Bethesda, MD
Collaborative
The Mass Spectrometry Unit of the Collaborative Protein Technology Resource uses mass spectrometry for the study of proteins. We perform collaborative experiments with CCR researchers in areas such as: interactomes, quantitative global proteome analyses, and Read More...
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Bioinformatics
10/08/2024 - Mass spectrometry is a powerful tool for analyzing protein regulation and function. This workshop, divided into two parts, will explain the fundamentals of mass spectrometry experiments and how proteins are identified. We will further Read More...
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Bioinformatics
Quantitation Counting as a measure of Expression Most RNASEQ techniques deal with count data. The reads are mapped to a reference and the number of reads mapped to each gene/transcript is counted Read counts Read More...
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Bioinformatics
11/28/2023 - Recent advances in protein structure prediction methods such as AlphaFold2 and ESMFold has enabled protein structure prediction to achieve experimental accuracy in certain cases. In this talk, we will discuss the advantages and limitations Read More...
Frederick, MD
Core Facility
Protein Characterization Laboratory (PCL) offers various technologies to CCR investigators to characterize proteins and metabolites. The laboratory develops and applies state-of-the-art analytical technologies, primarily mass spectrometry, liquid chromatography, and Surface Plasmon Resonance (SPR), to advance Read More...
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Protein/Protein Interaction Database Through a license agreement with Elsevier, the CCR community has access to the largest Y2H data set available in the world (CCR Database of Antibodies and Protein Interactions, C-DAPI). This Read More...
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Mass Spectrometry Section of the Collaborative Protein Technology Resource (Bldg. 37) Core Capabilities: Identification of proteins in complexes, organelles, subcellular fractions, or fluids. Global relative protein quantitation. Quantitation by isotopic labeling of cells in culture (SILAC) Read More...
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Protein Characterization Laboratory (PCL) offers various technologies to CCR investigators to characterize proteins and metabolites. The laboratory develops and applies state-of-the-art analytical technologies, primarily mass spectrometry, liquid chromatography, and Surface Plasmon Resonance (SPR), to advance Read More...
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Bioinformatics
09/13/2023 - FORGEdb is a web-based tool that can rapidly integrate data for individual genetic variants, providing information on associated regulatory elements, transcription factor (TF) binding sites and target genes for over 37 million variants. 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
09/11/2024 - Qlucore Omics Explorer is a point-and-click package available to NCI CCR scientists that enables visualization-based analysis of multi-omics data including RNA-seq, scRNA-seq, proteomics, metabolomics, as well as enabling the use of machine learning classification Read More...
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Bioinformatics
18S rRNA - Microbial eukaryotes 18S rRNA (ITS1, ITS2) - Fungi COI of mtDNA (cytochrome c oxidase) - Animals
Frederick, Maryland
Core Facility
The Protein Expression Laboratory produces proteins to help CCR investigators achieve their research goals with the lowest possible cost in the shortest time. PEL is operated by Leidos Biomedical Research Inc. on behalf of NCI Read More...
Frederick, MD
Collaborative
The primary objective of the Protein Technology Core (PTC) is to establish an experimental screening pipeline for single-domain antibodies termed nanobodies. Nanobodies are antibody fragments consisting of a single monomeric variable antibody domain. The PTC, Read More...
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Bioinformatics
RNASEQ looks at steady state mRNA levels which is the sum of transcription and degradation Protein levels are assumed to be driven by mRNA levels RNASEQ can measure relative abundance not absolute abundance RNASEQ is Read More...
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Bioinformatics
This is similar to mv but will create an actual copy of a file. You will need to specify what you are copying (the source) and where you want to make the copy (the target). Read More...
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Bioinformatics
03/10/2025 - AI Club is a weekly meeting that explores various topics relating to AI and deep learning in biomedical sciences, typically in a seminar, workshop, or journal club format. AI Club is intended to be Read More...
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Bioinformatics
01/27/2025 - AI Club is a weekly meeting that explores various topics relating to AI and deep learning in biomedical sciences, typically in a seminar, workshop, or journal club format. AI Club is intended to be Read More...
Rockville, MD
Repositories
Trans NIH Facility
Thousands of molecular targets have been measured in the NCI panel of 60 human tumor cell lines. Measurements include protein levels, RNA measurements, mutation status, and enzyme activity levels. You can choose to search for a Read More...
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Bioinformatics
05/15/2024 - In this one-hour webinar, you'll get a demonstration of DNASTAR Lasergene Software. DNASTAR offers software solutions for molecular biology, protein analysis, and genomics. This presentation will focus on an overview of the applications Read More...
