Tools   Select Another Resource Report Type

https://www.npatlas.org

Open access knowledge base for microbial natural products discovery. Database of microbially derived natural product structures. Provides coverage of bacterial and fungal natural products to visualize chemical diversity. Includes compounds and contains referenced data for structure, compound names, source organisms, isolation references, total syntheses, and instances of structural reassignment. Interactive web portal permits searching by structure, substructure, and physical properties. Provides mechanisms for visualizing natural products chemical space and dashboards for displaying author and discovery timeline data. Atlas has been developed under FAIR principles.

Proper citation: Natural Products Atlas (RRID:SCR_025107) Copy   

•   Source: SciCrunch Registry

http://virusdetect.feilab.net/cgi-bin/virusdetect/index.cgi

Software package to efficiently and exhaustively analyze large scale sRNA datasets for virus identification. Automated pipeline for virus discovery using deep sequencing of small RNAs.

Proper citation: VirusDetect (RRID:SCR_023669) Copy   

•   Source: SciCrunch Registry

https://rockd.org/

Map database allows to record your geological observations and uses your location to provide spatially informed suggestions for nearby geologic units, time intervals, and fossils.

Proper citation: rockd (RRID:SCR_024431) Copy   

•   Source: SciCrunch Registry

http://www.ldeo.columbia.edu/core-repository

Core repository and one of the world's most unique and important collections of scientific samples from the deep sea. Sediment cores from every major ocean and sea are archived at the Core Repository. The collection contains approximately 72,000 meters of core composed of 9,700 piston cores; 7,000 trigger weight cores; and 2,000 other cores such as box, kasten, and large diameter gravity cores. They also hold 4,000 dredge and grab samples, including a large collection of manganese nodules, many of which were recovered by submersibles. Over 100,000 residues are stored and are available for sampling where core material is expended. In addition to physical samples, a database of the Lamont core collection has been maintained for nearly 50 years and contains information on the geographic location of each collection site, core length, mineralogy and paleontology, lithology, and structure, and more recently, the full text of megascopic descriptions. Samples from cores and dredges, as well as descriptions of cores and dredges (including digital images and other cruise information), are provided to scientific investigators upon request. Materials for educational purposes and museum displays may also be made available in limited quantities when requests are adequately justified. Various services and data analyses, including core archiving, carbonate analyses, grain size analyses, and RGB line scan imaging, GRAPE, P-wave velocity and magnetic susceptibility runs, can also be provided at cost. The Repository operates a number of labs and instruments dedicated to making fundamental measurements on material entering the repository including several non-destructive methods. Instruments for conducting and/or assisting with analyses of deep-sea sediments include a GeoTek Multi-Sensor Core Logger, a UIC coulometer, a Micromeritics sedigraph, Vane Shear, X-radiograph, Sonic Sifter, freeze dryer, as well as a variety of microscopes, sieves, and sampling tools. They also make these instruments available to the scientific community for conducting analyses of deep-sea sediments. If you are interested in borrowing any field equipment, please contact the Repository Curator.

Proper citation: Lamont-Doherty Core Repository (RRID:SCR_002216) Copy   

•   Source: SciCrunch Registry

http://lrc.geo.umn.edu/laccore/

Archive of almost 20,000 meters of high quality sediment cores from large and small expeditions to lakes all around the world. LacCore advocates for, coordinates, and facilitates core-based research on Earth's continents through collaborative support for logistics, field and laboratory, and data and sample curation and dissemination. They provide a wide variety of fee-based analytical services, as well as offer training and instrument time to lab visitors. They also develop Standard Operating Procedures (SOPs) for local training and adoption by individuals at other labs.

Proper citation: National Lacustrine Core Facility (RRID:SCR_002215) Copy   

•   Source: SciCrunch Registry

http://www.broad.mit.edu/annotation/fungi/fgi/

Produces and analyzes sequence data from fungal organisms that are important to medicine, agriculture and industry. The FGI is a partnership between the Broad Institute and the wider fungal research community, with the selection of target genomes governed by a steering committee of fungal scientists. Organisms are selected for sequencing as part of a cohesive strategy that considers the value of data from each organism, given their role in basic research, health, agriculture and industry, as well as their value in comparative genomics.

