Curator Dashboard

Software R tool for genome wide annotation for Rat, primarily based on mapping using Entrez Gene identifiers.

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

EMAL is part of University of Michigan’s School of Earth and Environmental Sciences. Houses CAMECA SX100 electron microprobes, Rigaku X-ray diffractometers, and JEOL JSM-7800FLV field-emission scanning electron microscope. These instruments are used by researchers for chemical and structural characterization of solid materials.

• Resource
• RRID
• 1 year ago - submitted by Edyta Vieth

A suite of software that allow users to capture, manage, and analyze effectively data from DNA microarray experiments. The suite of tools consist of four major applications, Microarray Data Manager (MADAM), TIGR_Spotfinder, Microarray Data Analysis System (MIDAS), and Multiexperiment Viewer (MeV), as well as a Minimal Information About a Microarray Experiment (MIAME)-compliant MySQL database, all of which are freely available to the scientific research community.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

Jupyter protocol implementation and client libraries. Part of Project Jupyter which exists to develop open-source software, open-standards, and services for interactive computing across dozens of programming languages. Jupyter-client contains reference implementation of Jupyter protocol and provides client and kernel management APIs for working with kernels.

• Resource
• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Islet Core provides consultative advice and equipment and services for isolation and study of pancreatic islet structure and function in support of diabetes-related research.

• Resource
• RRID
• 1 year ago - submitted by Edyta Vieth

By collecting and analyzing blood samples from Geisinger''s large patient population, MyCode will help unlock the mysteries of some of the most devastating and debilitating diseases. Blood samples are obtained from patients of certain Geisinger specialty clinics to study specific conditions, such as obesity and cardiovascular disease, and also from patients of Geisinger primary care clinics to provide a representative sample of the regional population. More than 60,000 samples from over 23,000 Geisinger patients have been collected so far, and sample collection is ongoing. MyCode researchers use the blood samples to study the genetic causes of diseases and certain disease-related molecular mediators. Knowledge gained from these studies will allow researchers to pursue innovative approaches to disease prevention, diagnosis and treatment. To be of value for Genomic Medicine research, bio-banked samples must be connected to clinical data: MyCode allows genetic and molecular data about the samples to be connected to medical data in a way that protects patient identity. When a patient agrees to participate in MyCode, blood samples for the MyCode Project are collected during blood draws ordered as part of the patient''s routine medical care. After the sample is drawn and labeled, a staff member from the Weis Center for Research transports the blood to the Geisinger Clinic Genomics Core (GCGC) where it is processed for storage. At this stage, all personal identification markers are removed and the samples are assigned a randomly-selected identification number. A secure key is maintained that allows approved researchers to connect the samples to the clinical data for genomic studies in a way that ensures confidentiality of the information. To maintain confidentiality of MyCode data the code linking the research numbers and the electronic health records are kept in a password-protected files accessible only to MyCode team members. Additionally, all results generated from the samples are reported as a group so that individuals are not identified. The samples are stored indefinitely.

• Resource
• SciCrunch
• 16 years ago - by Anonymous

Software suite that works by themselves, and with Amber20 itself. Can be used to carry out complete molecular dynamics simulations, with either explicit water or generalized Born solvent models.

• Resource
• SciCrunch
• 6 years ago - submitted by Nathan Anderson

• Resource
• RRID
• 1 year ago - submitted by Moira Sheehan

ToppGene Suite is a one-stop portal for gene list enrichment analysis and candidate gene prioritization based on functional annotations and protein interactions network. ToppGene Suite is a one-stop portal for (i) gene list functional enrichment, (ii) candidate gene prioritization using either functional annotations or network analysis and (iii) identification and prioritization of novel disease candidate genes in the interactome. Functional annotation-based disease candidate gene prioritization uses a fuzzy-based similarity measure to compute the similarity between any two genes based on semantic annotations. The similarity scores from individual features are combined into an overall score using statistical meta-analysis.

• Resource
• SciCrunch
• 15 years ago - by Anonymous

Interactive Python based interface to Rosetta molecular modeling suite. Stand alone Python based implementation of Rosetta molecular modeling package that allows users to write custom structure prediction and design algorithms using major Rosetta sampling and scoring functions.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Core mission is to advance environmental field research, engage students in scientific discovery, and provide information needed to understand and sustain ecosystems from local to global scales. Seek solutions to critical environmental challenges.

• Resource
• RRID
• 1 year ago - submitted by Edyta Vieth

The GO Slim Mapper (aka GO Term Mapper) maps the specific, granular GO terms used to annotate a list of budding yeast gene products to corresponding more general parent GO slim terms. Uses the SGD GO Slim sets. Three GO Slim sets are available at SGD: * Macromolecular complex terms: protein complex terms from the Cellular Component ontology * Yeast GO-Slim: GO terms that represent the major Biological Processes, Molecular Functions, and Cellular Components in S. cerevisiae * Generic GO-Slim: broad, high level GO terms from the Biological Process and Cellular Component ontologies selected and maintained by the Gene Ontology Consortium (GOC) Platform: Online tool

• Resource
• SciCrunch
• 15 years ago - by Anonymous

Web based application for visualization and presentation of HXMS data. Comprises tools helping in preparation of H/D experiments as well as tools for turning simple tables with data on H/D exchange into different ways of representation.