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Bioinformatics
Query: the sequence that we are looking to match. Target: the database (collection of sequences) that we are searching for matches. Subject: the sequence entry in the target that produced an alignment. Score: the alignment Read More...
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Bioinformatics
Reads not perfect Duplicate molecules (PCR artifacts skew quantitation) Multimapped reads - Some regions of the genome are thus classified as unmappable Aligners try very hard to align all reads, therefore fewest artifacts occur when Read More...
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Back Services: Biophysics Facility offers MDS as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Training includes the KD determination of a standard molecular Read More...
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Bioinformatics
This is similar to mv but will create an actual copy of a file. You will need to specify what you are copying (the source) and where you want to make the copy (the target). Read More...
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Bioinformatics
04/01/2025 - Whether you are measuring mRNA expression, protein expression, DNA methylation, expressed miRNAs, protein binding to DNA or RNA, etc., you will likely end up with a list of genes or gene products from which Read More...
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Bioinformatics
The Advanced Biomedical Computational Science (ABCS) group focuses on applications of bioinformatics, computational and data science, and artificial intelligence to support NCI researchers. ABCS provides: • Subject matter expertise in genomics, proteomics, and imaging. • Machine learning/ Read More...
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Bioinformatics
PCoA was included by default in our core-metrics-phylogenetic pipeline. Because these are longitudinal data, we will customize the axis to include the varaible, week-relative-to-hct . qiime emperor plot \ --i-pcoa diversity-core-metrics-phylogenetic/unweighted_unifrac_pcoa_results.qza \ --m-metadata-file / Read More...
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Bioinformatics
First, we perform the ordination. qiime diversity umap \ --i-distance-matrix diversity-core-metrics-phylogenetic/unweighted_unifrac_distance_matrix.qza \ --o-umap uu-umap.qza qiime diversity umap \ --i-distance-matrix diversity-core-metrics-phylogenetic/weighted_unifrac_distance_matrix.qza \ --o-umap wu-umap.qza Then we use emperor Read More...
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Bioinformatics
Aligners typically align against the entire genome and provide a output where the results can be visibly inspected (bam file via IGV). The must be used for detecting novel genes/transcripts. Quantitation of aligned reads Read More...
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Bioinformatics
A typical RNASEQ experiment involves several steps, only one of which falls within the realm of bioinformatics. Namely the Data Analysis step. Experimental Design What question am I asking How should I do it (does Read More...
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Bioinformatics
Most RNASEQ techniques deal with count data. The reads are mapped to a reference and the number of reads mapped to each gene/transcript is counted Read counts are roughly proportional to gene-length and abundance Read More...
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Bioinformatics
There are a number of specific solutions that have been devised to address the issues created by attempting to map mRNA to DNA genomes. Each of these has its advantages and disadvantages. Align against the Read More...
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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New NIH Resource Resources Derive Greater Insights and Accelerate your Research Using Bioinformatic Tools! CREx is an NIH Read More...
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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New NIH Resource Spotlight The NIH Lab Managers Working Group have developed a new NIH-wide database of cold 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...
Frederick, MD
Core Facility
The research conducted within the Synthetic Biologics Core (SBC) Facility has a dual role: Generate chemical biology tools and drug candidates for molecular targets identified by NCI research groups, Develop novel effective methods and tools Read More...
Research Training Park, NC
Core Facility
Trans NIH Facility
The Trans-NIH Metabolomics Core (TNMC) is a shared research resource that performs metabolomics analysis (and related small molecule research) for investigators at all Institutes and Centers across the NIH Intramural Research Program. The TNMC is Read More...
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Bioinformatics
RNA-SEQ Overview What is RNASEQ ? RNA-Seq (RNA sequencing), uses next-generation sequencing (NGS) to reveal the presence and quantity of RNA in a biological sample at a given moment. (Wikipedia) Strictly speaking this could be any Read More...
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Bioinformatics
06/20/2025 - Emerging artificial intelligence—e pecially generative model and deep learning—i tran forming biomedical and biological cience. In thi talk, Profe or Juexin Wang of Indiana Univer ity will pre ent ca e tudie Read More...
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Bioinformatics
06/16/2025 - In 2017, Dr. Rol joined the World Health Organization' International Agency for Re earch on Cancer (IARC-WHO), motivated to improve equal acce to high-quality healthcare for everyone. Currently, he lead an IARC team dedicated to Read More...
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Bioinformatics
05/01/2025 - In this webinar, the participants will learn about application of machine learning methods, specifically geared towards predicting the toxicity of target molecules. They will gain insights into various machine learning techniques, fostering a comprehensive Read More...
