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Search Results for: macromolecular particle size

Total Results Found: 136

Effect Size, p-value, and Accuracy

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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...

R Introductory Series: Play with the theme to make this a bit nicer. Change font style to "Times". Change all font sizes to 12 pt font. Bold the legend title and the axes titles. Increase the size of the points on the plot to 2. Bonus: fill the points with color and have a black outline around each point.

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Bioinformatics

{{Sdet}} Solution{{Esum}} ggplot ( iris ) + geom_point ( aes ( Petal.Length , Petal.Width , fill = Species ), size = 2 , shape = 21 ) + coord_fixed ( ratio = 1 , ylim = c ( 0 , 2.75 ), xlim = c ( 0 , 7 )) + scale_y_continuous ( breaks = c ( 0 , 0.5 , 1 , 1.5 , 2 , 2.5 )) + scale_x_continuous ( breaks = c ( 0 , 1 , 2 , 3 , 4 , 5 , 6 , 7 )) + scale_fill_ Read More...

Past Seminars

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Confocal

2024 Date: Tuesday, October 15, 2024 Time and Location: 11 am EST, ZOOM (INVITATION BY LMIG LIST SERVER) Speaker: Dr. Diego Presman (U Buenos Aires) Title: “Insights on Glucocorticoid Receptor Activity Through Live Cell Imaging” Summary: Eucaryotic transcription factors ( Read More...

Bioinformatics for Beginners 2022: Terms to know

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Bioinformatics

Normalization - the process of scaling data to account for uncontrolled factors affecting variation. Effect size - "the quantitative measure of the magnitude of a phenomenon" (Biostar Handbook). P-value - "the probability Read More...

Biophysics Core Facility (BCF)

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Biophysics Core Facility assists NIH investigators in measuring molecular interactions and in characterizing macromolecular properties. This includes binding studies of proteins, DNA, RNA, and their ligands in buffers, cell lysate, plasma, and other media. We Read More...

NIH Intramural CryoEM Consortium (NICE)
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...

R Introductory Series: Nice plot example

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Bioinformatics

These steps can be used to create a publish worthy figure. For example, let's create a volcano plot of our differential expression results. A volcano plot is a type of scatterplot that shows statistical Read More...

Microbiome Analysis with QIIME2: Differential abundance testing

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Bioinformatics

Differential abundance testing examines which taxa are significantly different in abundance between conditions. However, challenges such as sparsity, compositionality, and library size differences make this challenging to determine.

Bioinformatics for Beginners 2022: Learning objectives

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Bioinformatics

This lesson will provide an overview of Database for Annotation, Visualization and Integrated Discovery (DAVID) . We will Provide some background on DAVID, including what it does statistical methods that it uses some expected outputs data Read More...

Center for Structural Biology: Biophysics Resource
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...

CCR Protein Characterization Laboratory (PCL)
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...

Biophysics Core Technologies

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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...

NCI Center for Structural Biology: Crystallization Facility
Frederick, MD

Collaborative

The Crystallization Facility provides an automated environment for setting up crystallization experiments in a high-throughput format, storing the resulting plates under controlled conditions, and monitoring the status of prepared droplets remotely. The Facility is in Read More...

Newsletter Archive

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NHLBI Biophysics Core
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...

NIBIB Biomedical Engineering and Physical Science (BEPS)
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...

Protein Characterization Laboratory

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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...

Multi-Angle Light Scattering (MALS)

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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...

CREx Newsletter Archive

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Mass Photometer (MP) – Refeyn OneMP

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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...

Publications

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Confocal

2024 Coutinho, L. L., Femino, E. L., Gonzalez, A. L., Moffat, R. L., Heinz, W. F., Cheng, R. Y. S., Lockett, S. J., Rangel, M. C., Ridnour, L. A. & Wink, D. A. NOS2 and Read More...

Getting Started with scRNA-Seq Seminar Series: The data

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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...

Getting Started with scRNA-Seq Seminar Series: The data

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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...

R Introductory Series: Colors

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Bioinformatics

ggplot2 will automatically assign colors to the categories in our data. Colors are assigned to the fill and color aesthetics in aes() . We can change the default colors by providing an additional layer to our Read More...

Data Wrangling with R: Colors

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Bioinformatics

ggplot2 will automatically assign colors to the categories in our data. Colors are assigned to the fill and color aesthetics in aes() . We can change the default colors by providing an additional layer to our Read More...

Microbiome Analysis with QIIME2: What is rarefaction?

