Curator Dashboard

Core enables collection of high-quality data for researchers employing variety of social and behavioral methods. This facility provides tools necessary for researchers to study interactions between human systems and other complex phenomena like public health and ecosystems.

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• SciCrunch
• 1 year ago - submitted by Edyta Vieth

The Stanley Online Genomics Database uses samples from the Stanley Medical Research Institute (SMRI) Brain Bank. These samples were processed and run on gene expression arrays by a variety of researchers in collaboration with the SMRI. These researchers have performed analyses on their respective studies using a range of analytic approaches. All of the genomic data have been aggregated in this online database, and a consistent set of analyses have been applied to each study. Additionally, a comprehensive set of cross-study analyses have been performed. A thorough collection of gene expression summaries are provided, inclusive of patient demographics, disease subclasses, regulated biological pathways, and functional classifications. Raw data is also available to download. The database is derived from two sets of brain samples, the Stanley Array collection and the Stanley Consortium collection. The Stanley Array collection contains 105 patients, and the Stanley Consortium collection contains 60 patients. Multiple genomic studies have been conducted using these brain samples. From these studies, twelve were selected for inclusion in the database on the basis of number of patients studied, genomic platform used, and data quality. The Consortium collection studies have fewer patients but more diversity in brain regions and array platforms, while the Array collection studies are more homogenous. There are tradeoffs, the Consortium results will be more variable, but findings may be more broadly representative. The collections contain brain samples from subjects in four main groups: Bipolar Schizophrenia, Depression, and Controls Brain regions used in the studies include: Broadman Area 6, Broadman Area 8/9, Broadman Area 10, Broadman Area 46, Cerebellum The 12 studies encompass a range of microarray platforms: Affymetrix HG-U95Av2, Affymetrix HG-U133A, Affymetrix HG-U133 2.0+, Codelink Human 20K, Agilent Human I, Custom cDNA Publications based on any of the clinical or genomic data should credit the Stanley Medical Research Institute, as well as any individual SMRI collaborators whose data is being used. Publications which make use of analytic results/methods in the database should additionally cite Dr. Michael Elashoff. Registration is required to access the data.

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• SciCrunch
• 16 years ago - by Anonymous

Condor project maintains, distributes, and supports variety of computing systems that are deployed by commercial and academic interests world wide. Explores social and technical problems of cooperative computing on scales ranging from desktop to world wide computational Grid.

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

AAALAC approved animal research facility to study diverse number of animal species. Core maintains animal housing rooms, observation rooms, and procedure rooms at BSL 1 and 2 containment levels. The ARC is supported by certified veterinarians and animal care technicians who provide technical support and veterinary care.

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• SciCrunch
• 1 year ago - submitted by Edyta Vieth

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. Computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data. It relies on unique clade-specific marker genes identified from reference genomes.

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• SciCrunch
• 13 years ago - by Anonymous

ABCF can provide MAbs from established hybridomas for RESEARCH PURPOSES ONLY, can assist in generating MAbs, offers a weekly mycoplasmal contamination screening service for tissue culture samples, distributes cell lines developed at Memorial Sloan Kettering Cancer Center and The Rockefeller University

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• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Software Foreign Contamination Screening - GX source code. Part of NCBI’s Foreign Contamination Screen (FCS) tool suite, optimized to identify and remove contaminant sequences in new genomes.

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• dkNET
• 1 year ago - by Anonymous

LifeLink Foundation is a non-profit community service organization dedicated to the recovery of life-saving and life-enhancing organs and tissue for transplantation therapy. The Foundation works in a sensitive, diligent, and compassionate manner to facilitate the donation of desperately needed organs and tissues for waiting patients, support research efforts to enhance the available supply of organs and tissue for transplant patients, improve clinical outcomes of patients post transplantation and works closely with the United Network For Organ Sharing (UNOS) to support its goals. We are committed to inspiring the public to save lives through organ donation. To make organ transplant a reality, LifeLink Foundation focuses its attention in a number of areas: Immunology Laboratory, Public Education, Fundraising, Organ Recovery.

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• SciCrunch
• 16 years ago - by Anonymous

Core mission is to ensure quality and regulatory compliance of Memorial Sloan Kettering Cancer Center�s clinical trials investigational products and Investigational New Drug (IND) applications, and to promote efficiency in our drug development projects, through combination of advisory, project management, and quality assurance (QA) oversight services.

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• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Integrated genomics/bioinformatics facility located at MIT. Provides Illumina HiSeq2000, NextSeq500 and MiSeq sequencing instruments as well as PacBio Sequel and Oxford Minion. Provides services in preparing Illumina libraries for high-throughput sequencing samples using several different methods, supports technologies including Agilent BioAnalyzer, AATI Fragment Analyzer, AATI FemtoPulse, Roche LC480 qPCR machines, automated liquid handling through Tecan Evo150s, TTP Labtech Mosquito HV. Supports 10X Chromium and single cell work using NamoCell single cell dispenser and custom oligo synthesis using Dr.Oligo 192. Supports informatics and bioIT tools. Core administers ~2PB of data storage on several platforms, including 600TB Isilon server. Hosts 400 processor Dell cluster and Dell Quad Core 2950 application server for Illumina sequencing and bioinformatic applications. All application servers and storage servers are interconnected by 1gigabyte private networks or by fiber optic lines and are administered by IT staff that are part of the BioMicro Center. Servers are configurable to provide secure data storage for clinical data if required.

