Bethesda, MD
Collaborative
Repositories
The National Clinical Trials Network Biospecimen Banks (NCTN) receive, store, and distribute human cancer biospecimens collected on NCTN clinical trials . NCTN Biobanks provide cancer researchers with quality, well-annotated biospecimens and associated clinical information. The NCTN Read More...
Bethesda, MD
Repositories
Trans NIH Facility
The CHTN is a unique NCI-supported resource that provides human tissues and fluids from routine procedures to investigators who utilize human biospecimens in their research. Unlike tissue banks, the CHTN works prospectively with each investigator Read More...
ROCKVILLE, MD
Repositories
The Specimen Resource Locator (SRL) is a biospecimen resource database designed to help researchers locate resources that may have the samples needed for their investigational use. This publicly searchable database includes information about biospecimen banks Read More...
Web Page
Employing spatial biology techniques enables acquisition of transcript and protein data from intact tissue sections, and in turn, spatial distribution information and cellular interaction patterns are revealed.
Web Page
Bioinformatics
03/11/2024 - This class is designed for those who want to extend the basics covered in the Introduction to Quarto for Scholarly Publishing class. In this class you will learn how to format tables, work with Read More...
Web Page
Bioinformatics
Once you have intiated your document, you can get started documenting your analysis. There are three basic components to a quarto document: yaml header (bracketed by --- ) The yaml header or file allows us to Read More...
Web Page
Bioinformatics
more object oriented ( . is an operator and should not be used to name variables) = assignment operator 33 reserved words help("keywords") lists use brackets [] , dictionaries use {} indentation is important (4 spaces) - defines blocks of Read More...
Web Page
Bioinformatics
more object oriented ( . is an operator and should not be used to name variables) = assignment operator 33 reserved words help("keywords") lists use brackets [] , dictionaries use {} indentation is important (4 spaces) - defines blocks of Read More...
Web Page
Bioinformatics
01/21/2025 - The "Data Visualization in R" series focuses on using ggplot and the broader tidyverse ecosystem to create insightful and customizable visualizations. It covers key principles of data visualization, from basic plots to Read More...
Web Page
Bioinformatics
09/17/2024 - This hour and half online training will explore the topics of perception and cognition, and how these apply to data visualization. This class will also teach you how to visualize your data using ggplot2. Read More...
Web Page
Bioinformatics
The course will include a series of eight lessons taught in 1-hour blocks over four weeks. Lessons will be on Tuesdays and Thursdays at 1 pm. Each lesson will be followed by an optional 1-hour help Read More...
Web Page
Bioinformatics
Quarto is installed with the latest versions of RStudio. When rendering a Quarto document (.qmd file), the code blocks are processed using either knitr or jupyter , which is converted to markdown. That markdown is then Read More...
Web Page
Bioinformatics
High resolution single cell profiling assays have provided an unprecedented view of many biological systems and processes, but the spatial context in which this biology is occurring is often crucial. Spatial profiling, including spatial transcriptomic Read More...
Web Page
Bioinformatics
The course will include a series of eight lessons taught in one to one hour and 15 minute blocks over four weeks. Lessons will be on Mondays and Wednesdays at 1 pm. Each lesson will be followed Read More...
Web Page
Bioinformatics
11/01/2022 - Join us to learn how Visium Spatial and Xenium In Situ platforms from 10x Genomics can help you push the boundaries of your research. Uncover molecular insights, dissect cell-type differences, investigate the adaptive immune Read More...
Web Page
Bioinformatics
When rendering a Quarto document (.qmd file), the code blocks are processed using either knitr or jupyter, which is converted to markdown. That markdown is then converted to the final format using pandoc. Image modified Read More...
Web Page
Bioinformatics
When rendering a Quarto document (.qmd file), the code blocks are processed using either knitr or jupyter, which is converted to markdown. That markdown is then converted to the final format using pandoc. Image modified Read More...
Web Page
Bioinformatics
### Load the libraries ```{{r}} #| message: false library(EnhancedVolcano) library(dplyr) ``` ### Load the data from command line arguments The data were filtered to remove adjusted p-values that were NA; these were genes excluded by `DESeq2` as Read More...
Web Page
Bioinformatics
R Console: library(quarto) quarto_render("Volcano_example.qmd") Shell: quarto render Volcano_example.qmd Note Enable caching of one or more cell blocks to speed up rendering. There are additional strategies here.
Web Page
What is Visium FFPE v2 with CytAssist? Visium FFPE v2 is sequencing-based spatial profiling technology developed by 10x Genomics. This assay can take mouse or human tissue sections on normal glass slides as input and Read More...
Frederick, MD
Core Facility
The FNLCR Molecular Histopathology Laboratory (MHL) provides comprehensive veterinary pathology support for animal health monitoring, biomarker discovery and validation, drug development, genomics, and proteomics on a cost recovered basis. The MHL is organized into multiple Read More...
Frederick, MD
Repositories
Trans NIH Facility
NCI maintains a low temperature repository of implantable in vivo-derived tumors and in vitro-established tumor cell lines from various species, which are available to qualified investigators as a service to the cancer research community. The Read More...
Web Page
Employing spatial biology techniques enables acquisition of transcript and protein data from intact tissue sections, and in turn, spatial distribution information and cellular interaction patterns are revealed.
Web Page
Employing spatial biology techniques enables acquisition of transcript and protein data from intact tissue sections, and in turn, spatial distribution information and cellular interaction patterns are revealed.
