Curator Dashboard

Provides services for all departments on campus, including library of materials and parts suppliers, arranging for off-campus services such as plating and specialized machining services,help with laboratory and research apparatus and repair of existing equipment, designs from sketches to final assembly by mechanical means (welding, brazing or soldering),computer numerically controlled mill and lathe, electro discharge machining.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Support and community integration for the enhanced NITRC services of the Image Repository (IR) and the Computational Environment (CE). The NITRC Computational Environment, an on-demand, cloud based computational virtual machine pre-installed with popular NITRC neuroimaging tools built using NeuroDebian. NITRC Image Repository is built upon XNAT and supports both NIfTI and DICOM images. The NITRC-IR offers 3,733 Subjects, and 3,743 Imaging Sessions searchable across seven projects to promote re-use and integration of valuable NIH-funded data.

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• SciCrunch
• 14 years ago - by Anonymous

Searchable database of comprehensive annotations of eukaryotic long non-coding RNAs. Entries are manually curated from referenced literature.

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• SciCrunch
• 10 years ago - submitted by Jamie Li

Platform provides framework for restoring, protecting and preserving the greater Everglades ecosystem. The plan is partnership between State of Florida and federal government.

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• RRID
• 3 years ago - submitted by Edyta Vieth

So far there is a lack for Random Field Theory (RFT) -based multiple comparison correction for surfaces generated in Freesurfer software package. This set of Matlab-based functions can be used for that purpose. They are based on Worsley?s SurfStat toolbox. You also need to have installed Freesurfer software package and included the Freesurfer?s matlab subdirectory in the Matlab?s search path. In addition, this tool implements the RFT-FDR hierarchical correction that can be used for optimizing the amount of smoothing in cortical thickness analyses (Neuroimage 52, 158-171).

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• SciCrunch
• 14 years ago - by Anonymous

Software package that functions as a de novo genome assembler based on the concept of string graphs. It is designed as a modular set of programs used to assemble large genomes from high coverage short read data.

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• SciCrunch
• 13 years ago - by Anonymous

Software tool as succinct matplotlib wrapper for making publication quality graphics.

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• RRID
• 3 years ago - by Anonymous

scikit-learn: machine learning in Python

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• SciCrunch
• 14 years ago - by Anonymous

Yellow fluorescent protein (YFP) is a genetic mutant of green fluorescent protein (GFP) originally derived from the jellyfish Aequorea victoria. Its excitation peak is 514 nm and its emission peak is 527 nm. Like the parent GFP, YFP is a useful tool in cell and molecular biology thanks to its properties useful for fluorescence microscopy (1). (1) https://en.wikipedia.org/wiki/Yellow_fluorescent_protein.

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• SciCrunch
• 10 years ago - submitted by Juan Carlos Garcia Betancur

Core focuses on infectious disease aerobiology. Core facilitates biomedical research efforts that require unique demands of aerosol and aerobiology in their respective performance.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Simulation software that generates pathological ground truth from a healthy ground truth. The software requires an input directory that describes a healthy anatomy (anatomical probabilities, mesh, diffusion tensor image, etc) and then outputs simulation images.

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• SciCrunch
• 14 years ago - by Anonymous

Data repository for neuroimaging data in DlCOM and NIFTI formats. It allows users to search for and freely download publicly available data sets relating to normal subjects and those with diagnoses such as: schizophrenia, ADHD, autism, and Parkinson's disease.XNAT-based image registry that supports both NIfTI and DICOM images to promote re-use and integration of valuable NIH-funded data.

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• NIF
• 10 years ago - submitted by Matt Travers

Core provides research support and training with molecular pathology skills, confocal microscopy, image analysis, and multicolor immunohistochemistry and in-situ hybridization techniques for internal and affiliate scientists. Services include assistance with experimental design, antibody selection, molecular probe selection, fixation and staining protocols, operating fluorescent and confocal microscopes, acquiring and storing imaging data, interpretation of results, and generation of publication-quality images. Image analysis services include assistance with capturing images for evaluation and with use of various image analysis software.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 14,2026. A high-resolution ontology has been developed by members of the GUDMAP consortium to describe the subcompartments of the developing murine genitourinary tract. This ontology incorporates what can be defined histologically and begins to encompass other structures and cell types already identified at the molecular level. The GUDMAP ontology encompasses Theiler stage (TS) 17-27 of development as well as the sexually mature adult. It has been written as a partonomic, text-based, hierarchical ontology that, for the embryological stages, has been developed as a high-resolution expansion of the existing Edinburgh Mouse Atlas Project (EMAP) ontology. It also includes group terms for well-characterized structural and/or functional units comprising several sub-structures, such as the nephron and juxtaglomerular complex. Each term has been assigned a unique identification number. Synonyms have been used to improve the success of query searching and maintain wherever possible existing EMAP terms relating to this organ system.

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• SciCrunch
• 14 years ago - by Anonymous

Data Analysis GUI for R. The program is based on Java's Swing GUI library and includes an Excel-like spreadsheet for easy data viewing and editing.

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• RRID-Legacy
• 9 years ago - by Anonymous

Faculty directors from UC Berkeley, UC Davis, UC Irvine, and UCSF support collaborative student research projects, publications, and resources with the aim to have substantial record of achievement and innovation pursued through allocated research funding to support humanism in medicine and health science education.

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• RRID
• 3 years ago - submitted by Edyta Vieth

Repository of geometric models collected from on-going and past research projects in the Cardiovascular Biomechanics Research Laboratory at Stanford University. The geometric models are mostly built from imaging data of healthy and diseased individuals. For each of the models, a short description is given with a reference. The geometric models are in VTK PolyData XML .vtp format. * Audience: Biomechanical and computational researchers interested in complex models of cardiovascular applications * Long Term Goals and Related Uses: Allow users to download geometric models for cardiovascular applications. These geometric models can be used for research purposes, such as meshing and scientific visualization. Users are welcome to contact the project administrator, join the project and contribute additional models.

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• SciCrunch
• 17 years ago - by Anonymous

Implements an algorithm to conduct advanced gene set enrichment analysis on the results of genomics experiments. Simillion C, Liechti R, Lischer HE, Ioannidis V, Bruggmann R. Avoiding the pitfalls of gene set enrichment analysis with SetRank. BMC bioinformatics. 2017;18(1):151. doi: 10.1186/s12859-017-1571-6.

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• RRID-Legacy
• 9 years ago - by Anonymous

Software R package for custom visualizations and functions for streamlined analyses of single cell sequencing.

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• RRID
• 3 years ago - by Anonymous

Gene expression data and maps of mouse central nervous system. Gene expression atlas of developing adult central nervous system in mouse, using in situ hybridization and transgenic mouse techniques. Collection of pictorial gene expression maps of brain and spinal cord of mouse. Provides tools to catalog, map, and electrophysiologically record individual cells. Application of Cre recombinase technologies allows for cell-specific gene manipulation. Transgenic mice created by this project are available to scientific community.

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• SciCrunch
• 14 years ago - by Anonymous