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Bioinformatics
04/10/2025 - The cost of handling rare and/or late-stage diseases far exceeds preventative strategies. Cell and gene therapies can be quite cost-effective when applied at large population scales (e.g. pandemic vaccines and transfusions). AI 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
03/11/2025 - Clustering is an unsupervised machine learning technique that groups together similar objects (samples, individuals, etc.). Determining the similarity between objects requires a distance metric. This talk provides a brief overview of distance metrics, hierarchical ( Read More...
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Bioinformatics
10/24/2024 - NIH Text Mining and Natural Language Processing SIG is pleased to welcome you to this special event featuring two extraordinary speakers focused on the applications of Deep Learning in Computational Biology. & Read More...
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Bioinformatics
09/13/2024 - Reverse-phase protein arrays (RPPAs) represent a powerful functional proteomic approach to elucidate cancer-related molecular mechanisms and develop novel cancer therapies. To facilitate community-based investigation of the large-scale protein expression data generated by Read More...
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Bioinformatics
09/12/2024 - Dr. Nussinov will highlight some scientific questions bordering on physics and biology, where fundamental physics and chemistry can help biology. They span the behavior of a bird, protein activation, signaling in cancer, and neurodevelopmental Read More...
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Bioinformatics
07/11/2024 - Please join us for this special event featuring three speakers on the topic of Single-Cell Spatial Transcriptomics. George Zaki, Ph.D., Director, Applied Scientific Computing, BACS, The Frederick National Lab for Cancer Research, NCI/ Read More...
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Bioinformatics
In addition to the Heatmap and the FeaturePlot shown previously, two other options easily accessible through Seurat are the Dot Plot and Violin Plot. The dot plot can visualize relative expression level and expression fraction. Read More...
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Bioinformatics
05/14/2024 - This presentation will explain the difference between the mean and standard deviation of a set of values and the standard error of the mean. The parameters involved in comparing two normally distributed populations relative Read More...
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Bioinformatics
03/12/2024 - In this webinar, the participants will learn about application of machine learning methods, specifically geared towards predicting the toxicity of target molecules. They will gain insights into various machine learning techniques, fostering a comprehensive Read More...
Web Page
Bioinformatics
By targeting 16S rRNA, we want to target bacteria and archaea. Therefore, we can exclude sequences that are unexpected such as those from chloroplasts or mitochondria. By setting --p-include p__ , we are retaining only sequences Read More...
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Bioinformatics
12/06/2023 - This presentation will provide a one-hour overview demonstration on Geneious Prime, a software platform for molecular biology and sequence analysis. It is built to be highly visual, easy to use, and collaborative. & Read More...
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Bioinformatics
Primary purpose of BLAST is to search a collection of target sequences that match a query sequence. See the BLAST interface at NCBI BLAST tools (blastn, blastp, blastx, tblastn, tblastx and more) Each tool can Read More...
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Bioinformatics
Learn the basic structure of a unix command Learn how to navigate our file system, including absolute vs relative directories Learn unix commands related to navigating directories, creating files and removing files or directories, and Read More...
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Bioinformatics
Before diving into differential expression analysis, it is important to take a brief look at the concept of normalization. After obtaining expression counts, we will need to normalize the counts before performing differential expression analysis. Read More...
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Bioinformatics
As with any language, the learning curve for Unix can be quite steep. However, to get started analyzing data you really need to understand the following: Directory navigation: what the directory tree is, how to Read More...
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Bioinformatics
As with any language, the learning curve for Unix can be quite steap. However, to get started analyzing data you really need to understand the following: Directory navigation: what the directory tree is, how to Read More...
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Bioinformatics
Mostly Computational intensive task requiring signigicant computer hardware. Quality Control Sample quality and consistency Is Trimming appropriate - quality/adaptors Alignment/Mapping Reference Target (Sequence and annotation) Alignment Program Alignment Parameters Mark Duplicates Post-Alignment Quality Read More...
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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...
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
Repositories
The National Cancer Institute (NCI) is developing a national repository of Patient-Derived Models (PDMs) comprised of patient-derived xenografts (PDXs), patient-derived organoids (PDOrg), and in vitro patient-derived tumor cell cultures (PDCs) and cancer-associated fibroblasts (CAFs). These Read More...
Web Page
CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Technology Event Biophysical Methods for Protein Interactions Monday, May 15 – Friday, May 19, 2023 This workshop will review the strategies 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...
Bethesda, MD
Collaborative
The Antibody Engineering Program (AEP) is located at the Laboratory of Molecular Biology, which is part of the Center for Cancer Research (CCR), an intramural program at the National Cancer Institute (NCI). AEP focuses on Read More...