Web Page
Bioinformatics
03/04/2024 - This class is designed for those who want to extend the basics of R Markdown and apply those skills in Quarto. Quarto is an open-source scientific and technical publishing system that offers multilingual programming Read More...
Web Page
Bioinformatics
10/16/2012 - Fundamentals of DNA copy number analysis using Nexus Learn the basics of copy number analysis and its application to genomic research. Fundamental concepts such as copy number measurement methods, quality assessment, and different approaches/ Read More...
Web Page
Bioinformatics
Read the documentation! Know what the functions you use actually do. Read package vignettes. Keep your code neat and clean. You can do this by following a style guide, for example, the tidyverse style guide. Read More...
Web Page
Bioinformatics
You can merge several existing templates into one “Multi-Node” template (some parameters are shared across all templates). To do that, select your pre-arranged templates, right-click on one of them and choose the Create template option. Read More...
Web Page
Bioinformatics
### Load the libraries ```{{r}} library(EnhancedVolcano) library(dplyr) ``` ### Load the data from command line arguments We are also filtering the data to remove adjusted p-values that were NA; these were genes excluded by `DESeq2` as Read More...
Web Page
Bioinformatics
Without adding text, images, links, and other components, the Quarto document wouldn't be very useful. Prose can be added using markdown language; again, see the basics here. # Volcano Quarto Demonstration Here we will create Read More...
Web Page
Bioinformatics
Read the documentation! Know what the functions you use actually do. Read package vignettes. Practice! The more you engage with R programming the more proficient you will become. With time, handling error messages will become Read More...
Web Page
Bioinformatics
The yaml header or file allows us to control document level or project level options. Here, we can specify formats, themes, executable options, and others. --- title: "Volcano" author: "Alex Emmons, Ph. Read More...
Frederick, Maryland
Core Facility
CLIA-Certified Technologies Offered: Fragment Analysis for Micro-satellite Instability Detection, Pharmacoscan Array for Pharmacogenomics, Mutation Detection for PCR and Sanger Sequencing, DNA extraction from whole blood, saliva, FFPE tissues, buccal swabs, nails, hair, PBMCs, buffy coats, Read More...
Web Page
Biomarker Discovery with Morphological Context: Changing how tissue specimens are analyzed < https://youtu.be/mVhfZq8ppbc What is Digital Spatial Profiling? GeoMx Digital Spatial Profiler is a novel platform developed by NanoString. Digital Spatial Read More...
Web Page
The CLIA Molecular Diagnostics Laboratory (CMDL) provides an array of services for groups at the NIH Clinical Center, Fort Detrick, and Hood College, among others. They support cancer- and disease-related research by making Read More...
Bethesda, MD
Core Facility
The CCR Genomics Core is located in Building 41 on the NIH Bethesda campus. The primary goal of the Core is to provide investigators from CCR/NCI and other NIH Institutes access to genomic technologies and Read More...
Bethesda, MD
Collaborative
Our operational objectives are to provide state-of-the-art OMICS technologies in support of the Genetics Branch (GB) investigators and collaborators. Research Services Wet Lab Single cell isolation from fresh, frozen, and FFPE tissue, DNA/RNA extractions Read More...
Web Page
Bioinformatics
Course Overview Welcome to the R Introductory Series! A series of introductory lessons in R for scientists. This course will include a series of lessons for individuals new to R or with limited R experience . Read More...
Web Page
Bioinformatics
Objectives To explore Bioconductor, a repository for R packages related to biological data analysis. To learn about options for report generation with R: RMarkdown and Quarto. Introducing Bioconductor Bioconductor is both an open source project Read More...
Web Page
Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Learning objectives: 1. Understand what a sequence alignment is and how different algorithms can effect alignments. 2. Learn how scoring matrices and gap penalties (gap Read More...
Web Page
Bioinformatics
Course Overview Welcome to the R Introductory Series 2023 A series of introductory lessons in R for scientists. This course will include a series of lessons for individuals new to R or with limited R experience . Read More...
Web Page
Bioinformatics
05/06/2021 - Presenter : Adam J Gayoso, Streets and Yosef Groups at UC Berkeley Abstract : Probabilistic models have demonstrated state-of-the-art performance for many single-cell omics data analysis tasks, including dimensionality reduction, clustering, differential expression, annotation, removal of Read More...
Web Page
What is Xenium? Xenium is a high-resolution, imaging-based in situ spatial profiling technology from 10x Genomics that allows for simultaneous expression analysis of RNA targets (currently in range of 100’s) within the same tissue section. Read More...
Frederick, MD
Core Facility
The Genomics Technology Laboratory is an integrated, high-throughput molecular biology laboratory focusing on the development of genetics and genomics technologies, data analysis, and information management tools, in support of CCR Investigators. The laboratory develops integrated Read More...
Bethesda, MD
Collaborative
The Spatial Imaging Technology Resource (formerly the Nanoscale Protein Analysis Section of the Collaborative Protein Technology Resource or CPTR) provides expertise and service in state-of-the-art protein analysis technologies to advance CCR research in basic discovery Read More...
Web Page
Bioinformatics
Learning Objectives Learn about popular programming languagues in bioinformatics Compare advantages and disadvantages of Python and R Discuss what you will need to learn to use these languages Discuss learning resources Choosing a programming language Read More...
Web Page
Bioinformatics
Learning Objectives Learn about popular programming languagues in bioinformatics Compare advantages and disadvantages of Python and R Discuss what you will need to learn to use these languages Discuss learning resources Choosing a programming language Read More...