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Bioinformatics

Rarefaction is the process of subsampling reads without replacement to a defined sequencing depth, thereby creating a standardized library size across samples. Any sample with a total read count less than the defined sequencing depth Read More...

Data Wrangling with R: Challenge Question

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Bioinformatics

Using the boxplot you created above, reorder the x-axis so that color is organized from worst (J) to best (D). There are multiple possible solutions. Hint: Check out functions in the forcats package (a tidyverse Read More...

Microbiome Analysis with QIIME2: Rarefaction

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Bioinformatics

To rarefy or not to rarefy? Feature tables are composed of sparse and compositional data. Measuring microbial diversity using 16S rRNA sequencing is dependent on sequencing depth. By chance, a sample that is more deeply Read More...

Data Wrangling with R: Plotting with ggplot2

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Bioinformatics

For the following plots, let's use the diamonds data ( ?diamonds ). The diamonds dataset comes in ggplot2 and contains information about ~54,000 diamonds, including the price, carat, color, clarity, and cut of each diamond. --- R4 Read More...

Data Wrangling with R: DNAnexus Basics

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Bioinformatics

DNAnexus Basics Setting up the R-Studio environment outside of Class hours These instructions should be followed if you are setting up the R-Studio Web environment outside the normal class hours. Log into DNAnexus Each student Read More...

Bioinformatics for Beginners 2022: Learning objectives

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Bioinformatics

This lesson will provide an overview of the Database for Annotation, Visualization and Integrated Discovery (DAVID) . We will Provide some background on DAVID, including what it does statistical methods that it uses some expected outputs Read More...

Bioinformatics for Beginners 2022: Normalization

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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...

Bioinformatics for Beginners 2022: What is the SRA?

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Bioinformatics

The SRA (Sequence Read Archive) at NCBI is a large, public database of DNA sequencing data. The repository holds "short reads" generated by high-throughput next-generation sequencing, usually less than 1,000 bp. We will download Read More...

April 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Extramural Common Fund Resources Metabolomics Workbench Developed by the NIH Metabolomics Common Fund's National Metabolomics Data Repository ( Read More...

Electron Microscopy

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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...

March 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Intramural CryoEM (NICE) Consortium NICE provides NCI, NIAID, NIEHS, NICHD, NIDCR, NEI, and NIA investigators with Read More...

Technology Video Library

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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...

Microfluidic Diffusion Sizing (MDS) - Fluidity One-M

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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...

NICE-NIH Intramural CryoEM Consortium

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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...

September Newsletter 2022 (3)

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September 8, 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...

July 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New CREx User Survey The CREx Team is carrying out a CREx User Survey. We would greatly appreciate Read More...

August 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New CREx User Survey The CREx Team is carrying out a CREx User Survey. If you haven’t Read More...

Fluorescence – PTI/Horiba QuantaMaster

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Back Services: Biophysics Facility offers fluorometers as open-access instruments.  First-time users must complete a short training session before gaining access to the instrument reservation calendar. Location: Building 50, room 3226 Description: Some substances reemit light after Read More...

Statistical Support at ABCS
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...

Visium Spatial Gene Expression Technology

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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...

NCI Patient-Derived Models Repository (PDMR)
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...

NIH Clinical Center Clinical Image Processing Service (CIPS)
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...

CCR Spatial Imaging Technology Resource (SpITR)
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...

Data Wrangling with R: Putting it all together

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Bioinformatics

Load in the comma separated file "./data/countB.csv" and save to an object named gcounts . {{Sdet}} Solution } gcounts `...1` colnames ( gcounts )[ 1 ] ## 1 Tspan6 703 567 867 71 970 242 ## 2 TNMD 490 482 18 342 935 469 ## 3 DPM1 921 797 622 661 8 500 ## 4 SCYL3 335 216 222 774 979 793 ## 5 FGR 574 574 515 584 941 344 ## 6 CFH 577 792 672 104 192 936 ## 7 FUCA2 798 766 995 27 756 546 ## 8 GCLC 822 874 923 705 667 522 ## 9 NFYA 622 793 918 868 334 64 {{Edet}} Plot the Read More...

Microbiome Analysis with QIIME2: Beta Diversity

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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...

Microbiome Analysis with QIIME2: Course Wrap-Up

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Bioinformatics

Lesson 7: Course Wrap-Up Learning Objectives Introduce the QIIME2 microbiome workflow for Biowulf Review key concepts Showcase additional plugins QIIME 2 on Biowulf As mentioned previously, QIIME 2 is installed on Biowulf. To see available versions use module Read More...