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http://www.broadinstitute.org/cancer/cga/rna-seqc

Java software which computes a series of quality control metrics for RNA-seq data and can compare sequencing quality across different samples or experiments to evaluate different experimental parameters. The input can be one or more BAM files, and the output consists of HTML reports and tab delimited files of metrics data.

Proper citation: RNA-SeQC (RRID:SCR_005120) Copy   

•   Source: SciCrunch Registry
  

https://gsbs.tufts.edu/about

Graduate school provides training of highly educated biomedical scientists through collaborative and interdisciplinary research. Provides degree programs in Cell, Molecular and Developmental Biology; Genetics; Immunology; Molecular Microbiology; Neuroscience; Clinical and Translational Science; Pharmacology and Drug Development.

Proper citation: Tufts University Graduate School of Biomedical Sciences Graduate Programs (RRID:SCR_004949) Copy   

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http://minia.genouest.org/

A short-read assembler based on a de Bruijn graph, capable of assembling a human genome on a desktop computer in a day.

Proper citation: Minia (RRID:SCR_004986) Copy   

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http://compbio.cs.huji.ac.il/NucPosition/TemplateFiltering/Home.html

A software pipeline for analyzing deep sequencing maps of chromatin structure.

Proper citation: TemplateFilter (RRID:SCR_004980) Copy   

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http://www.anthonynolan.org/

Stem cell and bone marrow register in the United Kingdom, managing and recruiting donors internationally for patients who require stem cell transplants. A database of tissue-typing results of all prospective donors is maintained. A national cord blood program consisting of both a cord blood bank and a research institute provides donated umbilical cord blood for use in clinical transplants and research. Research is conducted in immunogenetics, immunotherapy, bioinformatics (curating the World Health Organisation HLA Nomenclature database, ensuring that all new tissue types are consistently documented), and immune reconstitution.

Proper citation: Anthony Nolan (RRID:SCR_004982) Copy   

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http://www.meduniwien.ac.at/kin/index.html

The (Clinical) Institute of Neurology (IN) of the Medical University Vienna was founded in 1882 by Heinrich Obersteiner. It is the oldest institution embracing the multidisciplinarity of neurosciences and has served as model for the establishment of similarly designed institutions in many countries. The original location of the then Neurological Institute in Vienna was at Schwarzspanierstrasse. Since 1993, IN is located in the Vienna General Hospital in top-class laboratory facilities. IN is committed to its proud tradition as Obersteiner Institute and to a promising future of a nationally and internationally leading institution in the clinical neurosciences. Our work aims to translate the understanding of nervous diseases to the development of novel therapeutics and diagnostics. IN''''s tasks include diagnostic patient service, research and graduate / postgraduate teaching in neuropathology, neurochemistry, and neuro-molecular biology in an integrated way. Neuropathology is a recognized medical specialty in Austria. It analyzes structural changes of nervous tissues in disease. Diagnostic neuropathology makes use of most modern morphological techniques applied to diseased central, peripheral and vegetative nervous tissues and fluids, and muscle. Neuropathological diagnoses are a basis for disease classification and rational therapies. Neurodegenerative disorders, in particular prion diseases, virus diseases affecting the nervous system, and brain tumors (neuro-oncology) are research priorities. In the highly publicized area of prion diseases, IN has developed into a national and international center of excellence and expertise that leads several European, EU-funded networks in prion research. As an indispensable asset, the IN possesses a large brain bank that has systematically collected neuropathological specimens since 1948. Most samples are fixed and paraffin-embedded tissue only, but in a part of neurosurgical, nerve and muscle biopsies and autopsies, also fresh tissue is obtained, frozen and stored at -80 degrees C. Occasionally blood and CSF are also available. The unique neuropathological collection of histological slides, paraffin blocks and formol-fixed nervous tissues now comprises about 16.000 brain autopsies, 30.000 neurosurgical and 7.500 nerve/muscle biopsies. Also a number of cell cultures have been stored, mainly fibroblasts from patients with rare neurometabolic diseases, and primary cultures of brain tumors. IN participates in the EU-supported European Network of Brain Banks BrainNet Europe.

Proper citation: Medical University of Vienna Institute of Neurology (RRID:SCR_005030) Copy   

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http://www.nature.com/naturejobs/science/

Search for the widest range of science jobs with thousands of vacancies advertised globally on the site. Employers range from top international pharmaceutical and biotechnology companies to highly respected academic and government institutions. Job seekers can find a wide range of scientific career information and news as well as expert advice, all free to access. What''s more, employers can post jobs for free.