Frederick, MD
Collaborative
The Antibody Characterization Laboratory (ACL) is the laboratory responsible for the development of well-characterized monoclonal antibody reagents. The NCI’s Office of Cancer Clinical Proteomics Research funds ACL as a resource to the entire cancer 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...
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Back Services: Biophysics Facility offers Tycho as an open-access instrument. This instrument is very easy to use, and no formal training is required. Core staff will help with their first experiment of new Read More...
Frederick, MD
Collaborative
The Center for Advanced Preclinical Research (CAPR) specializes in evaluating the efficacy of preclinical compounds, existing drugs, or biologics (therapeutics) in genetically engineered mouse models, GEM-derived allograft (GDA) models, or patient-derived mouse xenografts (PDX). We Read More...
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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.
Rockville, MD
Collaborative
We are a bioinformatics team within the Center for Biomedical Informatics and Information Technology’s (CBIIT’s) Cancer Informatics Branch (CIB)—soon to be referred to as the Informatics and Data Science (IDS) Program. Headed 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...
Bethesda, MD
Core Facility
The Genomics and Pharmacology Facility is part of the NCI's Center for Cancer Research (CCR), within the Developmental Therapeutics Branch. Its mission is to manage and assess molecular interaction data obtained through multiple platforms, increase Read More...
Frederick, MD
Core Facility
The Biophysics Resource (BR) was established in January 2001. Our mission is to provide CCR investigators with access to both the latest instrumentation and expertise in characterizing the biophysical aspects of systems under structural investigation. The Read More...
Frederick, MD
Collaborative
The Molecular Targets Program (MTP) is an organizational entity within the Center for Cancer Research (CCR) at NCI. The MTP provides the focus and infrastructure to enable CCR tenured and tenure-track Principal Investigators to initiate Read More...
Bethesda, MD
Core Facility
Trans NIH Facility
The NHLBI Transgenic Core’s main mission is to keep up with the latest advancements in genome engineering technologies and to provide state-of-the-art services to assist NIH scientists in generating genetically engineered animal models. In Read More...
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Back Services: Biophysics Facility offers DSC as an open-access instrument. First-time users must complete training before gaining access to the instrument reservation calendar. Location: Building 50, room 3123 Description: The differential scanning calorimeter measures the constant pressure Read More...
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Bioinformatics
Lesson 2: Navigating file systems with Unix Quick review Unix is an operating system We use a unix shell (typically bash) to run many bioinformatics programs We need to learn unix to use non-GUI based tools Read More...
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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...
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Bioinformatics
First Unix command (ls) ls You may see something like this: public reads.tar sample.fasta sample.fastq The "ls" command "lists" the contents of the directory you are in. You Read More...
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Bioinformatics
First Unix command (ls) ls You may see something like this: public reads.tar sample.fasta sample.fastq The "ls" command "lists" the contents of the directory you are in. You Read More...
Web Page
Bioinformatics
First Unix command (ls) ls You may see something like this: public reads.tar sample.fasta sample.fastq The "ls" command "lists" the contents of the directory you are in. You Read More...
Web Page
Bioinformatics
First Unix command (ls) ls You may see something like this: public reads.tar sample.fasta sample.fastq The "ls" command "lists" the contents of the directory you are in. You Read More...
Web Page
Bioinformatics
Why Learn Bioinformatics? Analyze your own data Expand scientific training and skills Provide a path to a new career Have a better understanding of how other people analyze data What is Unix? an operating system, Read More...
Web Page
Bioinformatics
Why Learn Bioinformatics? Analyze your own data Expand scientific training and skills Provide a path to a new career Have a better understanding of how other people analyze data What is Unix? an operating system, Read More...
Web Page
Bioinformatics
Why Learn Bioinformatics? Analyze your own data Expand scientific training and skills Provide a path to a new career Have a better understanding of how other people analyze data What is Unix? an operating system, Read More...
Web Page
Bioinformatics
Why Learn Bioinformatics? Analyze your own data Expand scientific training and skills Provide a path to a new career Have a better understanding of how other people analyze data What is Unix? an operating system, Read More...
Web Page
Bioinformatics
First Unix command (ls) ls You may see something like this: public reads.tar sample.fasta sample.fastq The "ls" command "lists" the contents of the directory you are in. You Read More...
Web Page
Bioinformatics
09/29/2025 - Plea e u e thi link to acce overview, regi tration, and other information: http ://event .cancer.gov/nci/od -data-jamboree Childhood cancer i a rare di ea e with ~15,000 ca e diagno ed Read More...
