Curator Dashboard

Supports next generation sequencing technologies and provides several next generation sequencing instruments. Several high-throughput technologies have been implemented to assess differential expression, inter-individual genetic variation, microRNA discovery, genome sequencing, targeted resequencing, epigenetic profiling and identification of binding sites of DNA or RNA-associated proteins.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Provides services of consultation, planning NGS and other genomic experiments, NGS data processing, analysis and management, software and database development, bioinformatics training, and access to high-performance computing resources at CRG. The Unit works in synergy with the Genomics Unit and the Biomolecular Screening and Protein Technologies Unit to support users using high throughput sequencing technologies from experiment planning to delivery of timely and reliable results.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Flow cytometry studies optical parameters emitted by particles (cells, cell fractions). Flow cytometers can study a series of parameters of individual particles simultaneously, quickly and on a large number of individualized particles in suspension. Flow cytometers use lasers as a source of light excitement; therefore, it must be possible to mark the particles with one or more fluorescent substances. Information is also collected regarding the size and structural complexity of each particle. This multiparameter study of each particle enables us to analyse subpopulations in complex samples through electronic sorting. Some cytometers are also equipped with sorting and collection modules for particles of interest. The most important applications of flow cytometry include those relating to the study of cell surface receptors, nuclear and cytoplasmic antigens, DNA content, enzyme activity, cell integrity and membrane permeability and calcium flows. The Unit currently hosts five analyzers and two sorters, and is therewith the largest Becton Dickinson site in Spain. The sorters are operated by the facility personnel, who also support the users in experimental design and data analysis. The analyzers are operated by the users themselves, after they have been trained. The facility personnel helps with the experimental design and supervises and monitors the experiments when necessary.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Core provides support with experimental design, sample preparation, acquisition, bioimage analysis and visualization.Consists of microscope systems specifically designed for fluorescence microscopy ranging from confocal, widefield to super resolution systems and helps reveal structures from macro to nanoscale.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Provides equipment and expertise for analysis of variety of biological and small molecules.Services include protein analysis encompassing protein identification, protein and peptide sequence confirmation, intact protein molecular weight determination, complex protein sample analysis, and protein/antibody drug interactions.Developed metabolomics library to support metabolomic and lipidomics analysis. Can identify range of post-translational modifications, determining their presence or absence, as well as quantitating PTMs.Proteomics and small molecule services include workflows for label free,chemical labeling (iTRAQ/TMT) and metabolic labeling (SILAC).Service for molecular synthesis, with monitoring reaction steps,calculating percentage of product, testing for purity, and molecule characterization with high resolution and high mass accuracy.Provides molecular weight and chemical composition determinations, structure elucidations and compound identification analysis or confirmation and accurate mass measurements of synthetic products, measurement of polymers, nucleic acids (DNA/RNA), peptides, proteins, natural products, and assistance with determination of unknowns.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software VH Lab tools for analysis of calcium imaging data. Allows selection of ROIs and extraction of time series data from raster-scanned, line-scanned, or CCD images, written in Matlab.

• Resource
• RRID
• 3 years ago - submitted by Stephen Van Hooser

Software tool as platform independent data interface and database for neuroscience physiology and imaging experiments. Platform independent standard that allows analyst to use and create software that functions independently from format of raw data or manner in which data are organized into files. Interface is rooted in simple vocabulary that describes common apparatus and storage devices used in neuroscience experiments. Results of analyses, and analyses of analyses, are stored as documents in scalable, queryable database that stores relationships and history among experiment elements and documents. Interface allows development of application ecosystem where applications can focus on calculation rather than data format or organization. This tool can be used by individual labs to exchange and analyze data, and it can serve to curate neuroscience data for searchable archives.

• Resource
• RRID
• 3 years ago - submitted by Stephen Van Hooser

Open source software analysis tool to investigate space plasma turbulence and nonlinear DYNamics. Wraps comprehensive set of advanced data analysis methods meant to facilitate study of turbulence, nonlinear dynamics, and complexity in space plasmas.