Proper citation: Naturejobs (RRID:SCR_005151) Copy   

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http://www.flyatlas.org/

FlyAtlas gives you a quick answer to the question: where is my gene of interest expressed/enriched in the adult fly? For each gene and tissue, you''re given the mRNA SIGNAL (how abundant the mRNA is), the mRNA ENRICHMENT (compared to whole flies), and the Affymetrix PRESENT CALL (out of 4 arrays, how many times it was detectably expressed). The dataset so far comprises 44 Affymetrix Dros2 expression arrays, each mapping the expression of 18770 transcripts - corresponding to the vast majority of known Drosophila genes. The dataset thus contains over 822800 separate datapoints. This website is intended to make the data easily accessible and comprehensible to mere mortals. FlyAtlas provides the most comprehensive view yet of expression in multiple tissues of Drosophila melanogaster. Meta-analysis of the data shows that a significant fraction of the genome is expressed with great tissue specificity in the adult, demonstrating the need for the functional genomic community to embrace a wide range of functional phenotypes. Well-known developmental genes are often reused in surprising tissues in the adult, suggesting new functions. The homologs of many human genetic disease loci show selective expression in the Drosophila tissues analogous to the affected human tissues, providing a useful filter for potential candidate genes. Additionally, the contributions of each tissue to the whole-fly array signal can be calculated, demonstrating the limitations of whole-organism approaches to functional genomics and allowing modeling of a simple tissue fractionation procedure that should improve detection of weak or tissue-specific signals.

Proper citation: FlyAtlas: the Drosophila gene expression atlas (RRID:SCR_005032) Copy   

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http://www.jobs.ac.uk/

International job board for careers in academic, research, science and related professions in the UK, Europe, Australasia, Africa, America and Asia & Middle East. Launched by the University of Warwick, they have grown to become the top recruitment site in their sector, attracting the most qualified and talented people from the UK, Europe and across the world. Users may subscribe to Jobs by Email for vacancies in universities, colleges, research institutions, commercial and public sector, schools and charities. You may upload your CV to give yourself an advantage by making your CV visible to top employers now!

Proper citation: jobs.ac.uk (RRID:SCR_005154) Copy   

•   Source: SciCrunch Registry
  

http://www.wikidoc.org/index.php/Main_Page

WikiDoc is the Original Medical Wiki / Encyclopedia. 71,700 Textbook Chapters and News Articles in English are available and anyone may edit this medical news service and textbook of medicine. Major sections include WikiDoc News: Today in Medicine, Co-Author The World''s Largest Textbook of Medicine, Community, and Care. WikiDoc is available in other languages including Espa��ol, Fran��ais, Polski, , Rom��n, , and T��rk��e.

Proper citation: WikiDoc The Living Textbook of Medicine (RRID:SCR_004978) Copy   

•   Source: SciCrunch Registry
  

http://www.lincoln.ac.uk/home/

Public research university in Lincoln, England. The University has origins that trace back to 1861, and obtained university status in 1992 and its present name and structure in 2001.

Proper citation: University of Lincoln; Lincoln; United Kingdom (RRID:SCR_004973) Copy   

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http://www.fccc.edu/index.html

Fox Chase Cancer Center is the region''s only hospital devoted entirely to cancer treatment, research and prevention. Our 100-bed hospital, located in Philadelphia, is consistently ranked by U.S. News and World Report among the top cancer centers in the nation. Our nationally and internationally recognized staff provides consultations and treatment recommendations for all types of adult cancer. Fox Chase Cancer Center is an independent, nonprofit institution formed in 1974 by the union of American Oncologic Hospital (one the the nation''s first cancer hospitals, established in 1904) and the Institute for Cancer Research (founded in 1927). Fox Chase was also among the first institutions to be designated a National Cancer Institute Comprehensive Cancer Center in 1974. In September 2000, the Hospital of Fox Chase Cancer Center became the nation''s first comprehensive cancer center and Pennsylvania''s first hospital to receive Magnet status for nursing excellence from the American Nurses Credentialing Center, which renewed this honor in 2004 and again in 2009, making it the first hospital in Pennsylvania to have achieved two successful Magnet renewals. The Women''s Cancer Center builds on Fox Chase''s world-renowned expertise in breast and gynecologic cancers. The Center offers women a place where they can receive coordinated, state-of-the-art care, support services, and education all under one roof.

Proper citation: Fox Chase Cancer Center (RRID:SCR_004974) Copy   

•   Source: SciCrunch Registry
  

http://www.uma.es/

Public university ranked established in 1972. Courses taught entirely in English, related to the world of business, engineering, culture, art and Spanish society.

