Frederick, Maryland
Core Facility
Repositories
The Biological Products Core provides the AIDS research community with high-quality purified preparations of various strains of Human Immunodeficiency Virus (HIV) and Simian Immunodeficiency Virus (SIV), economically prepared by leveraging the economy of scale. Materials Read More...
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Bioinformatics
This page uses information directly from the Biostar Handbook by Istvan Albert (PSU). Activate the bioinformatics environment and install some software as directed. conda activate bioinfo conda update -y blast conda install -y cd-hit pip Read More...
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Bioinformatics
Biostars: Bioinformatics Explained is a question and answer forum where researchers can obtain answers to questions ranging from simple to advanced in the fields of bioinformatics, computational genomics, and biological data analysis. The developers of Read More...
Frederick, MD
Collaborative
The Biopharmaceutical Development Program (BDP) provides resources for the development of investigational biological agents. The BDP supports feasibility through development and Phase I/II cGMP manufacturing plus regulatory documentation.The BDP was established in 1993. We Read More...
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Bioinformatics
Check for primers Generate an ASV count table and representative sequence file Understand the difference between OTU picking and denoising The two primary files that will be used throughout any microbiome analysis are the feature Read More...
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Bioinformatics
This course follows along closely with the Biostar Handbook content, and course registration comes with a Biostar Handbook license. You will receive an email from hello@biostarhandbook.com with information detailing how to set up Read More...
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Bioinformatics
Accessing the Biostar Handbook This course follows along closely with the Biostar Handbook content, and course registration comes with a Biostar Handbook license. You will receive an email from hello@biostarhandbook.com with information detailing Read More...
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Bioinformatics
The computational chemistry and protein modeling team in the Advanced Biomedical Computational Science (ABCS) group provides novel solutions in structural modeling and computational chemistry. Computational scientists in the group collaborate with NCI researchers by using Read More...
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Bioinformatics
An OTU is an operational taxonomic unit. This is derived by binning sequences at a certain threshold of similarity. This threshold is generally set at 97%, which is associated with a species level assignment. Clustering can Read More...
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Bioinformatics
10/04/2023 - Our series of talks continues this month with two 20-minute presentations. There will be light refreshments and we encourage attendees to stay and chat with colleagues after the presentations. & Read More...
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Bioinformatics
Another way to run BLAST is to create your own custom database, and search against it with query sequences. Usually you will not have to create your own blast database, you can download prebuilt databases Read More...
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Bioinformatics
A search may take place in nucleotide space, protein space or translated spaces where nucleotides are translated into proteins. Searches may implement search “strategies”: optimizations to a specific task. Different search strategies will produce different Read More...
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Bioinformatics
The bowtie2-build indexer builds a Bowtie index from a set of DNA sequences ([ref]. "bowtie2-build" builds a Bowtie index from a set of DNA sequences. "bowtie2-build" outputs a Read More...
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Bioinformatics
07/27/2023 - For 35 years, NCBI has collected a vast amount of sequence information including from a diverse array of organisms, including viruses, bacteria and fungi. With all of the databases and tools available& Read More...
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Bioinformatics
04/03/2020 - The emergence of SARS-CoV-2 in China has driven an enormous global effort to contribute and share genomic data in order to inform local authorities and the international community about key aspects of the outbreak. Read More...
Bethesda, MD
Core Facility
Trans NIH Facility
The Center of Cellular Engineering (CCE) is a comprehensive facility that develops and manufactures a wide range of cell and gene therapies for early phase clinical trials. The CCE is currently manufacturing chimeric antigen receptor ( Read More...
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Electron Microscopy Laboratory (EML) The EML offers investigators access to unique expertise and EM technologies that allow our partners to explore new avenues of research to enhance the knowledge of biological systems. To assist our Read More...
Frederick, MD
Collaborative
CCR VOLUME Electron Microscopy (CVEM) aims to develop new techniques in volume electron microscopy (vEM) and, in collaboration with CCR Investigators, apply these techniques to research cell biological questions well-suited for study by high-resolution 3D Read More...
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Protein Expression Laboratory The Protein Expression Laboratory develops, improves, and delivers protein-centric services. Our goal is to help client investigators achieve their research goals with the lowest possible cost in the shortest time. All PEL Read More...