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Bioinformatics
06/13/2025 - Dr. Fuhai Li,&nb p;A ociate Profe or at the chool of Medicine and Computer cience & Engineering, Wa hington Univer ity, will pre ent novel approache that combine large language Read More...
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Bioinformatics
05/16/2025 - This one-day in-person NIH AI Symposium will bring together researchers from a broad range of disciplines to share their AI-related research, with the goal of disseminating the newest AI research, providing an opportunity to Read More...
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Bioinformatics
04/28/2025 - In partnership with the NIH Clinical Center's Biostatistics and Clinical Epidemiology Service (BCES), the NIH Library is offering a several trainings that cover general concepts behind statistics and epidemiology. These trainings will help Read More...
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Bioinformatics
Long read sequencing was recently named 2022’s method of the year by Nature Methods . Long read sequencing technologies, those that generate sequence reads with lengths of 10s of kilobases or longer have several advantages over Read More...
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Bioinformatics
12/09/2024 - In partnership with the NIH Clinical Center's Biostatistics and Clinical Epidemiology Service (BCES), the NIH Library is offering classes geared to cover general concepts behind statistics and epidemiology. This four-part lecture series will Read More...
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Bioinformatics
10/09/2024 - This session will give an overview of the NCI Cancer Research Data Commons and the variety of available cancer data such as RNA expression and protein abundance. These data are hosted in openly accessible Read More...
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Bioinformatics
10/07/2024 - This one hour training, presented by speakers from NIH Cloud Lab , will provide an overview of the generative artificial intelligence (AI) services across three major cloud service providers (CSPs), including Amazon Web Services (AWS), Read More...
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Bioinformatics
06/20/2024 - Clustered heat maps are widely used for visualizing patterns in molecular profiling data. But traditional, static heat maps have significant limitations when applied to large datasets (1000s of elements per axis). Presented in this Read More...
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Bioinformatics
In this tutorial, we are using data from Nanduri et al. 2022, Epigenetic regulation of white adipose tissue plasticity and energy metabolism by nucleosome binding HMGN proteins , published in Nature Communications . The raw count matrices are Read More...
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Bioinformatics
In this tutorial, we will continue to use data from Nanduri et al. 2022, Epigenetic regulation of white adipose tissue plasticity and energy metabolism by nucleosome binding HMGN proteins , published in Nature Communications . As a reminder, Read More...
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Bioinformatics
In this tutorial, we will continue to use data from Nanduri et al. 2022, Epigenetic regulation of white adipose tissue plasticity and energy metabolism by nucleosome binding HMGN proteins , published in Nature Communications . As a reminder, Read More...
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Bioinformatics
In Seurat (since version 4), differential analysis requires a preprocessing step to appropriately scale the normalized SCTransform assay across samples: adp = PrepSCTFindMarkers(adp) Found 8 SCT models. Recorrecting SCT counts using minimum median counts: 8146 As covered earlier, Read More...
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Bioinformatics
05/15/2024 - To register to attend, you must log in to your SITC Cancer Immunotherapy CONNECT account. Don’t have an account? Create a free one . Join Dr. Karchin of the Johns Read More...
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Bioinformatics
05/06/2024 - Have you been looking for ways to use artificial intelligence (AI) in clinical practice but not sure where to start? Attend this webinar for tips from Dr. Anant Madabhushi on applying AI in precision Read More...
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Bioinformatics
04/22/2024 - Intended Audience This webinar targets researchers interested in exploring genomic mutation analysis capabilities within the recently introduced NCI Genomic Data Commons (GDC) 2.0 platform. It aims to accommodate individuals interested in analyzing genes and mutations Read More...
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Bioinformatics
03/22/2024 - This 3-hour seminar is tailored for biologists, data analysts, and researchers who are eager to dive into the essentials of computational flow cytometry analysis using R. Flow cytometry is a crucial technique in cell Read More...
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Bioinformatics
Because we are working on DNAnexus, and our files will not remain at the end of each class, we aren't going to use a R project for all lessons. However, it is worth creating Read More...
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Bioinformatics
01/19/2024 - Trey Ideker, Ph.D., is a professor of medicine, bioengineering, and computer science, and former chief of genetics at the University of California San Diego (UCSD). Additionally, he is director or co-director of the Read More...
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Bioinformatics
12/18/2023 - In partnership with the NIH Clinical Center's Biostatistics and Clinical Epidemiology Service (BCES), the NIH Library is offering classes geared to cover general concepts behind statistics and epidemiology. This four-part lecture series will Read More...
Web Page
Bioinformatics
Lesson 6 . Learning Objectives Introduce several beta diversity metrics Discover different ordination methods Learn about statistical methods that are applicable Beta diversity Beta diversity is between sample diversity. This is useful for answering the question, how Read More...