Proper citation: University of Malaga; Andalusia; Spain (RRID:SCR_004975) Copy   

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http://www.stanford.edu/group/brainsinsilicon/neurogrid.html

A specialized hardware platform that will perform cortex-scale emulations while offering software-like flexibility. With sixteen 12x14 sq-mm chips (Neurocores) assembled on a 6.5x7.5 sq-in circuit board that can model a slab of cortex with up to 16x256x256 neurons - over a million! The chips are interconnected in a binary tree by 80M spike/sec links. An on-chip RAM (in each Neurocore) and an off-chip RAM (on a daughterboard, not shown) softwire vertical and horizontcal cortical connections, respectively. It provides an affordable option for brain simulations that uses analog computation to emulate ion-channel activity and uses digital communication to softwire synaptic connections. These technologies impose different constraints, because they operate in parallel and in serial, respectively. Analog computation constrains the number of distinct ion-channel populations that can be simulatedunlike digital computation, which simply takes longer to run bigger simulations. Digital communication constrains the number of synaptic connections that can be activated per secondunlike analog communication, which simply sums additional inputs onto the same wire. Working within these constraints, Neurogrid achieves its goal of simulating multiple cortical areas in real-time by making judicious choices.

Proper citation: Neurogrid (RRID:SCR_005024) Copy   

•   Source: SciCrunch Registry
  

http://www.pantherdb.org/tools/csnpScoreForm.jsp

Data analysis service that estimates the likelihood of a particular nonsynonymous (amino-acid changing) coding SNP to cause a functional impact on the protein. To analyze many SNPs, download the PANTHER Coding Snp Analysis tool from the downloads page.

Proper citation: PANTHER Evolutionary analysis of coding SNPs (RRID:SCR_005145) Copy   

•   Source: SciCrunch Registry
  

http://www.peerreviewradio.com/

Peer Review Radio is a weekly radio show and podcast that portions the tastiest science and prepares it for public consumption. The end goal of this program is to provide an outlet where anyone and everyone can understand current scientific issues and generate their own informed opinions. In addition, Peer Review Radio promotes careers in research and science and serves as a training ground for future scientists to acquire invaluable communication skills. Peer Review Radio was established by a group of motivated graduate students with a desire to spread their love of science. By breaking down complicated concepts into bite-sized morcels, the ''Peers'' hope to spark the curiosity of their listeners with relevant, reliable information. Our producers determine content and coordinate the activities of the journalists. To ensure variety of content, graduate students are enlisted to act as advisers in their fields of expertise and direct literature research for necessary episode scripts. Then, we get together with professors, industrial scientists, post doctoral fellows and graduate students to talk about issues in science. Also, we supplement each episode with ''what if''-type questions, critiquing of science in film, profiles of alternative careers in science, book reviews and more! Our weekly radio show will air on CHUO 89.1 FM in Ottawa, Ontario, Canada starting this Fall 2010, and with each episode we hope to address another hot topic in science without frying your frontal cortex.

Proper citation: Peer Review Radio (RRID:SCR_004970) Copy   

•   Source: SciCrunch Registry
  

https://adrc.mc.duke.edu/index.php

An Alzheimer's disease center (ADC) that offers support services for families caring for persons with memory disorders, community outreach and education programs, in addition to its clinical and basic research activities. Information on current scientific and clinical findings is offered to the general public, medical and scientific community. An important emphasis of the Bryan ADRC is to advance basic medical discovery concerning AD and related dementias. This basic science mission is facilitated through the DNA cell repository located in the Institute of Genome Sciences and Policy (IGSP) and the Bryan ADRC brain donation program of the Kathleen Price Bryan Brain Bank. These affiliated Bryan ADRC programs provide a source of fresh brain tissue.

Proper citation: Joseph and Kathleen Bryan Alzheimer's Disease Research Center (RRID:SCR_005025) Copy   

•   Source: SciCrunch Registry
  

http://smart.embl.de/

Software tool for identification and annotation of genetically mobile domains and analysis of domain architectures.

Proper citation: SMART (RRID:SCR_005026) Copy   

•   Source: SciCrunch Registry
  

http://drive5.com/uparse/

An Operational Taxonomic Unit (OTU) clustering software for 16S and other marker genes. Highly accurate OTU sequences and improved diversity measures.

Proper citation: UPARSE (RRID:SCR_005020) Copy   

•   Source: SciCrunch Registry
  

http://www.cmbi.ru.nl/hope/home

An easy-to-use webserver that analyses the structural effects of your mutation of interest. The server allows you to submit a protein sequence and the mutation. Project HOPE will then collect and combine available information from a series of webservers and databases and will produce a mutation report complete with results, figures and animations. Where available Project HOPE will use the 3D structure of the protein but the server can also build a homology model if necessary. Other information sources include the Uniprot database and a series of DAS prediction servers., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: Project HOPE (RRID:SCR_005141) Copy   

•   Source: SciCrunch Registry