloma Immune System Antibodies Multiple Myeloma Research Foundation Powell, Colin L your-feed-health Source Type: news
AbstractSecond-line treatment options for patients with relapsed, extensive-stage small cell lung cancer (ES-SCLC) are limited, and even with currently available treatments, prognosis remains poor. Until recently, topotecan (a topoisomerase  I inhibitor) was the only drug approved by the United States (US) Food and Drug Administration (FDA) for the management of ES-SCLC following progression after first-line treatment with etoposide plus a platinum derivative (EP; carboplatin preferred). With the most recent approval of EP plus a prog rammed death ligand 1 (PD-L1) inhibitor, there are now more therapeutic options...
Source: Advances in Therapy - Category: Drugs & Pharmacology Source Type: research
ConclusionThe dermatologist density in Bavaria correlates positively with the incidence of malignant melanoma. Despite an increased incidence, mortality was not elevated in the respective administrative regions.
Source: Advances in Therapy - Category: Drugs & Pharmacology Source Type: research
Colin Powell, the first Black secretary of State and chairman of the Joint Chiefs of Staff, dies of COVID-19 complications after bout with blood cancer.
Source: L.A. Times - Health - Category: Consumer Health News Authors: Source Type: news
The WHO lists antimicrobial resistance as a top ten global health threat, saying that by 2050 it will kill more people than cancer. Could novel vaccines provide new ways to defeat superbugs?
Source: the Mail online | Health - Category: Consumer Health News Source Type: news
Doctors say Colin Powell's age, his battle with multiple myeloma - a type of blood cancer - and Parkinson's contributed to his heightened risk of death from Covid despite being fully vaccinated.
Source: the Mail online | Health - Category: Consumer Health News Source Type: news
Seattle-based Umoja Biopharma on Monday named Clay Siegall as chairman of its board of directors. Siegall is the CEO and co-founder of Bothell-based Seagen, a biotech company that went public on the Nasdaq in 2001. Siegall co-founded the company in 1998. "Clay's vast scientific training and wealth of experience, particularly his emphasis on targeted cancer therapies and ability to build a com pany from drug discovery to commercial-stage, will be a crucial part of Umoja's continued growth," Andy…
Source: bizjournals.com Health Care:Physician Practices headlines - Category: American Health Authors: Source Type: news
Medicare spent nearly $600 million over a three-year period for cancer care involving four Food and Drug Administration-approved drugs later found to provide no clinical benefit for certain forms of the disease.
Source: Health News - UPI.com - Category: Consumer Health News Source Type: news
This study estimates the labor market effects of a work-first policy aimed at speeding up the labor market integration of refugees. The policy added new requirements for refugees to actively search for jobs and to participate in on-the-job training immediately upon arrival in the host country, Denmark. The requirements were added to an existing policy that emphasizes human capital investments in language training. The results show that the work-first policy speeded up entry into regular jobs for men, but they find work in precarious jobs with few hours. Long-run effects are uncertain since the policy crowds out language in...
Source: European Journal of Applied Physiology - Category: Physiology Source Type: research
Colin Powell had a form of blood cancer that saps natural immunity and also undermines the effects of vaccines like the ones used against Covid-19.
Source: NYT Health - Category: Consumer Health News Authors: Tags: Multiple Myeloma Bone Marrow Deaths (Fatalities) Immune System Blood Powell, Colin L Source Type: news
More News: Academia | Adenocarcinoma | Appendicitis | Autism | Biology | Breast Cancer | Breast Carcinoma | Cancer | Cancer & Oncology | Carcinoma | Chemotherapy | Computers | Conferences | Databases & Libraries | Denmark Health | Esophagus Cancer | Funding | Genetics | Grants | Head and Neck Cancer | Hormones | Hospitals | Italy Health | Kidney Cancer | Lebanon Health | Legislation | Lessons | Middle East Health | Molecular Biology | Oral Cancer | Ovarian Cancer | Ovaries | Pancreas | Pancreatic Cancer | Renal Cell Carcinoma | Reproduction Medicine | Science | Skin Cancer | Squamous Cell Carcinoma | Statistics | Study | Thyroid | Thyroid Cancer | Training | Universities & Medical Training | Women