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

Core is unit of Department of Epidemiology at the University of Michigan’s School of Public Health. Offers support for clinical research projects throughout process of gathering samples, storing them, and coordinating the assay of the desired analytes. Offers collection kit designs tailor-made to your research study, with tubes and components labeled clearly with barcoded labels and unique sample IDs. Once collected, samples can be processed and stored in one of our 51 on-site ultra-low freezers or in our liquid nitrogen freezer, where their temperatures will be monitored 24/7. When all of the samples are collected, we can complete any combination of 40 different routine assays on them. We currently offer testing using ELISA plates, open channel chemistry analyzer, and coagulation analyzer.

• Resource
• RRID
• 1 year ago - submitted by Edyta Vieth

A community-driven ontology that is developed to standardize and integrate cell line information and support computer-assisted reasoning. Its focus is on permanent cell lines from culture collections. Upper ontology structures that frame the skeleton of CLO include Basic Formal Ontology and Relation Ontology. Cell lines contained in CLO are associated with terms from other ontologies such as Cell Type Ontology, NCBI Taxonomy, and Ontology for Biomedical Investigation. A common design pattern for the cell line is used to model cell lines and their attributes, the Jurkat cell line provides ane xample. Currently CLO contains over 36,000 cell line entries obtained from ATCC, HyperCLDB, Coriell, and bymanual curation. The cell lines are derived from 194 cell types, 656 anatomical entries, and 217 organisms. The OWL-based CLO is machine-readable and can be used in various applications. The CLO development has become a community effort with international collaborations. The development consortium includes experts from all over the world: the USA, Europe, and Japan.

• Resource
• SciCrunch
• 15 years ago - by Anonymous

Provides fermentation services. Produces range of bulk biologics including antimicrobials, cosmetic substrates, flavors/fragrances, biopesticides/bioherbicides and plasmid derived proteins, enzymes, growth factors and diagnostics. Exceptions for pathogenic or opportunistic organisms and mammalian and insect cell lines. Includes Material Preparation Laboratory,Fermentation In-Process/Computer Control,Product Recovery and Analytical Services.

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

Provides expertise through experimental design consultations,cell isolation,single cell analytics (RNA, DNA, protein),biomarker validation,novel statistical and bioinformatics analyses. Services include Single cell targeted gene expression, Single cell RNA Seq, Single cell DNA Seq, Tissue sectioning, Tissue spatial analysis, Spatial transcriptomics and proteomics.

• Resource
• RRID
• 1 year ago - submitted by Edyta Vieth

Free access to biomedical literature resources including all of PubMed and PubMed Central, agricultural abstracts (from AGRICOLA), over 4 million international life science patents abstracts, National Health Service (NHS) clinical guidelines, and is supplemented with Chinese Biological Abstracts and the Citeseer database. As well as powerful search of abstracts and full text articles, it also includes: * article citations and sort order based on citation count * data citations mined from full text articles * links to and from related databases and institutional repositories * a tool to create bibliographies linked to your ORCID * named entity recognition of keywords and text-mining-based applications showcased in Europe PMC Labs * Tools for recipients of grants from one of the Europe PMC funders to deposit full-text manuscripts and link them to those specific grants. * Web services for programmatic access to all the above bibliographic information and 50,000 grants. * Search by publication date, relevance, or the number of times an article has been cited. * Links to public databases such as UniProt, Protein Data Bank (PDBe), and the European Nucleotide Archive (ENA) are provided. * Through textmining technologies, you can highlight and browse keywords such as gene names, organisms and diseases. * Search 40,000 biomedical research grants awarded to the 18,000 PIs supported by the Europe PMC funders. * Roadtest new tools based on Europe PMC content in Europe PMC labs. * In Europe PMC plus, PIs supported by the Europe PMC funders can link grants to publication information, view article citation and download statistics, and submit manuscripts.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

Evidence based minimum set of items for reporting in systematic reviews and meta analyses. Focuses on reporting of reviews evaluating randomized trials, but can also be used as basis for reporting systematic reviews of other types of research, particularly evaluations of interventions.

• Resource
• SciCrunch
• 6 years ago - submitted by Anita Bandrowski

Core Facility provides technology, instrumentation, and expert support for applications, including Immunophenotyping, Cell cycle and proliferation analysis, Metabolic studies, Apoptosis detection, Fluorescent protein expression analysis, Cytokine, chemokine, and intra/extracellular protein detection.

• Resource
• SciCrunch
• 1 year ago - submitted by Edyta Vieth