Proper citation: Fungal Genome Initiative (RRID:SCR_003169) Copy   

•   Source: SciCrunch Registry

https://github.com/compbiolabucf/PTNet

Graph based learning model for protein expression estimation by considering miRNA-mRNA interactions. Estimates protein levels by considering miRNA-mRNA interaction network, mRNA expression and miRNA expression.

Proper citation: PTNet (RRID:SCR_022975) Copy   

•   Source: SciCrunch Registry

https://github.com/caraweisman/abSENSE

Software to interpret undetected homolog.Method that calculates probability that homolog of given gene would fail to be detected by homology search in given species, even if homolog were present and evolving normally.

Proper citation: abSENSE (RRID:SCR_023223) Copy   

•   Source: SciCrunch Registry

https://github.com/DeNardoLab/BehaviorDEPOT

Software tool for automated behavioral detection based on markerless pose tracking. Behavioral analysis tool to first compile and clean point-tracking output from DeepLabCut, and then classify behavioral epochs using custom behavior classifiers. Used to detect frame by frame behavior from video time series and can analyze results of common experimental assays, including fear conditioning, decision-making in T-maze, open field, elevated plus maze, and novel object exploration. Calculates kinematic and postural statistics from keypoint tracking data from pose estimation software outputs.

Proper citation: BehaviorDEPOT (RRID:SCR_023602) Copy   

•   Source: SciCrunch Registry

http://bioimaging.dbi.udel.edu

Microscopy facility that houses equipment including confocal microscopes: LSM780 confocal microscope (Located at CBBI),LSM880 confocal microscope (Located at DBI 117),electron microscopes and their accessory instrumentation:Thermo Scientific Apreo VS SEM microscope,Hitachi S-4700, Leica EM ACE600 and Tousimis Autosamdri-815B,CX7 high content analysis system. Our staff has technical expertise across different microscopy platforms and methodologies.

Proper citation: University of Delaware BioImaging Center Core Facility (RRID:SCR_017814) Copy   

•   Source: SciCrunch Registry

http://www.udel.edu/chem/beebe/surface.htm

Core provides consulting and services in X-ray Photoelectron Spectroscopy (XPS or ESCA), Time-of-Flight Secondary-Ion Mass Spectrometry (TOF-SIMS), X-ray Photoelectron Imaging, Auger Electron Spectroscopy (AES), Scanning Auger Microscopy or Imaging (SAM), Secondary-Electron Microscopy (SEM), Ion-Scattering Spectroscopy (ISS or LEIS), Scanning Probe Microscopy (STM and AFM).

Proper citation: Delaware University Surface Analysis Core Facility (RRID:SCR_017796) Copy   

•   Source: SciCrunch Registry

https://www.mccormick.northwestern.edu/materials-science/clammp/

Core provides mechanical testing machines and accessories for conducting educational, research, and outreach experiments on most solid materials.

Proper citation: Northwestern University Central Laboratory for Materials Mechanical Properties Core Facility (RRID:SCR_017877) Copy   

•   Source: SciCrunch Registry

http://crl.berkeley.edu/molecular-imaging-center/

Microscopy core specializing in laser based fluorescence techniques. Offers training and expertise in 20 different microscope systems, including live cell and in vivo imaging, laser scanning (LSM) and spinning disk (SDC) confocal, multi-photon (2p), fluorescent lifetime imaging (FLIM), light-sheet microscopy (SPIM), super resolution (Airyscan), slide scanning and patterned illumination for optogenetic manipulation and readout. Provides offline computer analysis workstations for image processing, visualization and analysis, including GPU workstations. MIC operates in 3 different buildings on campus, with primary locations in Life Sciences Addition (LSA), North-side core in Barker Hall, and small outpost in Li Ka Shing Center for Biomedical and Health Sciences (LKS).Provides equipment in categories:Confocal and multi photon laser scanning microscopes,Spinning disk confocal microscopes,Lightsheet (SPIM) microscopes,Epifluorescence/widefield scopes and Computer workstations.