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Bioinformatics
The QIIME2 platform can be used for different types of -omics data. For this course, we will be focusing on targeted amplicon sequencing of the 16S rRNA gene. The 16S rRNA gene (~1500 bp) codes for Read More...
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Bioinformatics
Bray-Curtis dissimilarity quantitative Takes into consideration abundance and presence absence Jaccard - qualitative - presence / absence - percentage of taxa not found in both samples Weighted UniFrac quantitative similar to Bray-Curtis but takes into consideration Read More...
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Bioinformatics
The recommended method involves applying a scikit-learn multinomial naive Bayes classifier. This uses machine learning to train a classifier on a referene database and then use the trained classifier to classify your ASVs. These classifiers Read More...
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Bioinformatics
Now that we know what we mean by denoising, let's apply it to our data. We will use DADA2 , which seems to be the more popular method. To use DADA2, we need to make Read More...
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Bioinformatics
Luckily, there is a q2-longitudinal plugin to handle dependent longitudinal data. The q2-longitudinal plugin includes: interactive plotting (e.g., volatility plots) linear mixed effects models paired differences and distances non-metric microbial interdependence testing ( Read More...
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Bioinformatics
NCI scientists have many choices available to them for bioinformatic analyses of Next Generation Sequencing (NGS) data. While some require expertise in programming, others provide a more user-friendly, point-and-click interface. These options include programs for Read More...
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Bioinformatics
10/03/2023 - Multiplexed antibody-based imaging enables the detailed characterization of molecular and cellular organization in tissues. Significant advances in the field now allow high-parameter data collection (60+ targets); however, considerable expertise and capital are needed to validate Read More...
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Bioinformatics
09/27/2023 - Partek Flow is your start-to-finish solution for analyzing high dimensional multi-omics sequencing data. It is a point-and-click software and is suitable for those who wish to avoid the steep learning curve associated with analyzing Read More...
Bethesda, MD
Core Facility
The CPP is directly responsible for the pharmacokinetic (PK) analysis of numerous Phase I and II clinical trials conducted within the NCI. In addition, the CPP provides direct PK support for many studies performed elsewhere Read More...
Web Page
The Genomics Laboratory (formerly Laboratory of Molecular Technology) is an integrated, high-throughput molecular biology laboratory focusing on the development of genetics and genomics technologies, together with associated laboratory automation systems, data analysis, and information management Read More...
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The Antibody Engineering Program (AEP) is part of the Center for Cancer Research (CCR) at the National Cancer Institute (NCI). The program focuses on generating therapeutic antibodies by phage display technology, including human antibodies and Read More...
Rockville, MD
Trans NIH Facility
The Chemistry and Synthesis Center (CSC) of the National Heart, Lung, and Blood Institute (NHLBI) provides IRP scientists with targeted imaging probes and chemical tools that help accelerate cell-based assays, in vivo imaging studies, and 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...
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CREx News & Updates June 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Click below to learn how easy it is to navigate the CREx platform. These short videos will Read More...
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The OSTR offers cutting-edge technology platforms to the CCR scientific community through centralized facilities. The videos accessed through this page are designed to introduce the various scientific methodologies OSTR makes available through the cores on Read More...
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October 6, 2022 crex.nih.gov CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Science & Technology Seminars and Training Events Upcoming Seminars and Educational Opportunities The following Read More...
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Back Services: Biophysics Facility offers MP as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument training calendar. Training includes mass distribution analysis of a Read More...
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Large STARS can be used to request supplemental funding exceeding $8,000 to offset experimental costs (e.g., core or vendor services or specialized reagents). Applications require detailed scientific and budgetary justification and must be proposed in Read More...
Bethesda, MD
Core Facility
The CCR Building 41 Flow Cytometry Core is a full-service facility within the Center for Cancer Research that supports over 150 users representing 26 laboratories. The Core Facility provides instrument and software training, technical expertise, assay development, and Read More...
Rockville, MD
Collaborative
Repositories
The NCI Cloud Resources are components of the NCI Cancer Research Data Commons (CRDC) that bring data and computational power together to enable cancer research and discovery. These cloud-based platforms eliminate the need for researchers Read More...
Frederick, MD
Core Facility
The Advanced Biomedical Computational Sciences (ABCS) group provides technology development, scientific consultation, collaboration and training, research, software development, and high-performance computing support. ABCS encompasses specialized groups focusing on machine learning applied to the interpretation of 2 Read More...
Bethesda, MD
Core Facility
The core provides access to several different state-of-the-art 3D microscopes as well as computers to visualize and process image data. The facility houses equipment for 2D or 3D imaging of fixed and living specimens. High Read More...