• Resource
• RRID
• 3 years ago - by Anonymous

Software package focused on automated delineation of major fiber tracts in individual human brains, and quantification of tissue properties within the tracts.Software for automated processing and analysis of diffusion MRI data. Automates tractometry.

• Resource
• RRID
• 3 years ago - submitted by Ariel Rokem

Software suite of automation tools, purpose-built to speed up multiple steps in systematic review process. Assist with many steps of systematic review, including searching for citations, citation screening and write-up of review findings, among others. Existing tools are being continuously reviewed and refined, and additional tools are being developed. Systematic Review Accelerator project is based at the Bond University Institute for Evidence-Based Healthcare.

• Resource
• RRID
• 3 years ago - by Anonymous

HTAN is National Cancer Institute funded Cancer Moonshot initiative to construct 3-dimensional atlases of dynamic cellular, morphological, and molecular features of human cancers as they evolve from precancerous lesions to advanced disease.Provides three dimensional atlases of cancer transitions for diverse set of tumor types. Efforts to map healthy organs and previous large-scale cancer genomics approaches focused on bulk sequencing at single point in time. Data portal for Human Tumor Atlas Network. Data available on HTAN Portal is open access. Certain data types with potential for re-identification are available in restricted access through dbGAP.

• Resource
• RRID
• 3 years ago - by Anonymous

Software critical appraisal tool for systematic reviews that include randomised or non-randomised studies of healthcare interventions, or both.Measurement tool to assess systematic reviews.

• Resource
• RRID
• 3 years ago - by Anonymous

Research assistant using language models like GPT-3 to automate parts of researchers’ workflows. Main workflow is Literature Review. If you ask question, Elicit will show relevant papers and summaries of key information about those papers in easy-to-use table.

• Resource
• RRID
• 3 years ago - by Anonymous

Productivity and collaboration PDF solution, combining Acrobat desktop software, mobile scan app, signature app and Acrobat Reader mobile app enhanced with premium mobile features and premium Document Cloud services.

• Resource
• RRID
• 3 years ago - by Anonymous

Provides definitions, explanations and examples of most important biases that can affect health research. Used to better understand persistent presence, diversity, and impact of biases. From original work by David Sackett.

• Resource
• dkNET
• 3 years ago - submitted by Maryann Martone

Software package as decision algorithms for solving binary classification problems. Faster and more frugal because every node allows making decision. Apart from being faster and requiring less information, FFTs tend to be robust against overfitting, and are easy to interpret, use, and communicate.

• Resource
• RRID
• 3 years ago - by Anonymous

Contains Viia7 RT-PCR system and QuantStudio software for running Viia7 RT-PCR system and processing data.

• Resource
• RRID
• 3 years ago - by Anonymous

Extension to PRISMA Statement for Reporting Literature Searches in Systematic Reviews. Preferred reporting items for systematic reviews and meta analyses literature search extension. Complements PRISMA Statement and its extensions by providing checklist that could be used by interdisciplinary authors, editors, and peer reviewers to verify that each component of search is completely reported and therefore reproducible.

• Resource
• RRID
• 3 years ago - by Anonymous

Collaborative MRI facility that is jointly operated by the University of Pittsburgh and Carnegie Mellon University. Research neuroimaging facility, with focus on advanced data analytics and basic science research. Designed to support basic science research and next generation of brain scientists.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Facility with two locations:Marley and Life Sciences North. Dedicated to acquisition of images for research, industrial and clinical applications.Marley location features inverted point scanning confocal microscope, upright confocal/multiphoton microscope with superresolution capabilities, fluorescence stereo microscope and research quality microwave. Life Sciences North location features superresolution fluoresence microscope:structured illumination, SIM; inverted multifunction widefield microscope:color brightfield, polarized light, fluorescence; image analysis workstation.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth