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WAViS generates pictures of your alignment files. These tools should help you with preparation of publication-quality pictures of your alignment. Sponsors: This resource is supported by Institute of Molecular Genetics. Keywords: Software, Server, Picture, Alignment,

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• SciCrunch
• 17 years ago - by Anonymous

A website dedicated to advancing non-animal methods of toxicity testing, both to better protect the health of humans, animals, and the environment and to reduce the numbers and suffering of animals used in current toxicology assessments. The website is designed to encourage the exchange of technical and policy information on in vitro and in silico methods for all types of toxicity tests. The AltTox Forum is a message board for the AltTox community to use for posting news, information, and perspectives as well as encouraging feedback and commentary. This online community is intended to foster progress internationally in the development, validation, and acceptance of in vitro methods, with the goal of decreasing our reliance on animal-based safety testing. The Forum is moderated by a group of internationally-recognized subject matter experts. The Way Forward invited commentaries, which are posted in the TTRC, are opinion pieces written by experts in each relevant subfield. These essays are meant to help chart the course for future developments by advancing opportunities to overcome challenges and barriers to progress. Stakeholders are invited to comment on these essays in The AltTox Forum. AltTox users are encouraged to contribute to the website and interact with other users in several ways, including: :- Participating in the online forum :- Providing invited expert commentaries :- Suggesting or submitting content, events, monthly features, data, and graphics :- Providing feedback through the Website Feedback surve To encourage objectivity, the website content is overseen by an editorial board of distinguished subject matter experts.

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• SciCrunch
• 17 years ago - by Anonymous

Doris Kupfer, Sara Downard, and Laura Hern in our Genome Center at the University of Oklahoma, have sequenced the 3'' and/or 5'' ends of double stranded cDNAs constructed from the salivary glands of the lone star tick, Amblyomma americanum constructed by Richard Essenberg and Majd Aljamali, Department of Biochemistry and Molecular Biology at Oklahoma State University, Stillwater OK. Four libraries are included in this August 27, 2003 release. Lib1:TSG Lib1, female, salivary gland, 50-200 mg feeding adults Lib2:TSG Lib2, female, salivary gland, unfed adults, feeding adults, replete adults Lib3:TSG Lib3, female, salivary gland, 3 day feeding adults Lib4:TSG Lib4, female, salivary gland, 50-200 mg feeding adults, was constructed from TSG Lib1 by normalization following procedure of, Bonaldo et al (Genome Res. 1996 Sep;6(9):791-806). Amblyomma americanum lone star tick Latest Data Release - August 27, 2003 1757 total ESTs that were assembled into 810 entries and 608,477 nucleotides in the four separately libraries and combined into one searchable database. - The Amblyomma americanum lone star tick salivary gland cDNA libraries Lib1, Lib2 and Lib4 were constructed from multiple feeding stages in Clonetech pTriplEx2 vector by directionally cloning into the 5'' EcoRI and 3'' SfiIb sites. Lib3 was constructed from 3 day feeding adults by Stratagene, Inc. into pBlueScript SK- . - Ribosomal RNA, mitochondrial RNA, vector and small (less than 100bp) inserts, will be removed prior to assembly of a UniGene database using Phred (Phil Green, University of Washington) . All of our data is available from our ftp site, and we now have added the ability to perform blast searches on this data. A keyword search of a blastx search of GenBank with this data also is available. Sponsors: This resource is supported by University of Oklahoma. Keywords: CDNA, Dataset, Library, RNA, Mitochondrial, Ribosomal,

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• SciCrunch
• 17 years ago - by Anonymous

The American Heart Association (AHA) publishes medical scientific statements on various cardiovascular disease and stroke topics. AHA volunteer scientists and healthcare professionals write the papers. The statements are supported by scientific studies published in recognized journals and have a rigorous review and approval process. Scientific statements generally include a review of data available on a specific subject, an evaluation on its relationship to overall cardiovascular disease science, and often an American Heart Association position on the basis of that evaluation. The American Heart Association sponsors accredited scientific conferences and professional development seminars to disseminate new and emerging scientific knowledge and stimulate discussion on future research and the application of knowledge. Keywords: Heart, Cardiovascular, Disease, Stroke, Volunteer, Scientist, Healthcare, Development, Knowledge,

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• SciCrunch
• 17 years ago - by Anonymous

The National Institute of Neurological Disorders and Stroke (NINDS) conducts and supports research on brain and nervous system disorders. Created by the U.S. Congress in 1950, NINDS is one of the more than two dozen research institutes and centers that comprise the National Institutes of Health (NIH). NINDS has occupied a central position in the world of neuroscience for more than 50 years. It provides access to different research programs both extramural and intramural. Research Topics: Epilepsy, Parkinson''s Disease, Traumatic Brain Injury, Anticonvulsant Screening, CounterACT, Bioengineering, Neural Interfaces, Stem Cell Research. Offices and Programs: *Channels, Synapses and Neural Circuits *Neural Environment *Neurodegeneration *Neurogenetics *Office of Clinical Research *Office of International Activities *Office of Minority Health and Research *Office of Translational Research *Office of Training and Career Development *Repair and Plasticity *Systems and Cognitive Neuroscience

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• SciCrunch
• 17 years ago - by Anonymous

As fascinating as diversity is, it''s not the sort of thing that computational scientists usually get excited about. Uncovering how diversity came to be has captured the attention of a team of researchers at Alliance partner University of New Mexico and the University of Texas, though. Using the 512-processor LosLobos Linux Pentium III supercomputing cluster at the Albuquerque High Performance Computing Center, the team has created a phylogeny reconstruction - or evolutionary history - of 12 bluebell species, predicting all of the steps that take these species back to a single common ancestor. To meet the challenge, they created a whole new piece of software known as GRAPPA. GRAPPA is is free software available as a gzipped tar file containing all source files needed to compile an executable version.

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• SciCrunch
• 16 years ago - by Anonymous

The Power Atlas is a web-based resource to assist investigators in the planning and design of microarray and expression based experiments. This software is currently aimed at estimating the power and sample size for a two group comparison based upon pilot data. The methods underlying the web site are reported in Gadbury et al (2004) and the software is described in further detail at Page et al (2006). There are two ways to use the Power Atlas: 1. We have downloaded the datasets currently in the Gene Expression Omnibus (GEO) and processed each of them with our power analysis software. Investigators may search among the datasets for the experiment that most closely resembles their proposed project and get sample size and power estimates. 2. Investigators may upload their own preliminary data and the program will extrapolate power from this dataset.

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• SciCrunch
• 17 years ago - by Anonymous

It provides quantitative information about phenotypes for the complete collection of deletion strains in yeast (Saccharomyces cerevisiae). PROPHECY evalutes the phenotype of a deletion strain on the basis of growth behaviour during micro-cultivation. PROPHECY quantifies growth aberrations by estimating the rate of growth, the efficiency of growth and the adaptation time.

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• SciCrunch
• 17 years ago - by Anonymous

This portal takes you to the website of Professor Anne Chao of the National Tsing Hua University, China. She studies birds. The portal offers Software, course information, publications and teaching. There are about 458 bird species in Taiwan. We have observed 155 species in our neighboring Ker-Yar estuary. We would estimate the total number of species in this area to be 180 including those unobserved. The more we discover about birds, the more we realize how intimately and closely our lives are entwined with those of birds. When the habitats of birds are destroyed and birds become extinct, we human beings are losing the land....

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• SciCrunch
• 16 years ago - by Anonymous

Our research group develops and applies computational techniques for modeling and understanding biological processes at the molecular level. Our research emphasizes the application of statistical and machine learning techniques, such as hidden Markov models and support vector machines. We apply these techniques to various types of biological data, including DNA and protein sequence data, as well as gene expression data from microarray experiments. We are currently developing methods for analyzing shotgun proteomics data, for characterizing protein function, structure and interactions, and for understanding the structure and regulatory influence of chromatin.

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• SciCrunch
• 16 years ago - by Anonymous

Their primary focus is in the area of structural, evolutionary and functional genomics of crop plants. AGI is divided into 5 Centers each lead by a Center Leader and a senior Manager (BAC Library Construction Center, BAC/EST Resource Center, Sequencing & Physical Mapping Center (including: production sequencing and fingerprinting, and sequence finishing), Bioinformatics Center and the Evolutionary and Functional Genomics Center). AGI is housed in the state of the art Thomas W. Keating Bioresearch Building on the northeast part of campus near the Medical School. AGI currently employees about 30 scientists and is primarily funded through federal grants, private contracts, and the Bud Antle Endowed Chair in Plant Molecular Genetics. Sponsors: AGI is supported by Bio5, Plant Sciences, National Science Foundation, National Institues oh Health, and USDA.

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• SciCrunch
• 14 years ago - by Anonymous

Family Pairwise Search (FPS) is a protein homology detection algorithm that combines sequence similarity scores from a pairwise alignment algorithm such as Smith-Waterman or BLAST. Source code and a web server are available. This is a method for scoring a query sequence against a family of sequences. (Note: the query sequence may alternatively be a sequence, a GCG profile or a BLAST checkpoint file.) FPS compares the query sequence individually (pairwise) to each sequence in the family and then combines the pairwise scores into an overall score for the match. This site provides access to * a web server to allow you to use FPS to search various protein family libraries for matches to a protein sequence, * an overview of the FPS algorithm, * a description of the inputs and outputs for the FPS server, * a sample output from the FPS server, and * a release notes for FPS, and * links to several papers about FPS, and * the FPS source code for non-comercial use. * COPYRIGHT information and how to license FPS for commercial use is described here.