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Bethesda, MD
Trans NIH Facility
The Clinical Image Processing Service (CIPS) offers timely and accurate advanced image processing of diagnostic radiology images for clinical care, research, and training. CIPS’ functions include clinical services and scientific researches. Established Technologies: CIPS can Read More...
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The NIH Intramural Research Program Collaborative Research Exchange (CREx) The Collaborative Research Exchange (CREx) is an online CCR marketplace where investigators can search, browse, and request information for research services, technologies, or custom products (antibody Read More...
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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...
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Services: Biophysics Facility offers CD as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Location: Building 50, room 3123 Description: CD spectroscopy measures the difference Read More...
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CREx News & Updates July 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGHLIGHTS Learn more about services from the NHLBI Read More...
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Back Services: Biophysics Facility offers CD as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Location: Building 50, room 3123 Description: CD spectroscopy measures the Read More...
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Back Services: Biophysics Facility offers ITC calorimeters as open-access instruments. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Training includes performing a test experiment and Read More...
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Supplemental Technology Award Review System (STARS) Overview STARS Request Form STARS System The Supplemental Technology Award Review System (STARS) is a web-based interface for submission and review of S&S supplement requests by CCR Read More...
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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More. New Resources on CREx NIMH Human Brain Collection Core (HBCC) The HBCC obtains human brain tissue, hair, and blood Read More...
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Back Services: Biophysics Facility offers MST as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Training includes the KD determination of a Read More...
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OSTR provides CCR investigators with access to a variety of software licenses for genomic, proteomic, pathway analysis and data visualization tools. These software are funded by OSTR and made available at no cost to CCR Read More...
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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New Resources on CREx NCI CLIA Molecular Diagnostics Laboratory (CMDL) The NCI CMDL is available to assist all Read More...
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Many established and emerging technologies are available to CCR scientists. This technology-rich environment makes the CCR a unique place to conduct scientific research. Through the OSTR, the CCR continues to find Read More...
Bethesda, MD
Collaborative
Repositories
The NCI Genomic Data Commons (GDC) was established by the NCI Center for Cancer Genomics (CCG) to support the receipt, harmonization, distribution, and analysis of genomic and clinical data from cancer research programs. The GDC Read More...
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Back Services: Biophysics Facility offers DLS as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Training includes DLS analysis of small- and large-molecular size Read More...
Bethesda, MD
Trans NIH Facility
The Biomedical Engineering and Physical Science (BEPS) shared resource supports NIH’s intramural basic and clinical scientists on applications of engineering, physics, imaging, measurement, and analysis. BEPS is centrally located on the main NIH campus 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...
Bethesda, MD
Core Facility
The Biophysics Core’s mission is to provide support in the study of macromolecular interactions, dynamics, and stability by offering consultations, training, professional collaborations, and instrument access. General Services: Multi-technique molecular interaction studies, Kinetic and 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...
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Back Services: We offer a limited sample processing service using standard SEC-MALS and FFF protocols. This service is intended for the occasional users of this system. Researchers who expect to use this instrument Read More...
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Back Services: We offer a limited sample processing service using standard SEC-MALS and FFF protocols. This service is intended for the occasional users of this system. Researchers who expect to use this instrument 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...
Bethesda, MD
Core Facility
The rapid advancement of single-cell technology has provided new powerful tools to answer many biological questions, such as identifying new or rare cell populations and characterizing the complexities of tumor heterogeneity. Realizing the great potential Read More...
Bethesda, MD
Trans NIH Facility
The NIH Center for Human Immunology, Inflammation, and Autoimmunity (CHI) is a trans-NIH resource whose mission is to provide a collaborative hub of advanced translational immunology for NIH clinical and pre-clinical studies. This uniquely structured Read More...
Frederick, MD
Core Facility
Clinical Support Laboratory – Cellular Immunology offers a spectrum of bioassays to assess cellular responses to antigens and mitogens including ELISPOT, cytotoxicity assays, and proliferation assays. Established Technologies Elispot Assays, Dual or Triple Color Fluorospot Assays, Read More...
Bethesda, MD
Trans NIH Facility
NIH Intramural CryoEM Consortium (NICE) serves intramural investigators in all NIH IC’s. NICE provides access to state-of-the-art Titan Krios cryo-electron microscopes for atomic-resolution structure determination of protein, macromolecular complexes, membrane receptors, cellular organelles, and Read More...
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...
Frederick, MD
Core Facility
The centrally funded Statistics team within the Advanced Biomedical Computational Science group at the Frederick National Lab provides statistical consultation and data analysis support for NCI laboratories. We have broad-range expertise in biomedically relevant areas Read More...