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• SciCrunch
• 1 year ago - submitted by Edyta Vieth

Atlas of developing human brain for studying transcriptional mechanisms involved in human brain development. One of the BrainSpan datasets, Exon microarray summarized to genes, is presented. It is a downloadable archive of files containing normalized RNA-Seq expression values for analysis.

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• SciCrunch
• 16 years ago - by Anonymous

Software tool for applying user guided nonlinear refinements (inplane) to existing, affine 2D-to-3D registration. Used for precise quantitative analysis of residual anatomical variability among test subjects after registration with QuickNII. VisuAlign is part of the QUINT workflow.

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• NIF
• 7 years ago - by Anonymous

Core specializes in custom production with high titer, high standards, and fast turnaround. Provides services from designing viral constructs to troubleshooting experiments. Offers routine adeno-associated virus (AAV), rabies, and lenti/retrovirus vector production. Other viral vectors can be produced on as-needed basis.

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• RRID
• 1 year ago - submitted by Chrissy Weber-Schmidt

An International Union of Pure and Applied Chemistry (IUPAC) subcommittee that deals with individual projects related to technique-specific data standards as well as generic issues. There are worrying gaps in the coverage of known chemistry by reference spectroscopic databases, which are unlikely to be filled by the activities of the commercial sector alone. The IS-DB offers the scientific community the opportunity to share their spectra and develop a vital resource for future generations. Such a collection of spectra will help to provide significant improvements in human health, new materials, environmental protection, sustainable development and educational progress. XML in Chemistry is a new IUPAC initiative to bring a degree of regulation to this important and rapidly expanding field. They aim to facilitate the validation of data dictionaries for various groups developing ontologies expressed in XML in the broad field of Chemistry. This will help to reduce duplication of effort around the world and allow development projects to build on the work previous groups concentrating on their own innovative goals rather than wasting time and effort re-inventing wheels. IUPAC encourages the submission of projects in all areas of chemistry relevant to its work. If you believe there is a need for a new scientific data standard in your field and wish to know more about how to form a limited term task group to get the standard developed please contact the subcommittee.

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• SciCrunch
• 15 years ago - by Anonymous

Database of mammalian circadian gene expression profiles. Works with link outs to Wikipedia, HomoloGene, Refseq, etc.. Open source database of circadian transcriptional profiles from time course expression experiments from mice and humans.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool to convert bioinformatics file formats to Zarr.

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• RRID
• 1 year ago - by Anonymous

The Kavli Foundation, based in Oxnard, California, is dedicated to advancing science for the benefit of humanity, promoting public understanding of scientific research, and supporting scientists and their work. The Foundation''s mission is implemented through an international program of research institutes, professorships, symposia and other initiatives in the fields of astrophysics, nanoscience, neuroscience and theoretical physics. The Foundation is also a founding partner of the Kavli Prizes, which recognize scientists for their seminal advances in astrophysics, nanoscience and neuroscience. To date, The Kavli Foundation has made grants to establish Kavli Institutes on the campuses of the University of California Santa Barbara, Stanford University, the California Institute of Technology, the University of Chicago, Columbia University, Yale University, Cornell University, the University of California San Diego, Delft University of Technology in the Netherlands, the Massachusetts Institute of Technology, Peking University, the Chinese Academy of Sciences, Harvard University, the University of Cambridge and the Norwegian University of Science and Technology. In addition to the Kavli Institutes, six Kavli professorships have been established: two at the University of California Santa Barbara, one at University of California Los Angeles, one at the University of California Irvine, one at Columbia University, and one at the California Institute of Technology. The Kavli Futures Symposia a series of high quality scientific symposia on topics of emerging importance in the fields of astrophysics, nanoscience and neuroscience. The Frontiers of Science symposia bring together some of the very best young scientists across many disciplines to share and discuss exciting advances and opportunities in their fields. Videos and feature pieces have been created for teachers and students. This includes video interviews with acclaimed researchers Eric Kandel, M.D. and Edvard and May-Britt Moser, a video introduction and panel discussion on neuroscience, feature stories, written science overview, institute profiles and other materials. The Kavli Foundation is a private foundation qualified under IRC Section 501 (c) (3).

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• SciCrunch
• 15 years ago - by Anonymous

Software tool as Microsoft Excel spreadsheet calculator designed to estimate epidemiological cutoff values (ECVs, ECOFFs) for minimal inhibitory concentrations or minimal effective concentrations of wild-type bacterial or fungal populations.

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• RRID-Legacy
• 7 years ago - by Anonymous

Database and respository for NMR data associated with natural products and specialized metabolites.

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• RRID
• 1 year ago - submitted by Anita Bandrowski

StellaBase is a genomics database of Nematostella vectensis. It allows users to query the assembled Nematostella genome, a confirmed gene library, and a predicted genome using both keyword and homology based search functions. Data provided by these searches will elucidate gene family evolution in early animals. Unique research tools, including a Nematostella genetic stock library, a primer library, a literature repository and a gene expression library will provide support to the burgeoning Nematostella research community. Supported by: National Science Foundation (Grant No. 0212773 to JRF)

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• SciCrunch
• 17 years ago - by Anonymous