Curator Dashboard

Open source resources to execute stop signal task and analyze resulting data. Simulation code is provided, and can be used in planning stage for investigation of response inhibition and impuls control.

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

Repository software for targeted mass spectrometry assays from Skyline. Targeted proteomics knowledge base. Public repository for quantitative data sets processed in Skyline. Facilitates viewing, sharing, and disseminating results contained in Skyline documents.

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

Clinical proteomic tumor analysis consortium to systematically identify proteins that derive from alterations in cancer genomes and related biological processes, in order to understand molecular basis of cancer that is not possible through genomics and to accelerate translation of molecular findings into clinic. Operates through Proteome Characterization Centers, Proteogenomic Translational Research Centers, and Proteogenomic Data Analysis Centers. CPTAC investigators collaborate, share data and expertise across consortium, and participate in consortium activities like developing standardized workflows for reproducible studies.

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

The University of Tartu is a classical university in the city of Tartu, Estonia. It is the national university of Estonia. The University of Tartu is the only classical university in the country and also the biggest and most prestigious university in Estonia.

• Organization
• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Web user interface for visualizing clustering of multivariate data. Web server allows users to upload their own data and create Principal Component Analysis plots and heatmaps.

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

Software Python package that implements preprocessing pipeline for imaging mass cytometry data. Can convert IMC raw files to tiff files that are used as inputs into CellProfiller, Ilastik, Fiji etc.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Anh Nguyet Vu

Device to control spatial and temporal variations in oxygen tensions to better replicate in vivo biology. Consists of three parallel connected tissue chambers and oxygen scavenger channel placed adjacent to these tissue chambers. Provides consistent control of spatial and temporal oxygen gradients in tissue microenvironment and can be used to investigate important oxygen dependent biological processes present in cancer, ischemic heart disease, and wound healing.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Anh Nguyet Vu

System to extend constant distance mode mass spectrometry imaging using nanospray desorption electrospray ionization by integrating shear force probe with nano DESI probe to improve imaging capabilities. Used for imaging biological samples of complex topography in their native states. Enables ambient imaging of biological samples with high sensitivity and minimal sample pretreatment.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Anh Nguyet Vu

Nanodroplet processing platform for deep and quantitative proteome profiling of 10 to 100 mammalian cells. It enhances efficiency and recovery of sample processing by downscaling processing volumes.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Anh Nguyet Vu

Software tool as supervised machine learning algorithm that classifies and sorts single cell mass cytometry data according to their cell cycle, which allows to correct for cell cycle state and cell volume heterogeneity. Reveals signaling relationships and cell heterogeneity that were otherwise masked. Computational method to quantify cell cycle and cell volume variability.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Anh Nguyet Vu

Software R package to provide pipeline for preprocessing of cytometry data, including normalization using bead standards, single cell deconvolution, and bead based compensation.

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

Software tool as interactive Shiny web application that provides user interface to mass cytometry data processing pipeline implemented in CATALYST R Bioconductor package.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Anh Nguyet Vu

Software system for storing and analyzing high throughput B and T cell immune receptor sequencing data. Comprised of web interface and of Python analysis tools to process raw reads for gene usage, infer clones, aggregate data, and run downstream analyses, or in conjunction with other AIRR tools using its import and export features.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Anh Nguyet Vu

Open access volumetric atlas of anatomical delineations of rat brain based on structural contrast in isotropic magnetic resonance and diffusion tensor images acquired ex vivo from 80 day old male Sprague Dawley rat at Duke Center for In Vivo Microscopy. Spatial reference is provided by Waxholm Space coordinate system. Location of bregma and lambda are identified as anchors towards stereotaxic space. Application areas include localization of signal in non structural images. Atlas, MRI and DTI volumes, and diffusion tensor data are shared in NIfTI format.

• Resource
• NIF
• 8 years ago - by Anonymous

Web service as calculator for statistics and analysis. Used on variety of browsers as well as mobile and tablet devices.They include Z-score, sample size, t value, One Way ANOVA Calculator, Percentile Calculator, Chi Square, p Value, and more.

• Resource
• SciCrunch
• 8 years ago - by Anonymous

Software tool for orthology analysis to identify orthologs, paralogs and co orthologs for genomes. Used to perform homology classification across genomes of different species in large genomic datasets.

• Resource
• SciCrunch
• 8 years ago - submitted by xiao hu

Software tool as graph based unsupervised biclustering algorithm to identify alterations in tumors based on hypothesis that gene pairs relevant to clinical process share statistically significant number of samples with extreme expression.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Hossein Khiabanian

Software toolbox for image analysis by Regent Instruments Inc. Used for root measurement in different forms like morphology, topology, architecture and color analyses. Automatically or interactively analyses washed roots.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Michael Jochum

Micro Computed Tomography 100 scanner for 3D imaging of specimens in vitro supplied with software for scanning, 3D analysis, visualization, image management and data import and export by SCANCO Medical AG.

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

Software Python application for comparative genomics analysis. Finds orthogroups and orthologs, infers rooted gene trees for all orthogroups and identifies all of gene duplcation events in those gene trees, infers rooted species tree for species being analysed and maps gene duplication events from gene trees to branches in species tree, improves orthogroup inference accuracy. Runs set of protein sequence files, one per species, in FASTA format.

• Resource
• SciCrunch
• 8 years ago - submitted by Julien Bane