Curator Dashboard

DataLad data distribution. Super dataset collating DataLad datasets from various sources including OpenNeuro, CRCNS, etc., to provide unified access to over 200TB of neural data.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Yaroslav Halchenko

Web application to design gRNA sequences. Uses algorithms to identify sgRNA target sequences in any nucleotide sequence for use in CRISPR/Cas mediated genome editing. Used for fast CRISPR target site identification. Enables designing of multiple libraries and creates genome scale libraries for several organisms in few hours.

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• RRID-Legacy
• 6 years ago - by Anonymous

Software tool to allow managing files with git, without checking file contents into git. While that may seem paradoxical, it is useful when dealing with files larger than git can currently easily handle, whether due to limitations in memory, time, or disk space.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Yaroslav Halchenko

Core facility at Djavad Mowafaghian Centre for Brain Health located at University of British Columbia Hospital on Point Grey campus in Vancouver, BC. NINC offers access to advanced imaging systems and computational resources including confocal and two photon microscopes,live cell imaging, optical coherence tomography, training students and researchers in neuroscience research techniques.

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

Core offers central service that uses genomic technologies combined with expert data analysis.Provides genomic analyses and bioinformatics as well as technical and scientific consultation,collaboration and initial data interpretation to all UH faculty with priority given to Cancer Center members with federal funding for cancer related projects. Offers expertise in molecular biology, genetics, genomics and bioinformatics, and can provide project planning, advice, and troubleshooting at all phases of the project.Genomic analysis services include DNA/RNA isolation, plating, and quality analysis, custom genotyping, Real-Time qPCR-based gene expression, copy number and methylation assays, pyrosequencing, Affymetrix and Illumina microarray based assays,Next Generation Sequencing on NextSeq500, iSeq100, NanoString nCounter analysis.

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

Software tool to help humans interactively assess artifacts or situations against set of rules. Model consists of n-dimensional space and decision graph that guides users through that space using questions. Open source software tool for DataTags Decision Graph language, used to create questionnaires and tag spaces. Can be used to perform interactive interviews which yield concrete treatment that is both human readable and machine actionable. Models can also be visualized, and can be analyzed to find caveats or loopholes.

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

Software package to quickly transform microscope images into quality figures. User friendly tool for creating and formatting scientific figures, can export files into popular softwares like Adobe Illustrator, Microsoft Powerpoint, and Inkscape.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Tracey Weissgerber

Mass spectrometry screening software for confirmation of target or suspect compounds, and for identification of unknown analytes. Advanced data mining and processing options let find all detectable compounds and confirm targets or identify unknowns. Results can be displayed using data reporting with either preconfigured reports that simplify basic analyses, or completely customized PDF reports.

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• RRID-Legacy
• 6 years ago - submitted by Young-ki Hong

Software tool as bisulfite sequencing analysis platform. Offers support for bisulfite sequencing read simulation, alignment, methylation calling, data aggregation, and data imputation. Works with array of bisulfite sequencing data,including whole genome bisulfite sequencing, reduced representative bisulfite sequencing data, and targeted methylation sequencing data.

• Resource
• SciCrunch
• 6 years ago - submitted by colin farrell

Integrated long non coding RNA knowledgebase to explore lncRNA biology in context of tissue of interest, disease of interest, or simply browse by names. Knowledgebase of tissue specific functional annotation and trait association of long noncoding RNA.

• Resource
• dkNET
• 6 years ago - submitted by Ko-Wei Lin

International initiative led by team of researchers and clinicians and supported by the US Cystic Fibrosis Foundation that seeks to provide complete, advanced and expert reviewed functional and clinical information on CFTR mutations. Provides information for patients, researchers, and general public about specific variants. For each variant or variant combination included in database, website will provide information about whether variant or variant combination is CF-causing, and information about sweat chloride, lung function, pancreatic status, and Pseudomonas infection rate in patients in CFTR2 database with this variant or variant combination.

• Resource
• RRID-Legacy
• 6 years ago - by Anonymous

Software tool as method for identification of driving transcriptional programs based on AutoEncoder derived Relevance scores. Infers relevance scores for transcriptional programs with respect to specified outcomes of interest in single-cell RNA sequencing data, such as psuedotemporal ordering or disease status.Used for manifold interpretation in scRNA-seq data.

• Resource
• SciCrunch
• 6 years ago - submitted by Lukas Simon

Open access tool to convert, cross-match, and link various lipid annotations to tools supporting lipid ontology, pathway, and network analysis aiming systems wide integration and functional annotation of lipidome dynamics in health and disease.Data transfer hub to support integration of large scale lipidomics datasets.

• Resource
• dkNET
• 6 years ago - submitted by Ko-Wei Lin

Expert curated resource that provides framework for integration of lipid and lipidomic data with biological knowledge and models. Provides curated knowledge of lipid structures and metabolism which is used to generate in silico library of feasible lipid structures. These are arranged in hierarchical classification that links mass spectrometry analytical outputs to all possible lipid structures, metabolic reactions and enzymes. Provides reference namespace for lipidomic data publication, data exploration and hypothesis generation.

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• dkNET
• 6 years ago - submitted by Ko-Wei Lin

Atlas includes co-registered templates constructed from MR images frequently used to characterize macroscopic brain structure T2/SPACE and T1/MP-RAGE, and diffusion tensor imaging template.

• Resource
• NIF
• 6 years ago - by Anonymous

Software tool as tutorial for genome annotation using Augustus and PASA pipelines. Annotation of Hapalochlanea maculosa genome. Contains all scripts and code required to reproduce annotation of Blue Ringed Octopus genome.

• Resource
• RRID-Legacy
• 6 years ago - by Anonymous

Spanish public university with campus in Leon and Ponferrada.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Edyta Vieth

Open source data platform and multidisciplinary online repository where research groups and different organizations store and make public their datasets, managed by Scayle. Collection of public datasets are available through open.scayle.es and can be reused. NetFlow is network protocol developed by Cisco for collection and monitoring of network traffic flow data generated. Netflow datasets have been used to train machine learning models.

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• RRID-Legacy
• 6 years ago - submitted by Ignacio Crespo

The mass spectrometry core facility offers instrumentation for characterizing elements and compounds across the entire mass range from quantitative metal analysis to intact protein mass measurement. Instrumentation is also available for proteomics, metabolomics, MALDI imaging and HDX-MS. Specialized mass spectrometers encompass variety of ionization techniques and separation devices to cover wide range of analytical capabilities. The facility accepts samples and will perform requested analysis. Staff can also offer training to conduct experimentation. Instrumentation include Bruker timsTOF fleX, Thermo Orbitrap Fusion, Bruker Microflex and ultrafleXtreme MALDI-TOF, Agilent GC-MS, Waters Xevo TQD with UPLC, Waters Synapt G2Si with full HDX automation, Perkin Elmer NexION ICP-MS

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

Collegiate research university, located in the city of York, England. Established in 1963, the university has expanded to more than thirty departments and centres, covering a wide range of subjects.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Edyta Vieth