Bethesda, Maryland
Collaborative
Radiation Oncology Branch is part of CCR. Bioinformatics core is a collaborative resource to support ROB branch and provide service to ROB investigators from NCI and other Institutes access to new technologies, bioinformatics, statistical analysis Read More...
Bethesda, MD
Core Facility
The PPS encompasses all scientific analyses related to pharmacology, once the specimen has been collected and stored. There is a multi-step process to evaluate how the drug is being handled by the body after administration. Read More...
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CREx News & Updates August 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGHLIGHTS Learn more about services from the NHLBI Read More...
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[tabby title="Home"] About NICE-NIH Intramural CryoEM Consortium NIH Intramural CryoEM Consortium (NICE) serves intramural investigators in all NIH IC’s. NICE provides access to state-of-the-art Titan Krios cryo-electron microscopes for atomic-resolution structure determination of Read More...
Bethesda, MD
Trans NIH Facility
The NIH Biowulf Cluster provides researchers with a world-class system to assist in solving complex biomedical problems as diverse as gene variation in worldwide human populations, deep learning to model protein structures, and PET brain Read More...
Bethesda, MD
Core Facility
The Flow Cytometry Core (LGI) offers established technologies to support studies using flow cytometry and cell sorting. Established Technologies Applications that run on FACS Caliburs include: Immunophenotyping (up to 4-color), Intracellular markers, including cytokines and 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...
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Bioinformatics
1. Introduction and Learning Objectives This tutorial has been designed to demonstrate common secondary analysis steps in a scRNA-Seq workflow. We will start with a merged Seurat Object with multiple data layers representing multiple samples that Read More...
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Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Obtain RNA-seq test data. The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . Read More...
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Bioinformatics
Lesson 1: Introduction to Biowulf, Unix, and R Learning Objectives Learn about why you may want to use R on Biowulf. Refresh Unix and R skills. This lesson will not be hands on. Why use R Read More...
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Bioinformatics
Introduction to R and RStudio IDE Objectives To understand: 1. the difference between R and RStudioIDE. 2. how to work within the RStudio environment including: creating an Rproject and Rscript navigating between directories using functions obtaining help 3. Read More...
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Bioinformatics
General questions or comments about the BTEP program or classes should be addressed to: NCIBTEP@nih.gov Desiree Tillo, Ph.D . Staff Scientist desiree.tillo@nih.gov I have a broad research background in bioinformatics Read More...
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Bioinformatics
Listed below are the video recordings of past BTEP events (classes, seminars, workshops). Videos are hosted on various servers and may play slightly differently. Some videos may be downloaded for local viewing. Recorded Videos of Read More...
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Bioinformatics
Clustering is used to group cells by similar transcriptomic profiles. Seurat uses a graph based clustering method. You can read more about it here . The first step is to compute the nearest neighbors of each Read More...
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Bioinformatics
Learning Objectives This tutorial was designed to demonstrate common secondary analysis steps in a scRNA-Seq workflow. We will start with a merged Seurat Object with multiple data layers representing multiple samples. Throughout this tutorial we Read More...
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Bioinformatics
This lesson provides an introduction to R in the context of single cell RNA-Seq analysis with Seurat. Learning Objectives Learn about options for analyzing your scRNA-Seq data. Learn about resources for learning R programming. Learn Read More...
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Bioinformatics
Learning Objectives To understand: 1. the difference between R and RStudioIDE. 2. how to work within the RStudio environment including: creating an Rproject and Rscript navigating between directories using functions obtaining help how R can enhance data Read More...
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Bioinformatics
Lesson 4: Feature table filtering, taxonomic classification, and phylogeny Learning objectives learn how to apply different types of filtering to your ASV table and representative sequence data. classify your ASVs. Generate a phylogenetic tree. Now that Read More...
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Bioinformatics
Lesson 2: Getting Started with QIIME2 Lesson Objectives Obtain sequence data and sample metadata Import data and metadata Discuss other useful QIIME2 features including view QIIME2, provenance tracking, and the QIIME2 forum. DNAnexus DNAnexus provides a Read More...
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Bioinformatics
Lesson 5: Microbial diversity, alpha rarefaction, alpha diversity Learning Objectives Understand the difference between alpha and beta diversity Introduce several alpha diversity metrics Understand what rarefaction is and why it is important Introduce the debate regarding 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
09/06/2023 - With the advancements in single cell and spatial profiling technologies and methods, some of us thought it would be helpful to re-establish a community of end users on campus. We invite those that are Read More...