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Bioinformatics
02/21/2024 - Dear colleagues, The Bioinformatics and Computational Biosciences Branch (BCBB) at NIAID invites you to join us for in-person hands-on workshops that will explore biovisualization techniques. Developers of UCSF ChimeraX and Cytoscape will be on Read More...
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Bioinformatics
Lesson 3: Creating a feature table Lesson Objectives Check for primers Generate an ASV count table and representative sequence file Understand the difference between OTU picking and denoising The two primary files that will be used Read More...
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Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Always remember to activate the bioinfo environment when working on Biostar class material. conda activate bioinfo Retrieving a FASTA genome from NCBI/GenBank Read More...
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Bioinformatics
From the publication REDO: Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak First we get the project (PRJN) number from the publication: PRJNA257197 Next we're going to query the "sra& Read More...
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Bioinformatics
We will build a database out of all features of the 2014 Ebola genome under accession number KM233118. This data will go into a new directory named "db_2014". mkdir -p db_2014 # Get the 2014 Ebola Read More...
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Bioinformatics
How can we better automate downloads from the SRA? For example, what if we want the sequence files from the publication Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak First we need Read More...
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Bioinformatics
Variant annotation means predicting the effects of genetic variants (SNPs, insertions, deletions, copy number variations (CNV) or structural variations (SV)) on the function of genes, transcripts, and protein sequence, as well as regulatory regions. The Read More...
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Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Always remember to start the bioinformatics environment when working on Biostar class material. conda activate bioinfo Let's start by creating a directory Read More...
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Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Remember to activate the bioinformatics environment and create a directory for today's work. conda activate bioinfo mkdir blast cd blast What is Read More...
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Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Remember to activate the bioinfo environment. conda activate bioinfo Then create a new directory for files we will be working with today in Read More...
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Bioinformatics
Here, we will download some high throughput genomic sequences from NCBI SRA. The data that we will download were derived from sequencing of the Zaire Ebola virus. See the NCBI SRA page for this study Read More...
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Bioinformatics
Here, we will download some high throughput genomic sequences from NCBI SRA. The data that we will download were derived from sequencing of the Zaire Ebola virus. See the NCBI SRA page for this study Read More...
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Bioinformatics
Tasks to do at the Analysis Wizard: Provide an input gene list (either copy paste or upload as a text file) Specify the gene identifier type. Gene identifiers can be gene symbol, Ensembl IDs, Entrez Read More...
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Back Services: Biophysics Facility offers Octet as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Training includes a full analysis of a Read More...
Frederick, MD
Core Facility
The Clinical Support Laboratory offers processing, tracking, and testing of a broad range of clinical samples. Support can begin at the early stages of clinical trial development to aid in developing a comprehensive strategy for Read More...
Frederick, MD
Collaborative
In order to meet increasing demands from both NIH intramural and extramural communities for access to a small angle X-ray scattering (SAXS) resource, the Center for Cancer Research (CCR) under the leadership of Drs. Jeffrey Read More...
Bethesda, MD
Collaborative
The Pan-Microbial Serology Facility (PMSF) is part of the Center for Cancer Research (CCR) at the National Cancer Institute (NCI). The PMSF focuses on determining individualized pan-microbial immune profiles associated with human diseases including immunological Read More...
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Home About the Biophysics Core Biophysics Core Services [tabby title="Instrumentation"] NHLBI Biophysics Core The Biophysics Core Facility: Overview Core Facilities provide scientific resources, cutting-edge technologies and novel approaches to support DIR scientists. Availability of Read More...
Frederick, MD
Core Facility
The introduction of DNA sequencing instruments capable of producing millions of DNA sequence reads in a single run has profoundly altered the landscape of genetics and cancer biology. Complex questions can now be answered at Read More...
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Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Review: * downloading data from SRA * decompressing tar files * e-utilities * fastq-dump Learn: * sra-stat * XML format * automating SRA downloads * working with comma-separated values (csv) format * Read More...
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Bioinformatics
This page uses context taken directly from the Biostar Handbook by Istvan Albert. Remember to activate the class bioinformatics environment. conda activate bioinfo Introduction to Genomic Variation Genomic variations are typically categorized into different classes Read More...
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Bioinformatics
Lesson 6: sra-tools, e-utilities, and parallel This page uses some content directly from the Biostar Handbook by Istvan Albert. Lesson 5 Review: The majority of computational tasks on Biowulf should be submitted as jobs: sbatch or swarm Read More...