Tag: UCSF

SMARCE1 deficiency generates a targetable mSWI/SNF dependency in clear cell meningioma

Clapier, C. R., Iwasa, J., Cairns, B. R. & Peterson, C. L. Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes. Nat. Rev. Mol. Cell Biol. 18, 407–422 (2017). CAS  PubMed  PubMed Central  Article  Google Scholar  Mashtalir, N. et al. Modular organization and assembly of SWI/SNF family chromatin remodeling complexes….

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genetic epidemiology postdoc

Qualification Details. Objective/methods: This report investigates by histology, immunohistochemistry and in situ hybridization the histological and . Philip Lupo, Ph.D. Dr. Lupo is a co-principal investigator in the Systems Epidemiology of Cancer Training Program and an associate professor in the Section of Hematology-Oncology in the Department of Pediatrics. . «Genetic…

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Activation of STING by targeting a pocket in the transmembrane domain

Zhang, X., Bai, XC & Chen, ZJ Structures and mechanisms of the cGAS-STING innate immunity pathway. Immunity 5343–53 (2020). CAS PubMed Google Scholar Article Ishikawa, H. & Barber, GN STING is an endoplasmic reticulum adapter that facilitates innate immune signaling. Nature 455674–678 (2008). ADS CAS PubMed PubMed Central Article Google…

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Less Sleep, Better Sleep | Genomeweb

Based on their genetics, some people don’t need as much sleep as others, which could also influence their risk for disease, the Atlanta Journal-Constitution writes. Researchers from the University of California, San Francisco, have been studying people who only need four to six hours of sleep, less than the commonly…

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Introduction to ggplot2 with R – LibCal

Overview This is a hands-on workshop that covers how to use ggplot2 for common visualizations using the R programming language. It is not an introductory R programming workshop. See prerequisities below. Objectives In this workshop you will see how to use ggplot2 for: describing single variables and plotting simple…

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Novel CRISPR platform to decode the immune system

Date: 11th February 2022 The immune system is a critical biological network of processes that protects an organism from disease, and depends on the ability to distinguish self from non-self, a role driven by antigens.  In humans, T cells respond to antigen stimulation together with the production of cytokines however,…

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Novel CRISPR Tool Activates Instead of Editing Human Immune Cell Genes

Scientists at Gladstone Institutes and UC San Francisco (UCSF) say they have co-opted the CRISPR-Cas9 system to forcibly activate genes—rather than edit them—in human immune cells. The method, known as CRISPRa, lets them discover genes that play a role in immune cell biology more thoroughly and rapidly than previously possible,…

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Researchers use CRISPR activation method to reveal “Rosetta Stone” of immune cell function

SAN FRANCISCO, CA—February 4, 2022—CRISPR genome editing has served as a powerful tool for deleting or altering DNA sequences and studying the resulting effect. Now, researchers at Gladstone Institutes and UC San Francisco (UCSF) have co-opted the CRISPR-Cas9 system to forcibly activate genes—rather than edit them—in human immune cells. The…

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Modeling an Enzyme Active Site using Molecular Visualization Freeware

Visualizing biological macromolecules is a critical skill for students and professionals in the biological sciences. In this protocol, we demonstrate how to model the active site of the enzyme glucokinase using four freely available programs for molecular modeling. This tutorial highlights several steps of the protocol for each program, which…

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Bioconductor – HEEBOdata

    This package is for version 2.9 of Bioconductor; for the stable, up-to-date release version, see HEEBOdata. HEEBO set and HEEBO controls. Bioconductor version: 2.9 R objects describing the HEEBO oligo set. Author: Agnes Paquet Maintainer: Agnes Paquet <apaquet at medsfgh.ucsf.edu> Citation (from within R, enter citation(“HEEBOdata”)): Installation To…

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Biology Career Job Links

Web Resources Virtualab Home AgricultureBioinformaticsBiophysicsCancerCareerCellBiologyDevelopmentEcologyEducationFunGeneticsGenomicsHealthLabMicrobiologyMolecularMoleculeNeurosciencesPaleontologyPlantPolicySociety Instructionsupplierprotocol… Career Links AACC Onlin – American Association of Clinical Chemistry career center. Academia : Job listings in academia, major US universities, and positions in Australia, Canada, and Europe. Academic Employment Network: US academic positions. Academic network : Jobs in higher education. Academic, Physician…

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Bioconductor – marray

    This package is for version 2.13 of Bioconductor; for the stable, up-to-date release version, see marray. Exploratory analysis for two-color spotted microarray data Bioconductor version: 2.13 Class definitions for two-color spotted microarray data. Fuctions for data input, diagnostic plots, normalization and quality checking. Author: Yee Hwa (Jean) Yang…

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Junior Biostatistics Analyst job with University of California, San Francisco

Job Code and Payroll Title009403 BIOINFORMATICS PROGR 1 Job SummaryA smart hardworking individual with very strong communication and organizational skills is sought by the UCSF MS EPIC Study to serve as a Junior Biostatistics Analyst. Under direct supervision, individual will apply professional bioinformatics concepts and computational procedures to complete projects related…

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R Bioconductor Courses

Listing Results R bioconductor courses Bioconductor Introduction To R / Bioconductor Harvard Bioconductor.org All Courses 016-05-16 Just NowIntroduction to R / Bioconductor. Buffalo, NY. 2016-05-16 ~ 2016-05-17. Instructors. Martin Morgan; Lori Shepherd; Description. This is a two-day course introducing R and Bioconductor for the analysis and comprehension of high-throughput genomic…

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How to download data for visualising and analysing in RINalyzer in Cytoscape.

How to download data for visualising and analysing in RINalyzer in Cytoscape. 1 I am new to this plugin in Cytoscape. I want to visualise RIN from pdb and analyze the network. According to the tutorial we can download daat from RIN data websever. But when I am trying to…

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New Techniques and Complex Models

CRISPR systems that rely on inactivated Cas enzymes—that is, dead Cas (dCas) enzymes—never looked more alive. They harness the targeting power associated with CRISPR—but not the double-strand cuts. As such, they give researchers new ways to interrogate and manipulate gene function. Possibilities include CRISPR interference (CRISPRi) and CRISPR activation (CRISPRa)…

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Bioconductor – aCGH

    This package is for version 2.9 of Bioconductor; for the stable, up-to-date release version, see aCGH. Classes and functions for Array Comparative Genomic Hybridization data. Bioconductor version: 2.9 Functions for reading aCGH data from image analysis output files and clone information files, creation of aCGH S3 objects for…

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How to load Seurat Object into WGCNA Tutorial Format

As far as I can find, there is only one tutorial about loading Seurat objects into WGCNA (ucdavis-bioinformatics-training.github.io/2019-single-cell-RNA-sequencing-Workshop-UCD_UCSF/scrnaseq_analysis/scRNA_Workshop-PART6.html). I am really new to programming so it’s probably just my inexperience, but I am not sure how to load my Seurat object into a format that works with WGCNA’s tutorials (horvath.genetics.ucla.edu/html/CoexpressionNetwork/Rpackages/WGCNA/Tutorials/)….

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