Blog

A Support Vector Machine based method to distinguish long non-coding RNAs from protein coding transcripts

lncRNA

In recent years, a rapidly increasing number of RNA transcripts has been generated by thousands of sequencing projects around the world, creating enormous volumes of transcript data to be analyzed. An important problem to be addressed when analyzing this data is distinguishing between long non-coding RNAs (lncRNAs) and protein coding transcripts (PCTs). Thus, we present a Support Vector Machine (SVM) ...

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Female immune cells use lncRNA to keep their second X chromosome shut off

lncRNA

Autoimmune diseases tend to strike women more than men and having multiple X chromosomes could be the main reason why. While a process called X chromosome inactivation serves to balance out gene dosage between males and females, some genes on the “inactive X” chromosome in immune cells can sometimes escape this process, giving women an extra dose of immunity-related gene ...

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Analysis of lncRNA-Protein Interactions by RNA-Protein Pull-Down Assays and RNA Immunoprecipitation (RIP)

lncrna

Long noncoding RNAs (lncRNAs) have important roles in shaping chromatin by targeting chromatin-modifying enzymes to distinct genomic sites. This section covers two methods to analyze lncRNA-protein interactions. The RNA-protein pull-down assays use either bead-bound proteins to capture in vitro transcripts, or immobilized synthetic RNAs to bind proteins from cell lysates. In the RNA immunoprecipitation (RIP) assay, endogenous RNAs are co-immunoprecipitated ...

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Researchers find novel lncRNA mechanism of resistance to anti-cancer drugs

lncrna

The targeted anti-cancer therapies cetuximab and panitumumab are mainstays of treatment for advanced colorectal cancer, the second leading cause of cancer-related deaths in the United States. However, many patients have tumors with genetic mutations that make them resistant to these anti-epidermal growth factor receptor (EGFR) monoclonal antibodies, or the cancers develop resistance during treatment. Researchers seeking to understand mechanisms of ...

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lncRNA NEAT1 as a prognostic factor for survival of cancer

lncrna

Researchers at the Affiliated Hospital of Qingdao University conducted a meta-analysis to analyze available data to identify the prognostic role of NEAT1 in multiple carcinomas. A total of 12 studies with 3,262 cancer patients were pooled in the analysis to evaluate the prognostic value of NEAT1 in multiple tumors. High expression levels of NEAT1 were demonstrated to be associated with ...

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Post-doc position available – microRNA/lncRNA-influenza virus interactions

lncrna

Job Description: Postdoctoral Fellow position is available in the Oklahoma Center for Respiratory and Infectious Diseases and the Interdisciplinary Program in Regenerative Medicine at Oklahoma State University to study microRNA/LncRNA-influenza virus interactions, and/or engineering stem cells with non-coding RNAs for treating lung diseases. Responsible, dedicated, self-motivated and hard-working candidates are encouraged to apply. A background in lung diseases, influenza virus ...

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EVLncRNAs – the current largest database for experimentally validated lncRNAs

Long non-coding RNAs (lncRNAs) play important functional roles in various biological processes. Early databases were utilized to deposit all lncRNA candidates produced by high-throughput experimental and/or computational techniques to facilitate classification, assessment and validation. As more lncRNAs are validated by low-throughput experiments, several databases were established for experimentally validated lncRNAs. However, these databases are small in scale (with a few ...

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Prognostic and biologic significance of long noncoding RNA profiling in leukemia

lncRNA

Long non-coding ribonucleic acids (RNAs) are a novel class of RNA molecules, which are increasingly recognized as important molecular players in solid and hematologic malignancies. Herein, researchers from the Ohio State University Comprehensive Cancer Center investigated whether long non-coding RNA expression is associated with clinical and molecular features, as well as outcome of younger adults (aged <60 years) with de ...

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The lncRNA BORG Drives Breast Cancer Metastasis and Disease Recurrence

Long noncoding RNAs (lncRNAs) have emerged as potent regulators of breast cancer development and progression, including the metastatic spread of disease. Through in silico and biological analyses, investigators at Case Western Reserve University identified a novel lncRNA, BMP/OP-Responsive Gene (BORG), whose expression directly correlates with aggressive breast cancer phenotypes, as well as with metastatic competence and disease recurrence in multiple clinical cohorts. ...

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Post-doc Position Available – Digestive Diseases

lncRNA

David Geffen School Of Medicine – Medicine-Gastroenterology Recruitment Period – Open August 17th, 2017 through November 17th, 2017 Description The Padua lab has a keen interest in understanding gene regulation and signaling pathways in the context of complex biological phenomena. Our clinical interests are in inflammatory bowel disease (IBD) and colon cancer diagnosis. One focus of the lab will be ...

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