Proper citation: University of California at Berkeley Cancer Research Laboratory Molecular Imaging Center Core Facility (RRID:SCR_017852) Copy   

•   Source: SciCrunch Registry

https://www.danforthcenter.org/our-work/core-facilities/advanced-bioimaging-laboratory/

Core provides instruments for live cell imaging including Leica SP8-X confocal microscope and other fluorescence microscopes. Facility provides workstation for confocal image processing, ancillary equipment required for transmission electron microscopy. Services are provided as self services after user training by IMF staff or as full services done by core facility staff.

Proper citation: Donald Danforth Plant Science Center Advanced Bioimaging Laboratory Core Facility (RRID:SCR_018951) Copy   

•   Source: SciCrunch Registry

https://www.colorado.edu/rc/resources/petalibrary

Provides service to support storage, archival, and sharing of research data. Available at subsidized cost to any researcher affiliated with University of Colorado Boulder.

Proper citation: University of Colorado Boulder High Performance Computing PetaLibrary Core Facility (RRID:SCR_019299) Copy   

•   Source: SciCrunch Registry

https://www.jmu.edu/microscopy/index.shtml

Core provides instrumentation, resources, training, and consultation. Facility offers access to diverse range of light microscope and imaging systems,image analysis software and solutions, practical and theoretical training for faculty, students and classes,consultation on data acquisition, analysis, and presentation.

Proper citation: James Madison University Light Microscopy and Imaging Core Facility (RRID:SCR_021904) Copy   

•   Source: SciCrunch Registry

https://dna.dbi.udel.edu/

Provides genomics and molecular biology services for University of Delaware research groups and outside users.Supports genomic research through established expertise with genomics technologies.

Proper citation: University of Delaware Sequencing and Genotyping Center Core Facility (RRID:SCR_012230) Copy   

•   Source: SciCrunch Registry

http://www.scienceexchange.com/facilities/genomics-core-facility-brown

Provides genomics and proteomics equipment to researchers at Brown University and to entire Rhode Island research community, as well as assistance with experimental design, trouble shooting, and data analysis. Offers Affymetrix microarray and Illumina NextGeneration services to academic community and external customers.

Proper citation: Brown University Genomics Core Facility (RRID:SCR_012217) Copy   

•   Source: SciCrunch Registry

http://www.scienceexchange.com/facilities/nnin-nano-research-facility-wustl

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 15,2024. Nano Research Facility (NRF) at Washington University in St. Louis is a NNIN nodal facility supported by the National Science Foundation. It cultivates an open, shared research, and education environment that brings researchers across disciplines together, particularly in the emerging area of nanomaterials with applications in the energy, environment, and biomedical fields. The mission is to be a resource to the scientific and technical community for the advancement of nanoscience and nanotechnology in a safe and environmentally benign manner. NRF includes a micro- and nano-fabrication lab (clean room), surface characterization lab, particle technology lab, and imaging lab with a focus on bio-imaging. NRF provides unique technical expertise in: Knowledge-based synthesis of nanostructured materials Particle instrumentation tools for toxicity studies Non-invasive imaging modalities for biological applications Clean Energy Applications Energy and Environmental nanotechology Environmental Health and Safety As a member of the National Nanotechnology Infrastructure Network (NNIN), supported by the National Science Foundation, NRF is available to both academic and industrial users nation-wide and across the globe.

Proper citation: WUSTL NNIN - Nano Research Facility (RRID:SCR_012674) Copy   

•   Source: SciCrunch Registry

https://github.com/PhysiCell-Tools/PhysiCell-Studio

Software graphical tool to allow easy editing of (XML) model, create initial positions of cells, run simulation, and visualize results. To contribute, fork and make PRs to the development branch. Used to create, execute, and visualize multicellular model using PhysiCell.

Proper citation: PhysiCell Studio (RRID:SCR_025311) Copy   

•   Source: SciCrunch Registry