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https://github.com/AntonioDeFalco/SCEVAN
Software R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.
Proper citation: SCEVAN (RRID:SCR_028766) Copy
https://www.menarinisiliconbiosystems.com
Biotechnology and diagnostics company specializing in "liquid biopsy" technologies to detect and isolate rare cells like circulating tumor cells (CTCs) from blood or tissue samples. They provide precise single-cell analysis tools used in cancer research and personalized medicine. Offers commercial rare-cell laboratory service providing CD138-positive immunomagnetic enrichment of plasma cells from peripheral blood and immunofluorescence-based plasma-cell identification and enumeration, delivering an enriched circulating multiple myeloma cell fraction for downstream analysis.
Proper citation: Menarini Silicon Biosystems Inc (RRID:SCR_028704) Copy
Automated platform used in behavioral neuroscience to track and analyze the movements and behaviors of lab animals, such as mice and rats. Standardizes experiments like the Elevated Plus Maze, Open Field, Barnes Maze, and Fear Conditioning. Tracks whole-body movement, distance traveled, freezing/immobility, and zone entries. Connects to external devices like food dispensers, shockers, and lasers to trigger automated responses based on the animal's actions.
Proper citation: Stoelting ANY-maze Video Tracking Software (RRID:SCR_028718) Copy
Advanced laboratory instrument used for absolute quantification of DNA and RNA. It partitions samples into 20,000 nanoliter sized droplets and uses 6-color multiplexing to test up to 12 targets per well with high sensitivity.
Proper citation: Bio-Rad: QX600 Droplet Digital PCR System (RRID:SCR_028830) Copy
https://github.com/Arcadia-Science/glass-box-umap
Software Python package for making UMAP interpretable with exact feature contributions. Used to explain why data points land in specific places on a UMAP map. Augments UMAP by computing exact feature contributions to the UMAP embedding. Standard UMAP produces embeddings but offers no insight into why points land where they do. Glass Box UMAP solves this by using a specially designed neural network that enables exact computation of feature contributions, and does so without approximations. The feature contributions are mathematically exact, validated to near machine precision.
Proper citation: Glass Box UMAP (RRID:SCR_028826) Copy
https://organism-tractability.arcadiascience.com/
Tractability atlas for experimental organism selection. Surveyable map of the practical tractability landscape organisms across the tree of life.
Proper citation: Organism Tractability Atlas (RRID:SCR_028829) Copy
A tool for creating logos representing both sequence alignments and profile hidden Markov models. The interactive logos enable scrolling, zooming, and inspection of underlying values. Skylign can avoid sampling bias in sequence alignments by down-weighting redundant sequences and by combining observed counts with informed priors. It also simplifies the representation of gap parameters, and can optionally scale letter heights based on alternate calculations of the conservation of a position.
Proper citation: Skylign (RRID:SCR_001176) Copy
https://github.com/Ensembl/WiggleTools
A multithreaded software library that computes statistics on large numbers of datasets, generating statistical summaries within minutes with limited memory requirements, whether on the whole genome or on selected regions.
Proper citation: WiggleTools (RRID:SCR_001170) Copy
http://ccb.jhu.edu/software/sim4cc/
Software tool as cross species spliced alignment program.Heuristic sequence alignment tool for comparing cDNA sequence with genomic sequence containing homolog of gene in another species.
Proper citation: sim4cc (RRID:SCR_001204) Copy
http://purl.bioontology.org/ontology/PHYLONT
Ontology for Phylogenetic Analysis
Proper citation: Phylogenetic Ontology (RRID:SCR_000912) Copy
http://www.omixon.com/data-analysis-and-pro/
Software application suite to help clinical labs adopt next generation sequencing for the analysis of diagnostic gene targets.
Proper citation: Omixon Target Data Analysis (RRID:SCR_001207) Copy
http://www.scienceexchange.com/facilities/4904
A contract research organization based in India that provides services including Clinical Development, Contract Manufacturing and Informatics.
Proper citation: GVK Biosciences Labs and Facilities (RRID:SCR_001044) Copy
http://purl.bioontology.org/ontology/BHO
An application ontology devoted to the standardized recording of phenotypic data related to hemorrhagic disorders.
Proper citation: Bleeding History Phenotype Ontology (RRID:SCR_001165) Copy
http://www.ohri.ca/FacilitiesAndServices/
Portal to research facilities and services within the Ottawa Hospital Research Institute. Facilities and services include access to their bioinformatics facility, flow cytometry facility, human pluripotent stem cell facility, and their clinical research lab.
Proper citation: Ottawa Hospital Research Institute Labs and Facilities (RRID:SCR_001045) Copy
http://download.cnet.com/icyou-Health-Video/3000-2129_4-75046330.html
THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 18, 2016. icyou is an internet resource of health-related video clips submitted by users. Health topics covered in videos can range anywhere from infectious diseases to fitness and exercise, with videos generally being shorter than 10 minutes in length. Videos also contain information on treatment and procedures, medical fields, and health politics and policy. These videos may or may not be authored by licensed medical personnel. All videos are searchable, and users can also choose to upload their own healthcare-related videos. In addition to gathering healthcare video from the best sources on the Web and beyond, icyou.com can call on its own award-winning health reporting team to cover the latest issues and trends. Through its parent company Benefitfocus, icyou.com has full access to the Benefitfocus Media Studio, a state-of-the-art HD facility located in Charleston, South Carolina. This studio is the only one of its kind devoted solely to creating healthcare-oriented video content. In it, the Benefitfocus Media team creates up-to-the-minute reports, tutorials, features and more that help illuminate its users about the complexities of the many facets of healthcare.
Proper citation: icyou Health Videos (RRID:SCR_001167) Copy
http://purl.bioontology.org/ontology/HIV
Ontology that encompasses all knowledge about HIV
Proper citation: HIV ontology (RRID:SCR_000908) Copy
http://www.cognitiveatlas.org/concept/Auditory_stream_segregation
An entry of the Cognitive Atlas which defines the term speech perception.
Proper citation: Speech Perception (RRID:SCR_001114) Copy
http://www.bioconductor.org/packages/2.13/bioc/html/bsseq.html
R package with tools for analyzing and visualizing bisulfite sequencing data.
Proper citation: bsseq (RRID:SCR_001072) Copy
http://www.bioconductor.org/packages/release/bioc/html/MmPalateMiRNA.html
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Software R package written for analysis of murine palate miRNA two-color expression data.
Proper citation: MmPalateMiRNA (RRID:SCR_001070) Copy
http://www.medscape.org/medscapetoday
A portal with listings of continuing medical education opportunities such as radiology, pediatrics, and HIV/AIDS specializations.
Proper citation: Medscape Education - Medscape CME/CE (RRID:SCR_000936) Copy
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