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Reporter: Danielle Smolyar, Research Assistant 3 – Text Analysis for 2.0 LPBI Group’s TNS #1 – 2020/2021 Academic Internship in Medical Test Analysis (MTA)  Reporting on a Study published on July 6, 2021 by  Oregon Health & Science University Recently, researchers have found many ways to manipulate and alter gene activity in specific cells. As a result […]

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Renal tumor macrophages linked to recurrence are identified using single-cell protein activity analysis Curator and Reporter: Dr. Premalata Pati, Ph.D., Postdoc When malignancy returns after a period of remission, it is called a cancer recurrence. After the initial or primary cancer has been treated, this can happen weeks, months, or even years later. The possibility […]

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Yet another Success Story: Machine Learning to predict immunotherapy response Curator and Reporter: Dr. Premalata Pati, Ph.D., Postdoc Immune-checkpoint blockers (ICBs) immunotherapy appears promising for various cancer types, offering a durable therapeutic advantage. Only a number of cases with cancer respond to this therapy. Biomarkers are required to adequately predict the responses of patients. This […]

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Inhibitory CD161 receptor recognized as a potential immunotherapy target in glioma-infiltrating T cells by single-cell analysis Reporter: Dr. Premalata Pati, Ph.D., Postdoc   Brain tumors, especially the diffused Gliomas are of the most devastating forms of cancer and have so-far been resistant to immunotherapy. It is comprehended that T cells can penetrate the glioma cells, […]

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Bioinformatic Tools for RNASeq: A Curation Curator: Stephen J. Williams, Ph.D.    Note:  This will be an ongoing curation as new information and tools become available. RNASeq is a powerful tool for the analysis of the transcriptome profile and has been used to determine the transcriptional changes occurring upon stimuli such as drug treatment or […]

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Complex rearrangements and oncogene amplification revealed by long-read DNA and RNA sequencing of a breast cancer cell line Reporter: Stephen J. Williams, PhD In a Genome Research report by Marie Nattestad et al. [1], the SK-BR-3 breast cancer cell line was sequenced using a long read single molecule sequencing protocol in order to develop one […]

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Single-cell RNA-seq helps in finding intra-tumoral heterogeneity in pancreatic cancer Reporter and Curator: Dr. Sudipta Saha, Ph.D. 4.3.6  Single-cell RNA-seq helps in finding intra-tumoral heterogeneity in pancreatic cancer, Volume 2 (Volume Two: Latest in Genomics Methodologies for Therapeutics: Gene Editing, NGS and BioInformatics, Simulations and the Genome Ontology), Part 4: Single Cell Genomics Pancreatic cancer […]

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First Cost-Effectiveness Study of Multi-Gene Panel Sequencing in Advanced Non-Small Cell Lung Cancer Shows Moderate Cost-Effectiveness, Exposes Crucial Practice Gap WASHINGTON (June 27, 2019) — The results of the first economic modeling study to estimate the cost-effectiveness of “multi-gene panel sequencing” (MGPS) as compared to standard-of-care, single-gene tests for patients with advanced non-small cell lung […]

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#TUBiol5227: Biomarkers & Biotargets: Genetic Testing and Bioethics Curator: Stephen J. Williams, Ph.D. The advent of direct to consumer (DTC) genetic testing and the resultant rapid increase in its popularity as well as companies offering such services has created some urgent and unique bioethical challenges surrounding this niche in the marketplace. At first, most DTC […]

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Cancer Genomics: Multiomic Analysis of Single Cells and Tumor Heterogeneity Curator: Stephen J. Williams, PhD 4.3.7 Cancer Genomics: Multiomic Analysis of Single Cells and Tumor Heterogeneity, Volume 2 (Volume Two: Latest in Genomics Methodologies for Therapeutics: Gene Editing, NGS and BioInformatics, Simulations and the Genome Ontology), Part 4: Single Cell Genomics scTrio-seq identifies colon cancer lineages Single-cell […]

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