Nanobody-Based Quantification of GTP-Bound RHO Conformation Reveals RHOA and RHOC Activation Independent from Their Total Expression in Breast Cancer.
Sign Up to like & getrecommendations! Published in 2021 at "Analytical chemistry"
DOI: 10.1021/acs.analchem.0c05137
Abstract: As key regulators of the actin cytoskeleton, RHO GTPase expression and/or activity are deregulated in tumorigenesis and metastatic progression. Nevertheless, the vast majority of experiments supporting this conclusion was conducted on cell lines but not… read more here.
Keywords: tumor samples; breast; gtp bound; gtp ... See more keywords
Genomic characterization and tumor evolution in paired samples of metaplastic breast carcinoma
Sign Up to like & getrecommendations! Published in 2022 at "Modern Pathology"
DOI: 10.1038/s41379-022-01017-7
Abstract: Metaplastic breast carcinomas are a rare and heterogeneous group of tumors (0.5–2%). They are mainly triple negative tumors but they present poorer chemotherapy responses and worse prognosis than other triple negative tumors. The aim of… read more here.
Keywords: tumor; tumor samples; relapse progression; metaplastic breast ... See more keywords
Mapping Tumor-Specific Expression QTLs in Impure Tumor Samples
Sign Up to like & getrecommendations! Published in 2020 at "Journal of the American Statistical Association"
DOI: 10.1080/01621459.2019.1609968
Abstract: Abstract The study of gene expression quantitative trait loci (eQTL) is an effective approach to illuminate the functional roles of genetic variants. Computational methods have been developed for eQTL mapping using gene expression data from… read more here.
Keywords: normal cells; tumor samples; specific expression; expression ... See more keywords
contamDE-lm: linear model-based differential gene expression analysis using next-generation RNA-seq data from contaminated tumor samples
Sign Up to like & getrecommendations! Published in 2020 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btaa006
Abstract: MOTIVATION Tumor and adjacent normal RNA samples are commonly used to screen differentially expressed genes between normal and tumor samples or among tumor subtypes. Such paired-sample design could avoid numerous confounders in differential expression (DE)… read more here.
Keywords: tumor samples; analysis; rna; model ... See more keywords
Predicting clone genotypes from tumor bulk sequencing of multiple samples
Sign Up to like & getrecommendations! Published in 2018 at "Bioinformatics"
DOI: 10.1093/bioinformatics/bty469
Abstract: Motivation Analyses of data generated from bulk sequencing of tumors have revealed extensive genomic heterogeneity within patients. Many computational methods have been developed to enable the inference of genotypes of tumor cell populations (clones) from… read more here.
Keywords: tumor samples; clone genotypes; genotypes tumor; bulk sequencing ... See more keywords
High cytotoxic T-lymphocyte-associated antigen 4 and phospho-Akt expression in tumor samples predicts poor clinical outcomes in ipilimumab-treated melanoma patients
Sign Up to like & getrecommendations! Published in 2017 at "Melanoma Research"
DOI: 10.1097/cmr.0000000000000305
Abstract: Ipilimumab, a fully human monoclonal antibody against cytotoxic T-lymphocyte-associated antigen 4 (CTLA-4), is the first immune checkpoint inhibitor approved for the treatment of unresectable melanoma on the basis of its overall survival (OS) benefit. However,… read more here.
Keywords: tumor samples; cytotoxic lymphocyte; akt expression; expression ... See more keywords
CONDEL: Detecting Copy Number Variation and Genotyping Deletion Zygosity from Single Tumor Samples Using Sequence Data
Sign Up to like & getrecommendations! Published in 2020 at "IEEE/ACM Transactions on Computational Biology and Bioinformatics"
DOI: 10.1109/tcbb.2018.2883333
Abstract: Characterizing copy number variations (CNVs) from sequenced genomes is a both feasible and cost-effective way to search for driver genes in cancer diagnosis. A number of existing algorithms for CNV detection only explored part of… read more here.
Keywords: number; tumor samples; copy number; single tumor ... See more keywords
Immune cell surface proteins from tumor samples to predict patient clinical outcome.
Sign Up to like & getrecommendations! Published in 2017 at "Journal of Clinical Oncology"
DOI: 10.1200/jco.2017.35.15_suppl.e15630
Abstract: e15630Background: The incidence and mortality of Hepatocellular carcinoma (HCC) are rapidly increasing in the US. Treatments for advanced HCC are limited despite best efforts to develop therapeutic... read more here.
Keywords: surface proteins; immune cell; tumor samples; samples predict ... See more keywords
Modeling Basins of Attraction for Breast Cancer Using Hopfield Networks
Sign Up to like & getrecommendations! Published in 2020 at "Frontiers in Genetics"
DOI: 10.3389/fgene.2020.00314
Abstract: Cancer is a genetic disease for which traditional treatments cause harmful side effects. After two decades of genomics technological breakthroughs, personalized medicine is being used to improve treatment outcomes and mitigate side effects. In mathematical… read more here.
Keywords: tumor samples; breast cancer; cancer; attraction ... See more keywords
A Computational Framework to Identify Biomarkers for Glioma Recurrence and Potential Drugs Targeting Them
Sign Up to like & getrecommendations! Published in 2022 at "Frontiers in Genetics"
DOI: 10.3389/fgene.2021.832627
Abstract: Background: Recurrence is still a major obstacle to the successful treatment of gliomas. Understanding the underlying mechanisms of recurrence may help for developing new drugs to combat gliomas recurrence. This study provides a strategy to… read more here.
Keywords: expression; gliomas; tumor samples; recurrence ... See more keywords
T-Cell Heterogeneity in Baseline Tumor Samples: Implications for Early Clinical Trial Design and Analysis
Sign Up to like & getrecommendations! Published in 2022 at "Frontiers in Immunology"
DOI: 10.3389/fimmu.2022.760763
Abstract: Background In early stage clinical trials, changes to levels of tumor infiltrating lymphocytes (TILs) in the tumor microenvironment (TME) are critical biomarkers of the mechanism of action of novel immunotherapies. However, baseline heterogeneity of tumor… read more here.
Keywords: clinical trial; heterogeneity; baseline; tumor samples ... See more keywords