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• SciCrunch
• 16 years ago - by Anonymous

Arizona CERT is an independent research and education center whose mission is to improve therapeutic outcomes and reduce adverse events caused by drug interactions and drugs that prolong the QT interval, especially those affecting women. The CERTs mission is to conduct research and provide education that will advance the optimal use of drugs, medical devices, and biological products The Arizona CERT is a program of the Critical Path Institute in collaboration with the Center for Health Outcomes and PharmacoEconomic Research at The University of Arizona College of Pharmacy. It is one of 14 national CERTs funded by the U.S. Agency for Healthcare Research and Quality (AHRQ).

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• SciCrunch
• 17 years ago - by Anonymous

This is a Research Community that is focused on reducing the threat of the Aspergillus flavus fungus and its toxin to human and animal health. Aspergillus flavus is a plant, animal, and human pathogen that produces the carcinogen, aflatoxin. An organized multidisciplinary team is coordinating research efforts to control this fungus and to prevent the formation of its toxin in food and feeds. Aspergillus flavus is a fungus. It grows by producing thread like branching filaments known as hyphae. Filamentous fungi such as A. flavus are sometimes called molds. A network of hyphae known as the mycelium secretes enzymes that break down complex food sources. The resulting small molecules are absorbed by the myceilium to fuel additional fungal growth. The unaided eye cannot see individual hyphae, but dense mats of mycelium with conidia (asexual spores) often can be seen. The ear of maize below shows the growth of the fungus covering four maize kernels. When young, the conidia of A. flavus appear yellow green in color. As the fungus ages the spores turn a darker green. Sponsors: This resource is supported by the Center for Integrated Fungal Research. Keywords: Aspergillus flavus, Research, Fungus, Toxin, Human, Animal, Health, Plant, Pathogen, Carcinogen, Aflatoxin, Food, Feed, Mold, Network, Enzyme,

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• SciCrunch
• 17 years ago - by Anonymous

Online journal and database devoted to genes, cytogenetics, and clinical entities in cancer, and cancer-prone diseases. Its aim is to cover the entire field under study and it presents concise and updated reviews (cards) or longer texts (deep insights) concerning topics in cancer research and genomics.

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• SciCrunch
• 17 years ago - by Anonymous

Audacity is free, open source software for recording and editing sounds. It is available for Mac OS X, Microsoft Windows, GNU/Linux, and other operating systems. The latest release of Audacity is 1.3.12 (Beta). This is their active work in progress version with their latest features. Documentation and translations into different languages are not quite complete. They recommend this version for more advanced users, and for everyone on Windows 7, Windows Vista and Mac OS X 10.6. See New Features in 1.3 for more information about the 1.3 Beta series. You can use Audacity to: Convert tapes and records into digital recordings or CDs. Edit Ogg Vorbis, MP3, WAV or AIFF sound files. Cut, copy, splice or mix sounds together. Change the speed or pitch of a recording. And more See the complete list of features. Sponsors: This resource is supported by UmixIt Technologies, LLC. Keywords: Software, Recording, Audio, Sound, Editor, Recorder,

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• SciCrunch
• 17 years ago - by Anonymous

Software for simulating complex networks of biologically realistic neurons, i.e. models incorporating dendritic morphologies and realistic cell membrane conductance, implemented in Java and generates script files for the NEURON and GENESIS simulators, with support for other simulation platforms (including PSICS and PyNN) in development. neuroConstruct is being developed in the Silver Lab in the Department of Neuroscience, Physiology and Pharmacology at UCL and uses the latest NeuroML specifications, including MorphML, ChannelML and NetworkML. Some of the key features of neuroConstruct are: Creation of networks of biologically realistic neurons, positioned in 3D space. Complex connectivity patterns between cell groups can be specified for the networks. Can import morphology files in GENESIS, NEURON, Neurolucida, SWC and MorphML format for inclusion in network models. Simulations can be run on the NEURON or GENESIS platforms. Cellular processes (synapses/channel mechanisms) can be imported from native script files or created in ChannelML. Recording of simulation data generated by the simulation and visualization/analysis of data. Stored simulation runs can be viewed and managed through the Simulation Browser interface.

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• SciCrunch
• 13 years ago - by Anonymous

The fairly common occurrence of hearing-loss or deafness in both humans and mice, and the anatomical and functional similarities of their inner ears, attest to the potential of mice as models to study hereditary hearing loss. Hundreds of standard inbred, recombinant inbred, and congenic strains are maintained at The Jackson Laboratory, as well as hundreds of inbred strains with spontaneous or induced mutations. To assess hearing impairment in inbred and mutant strains of mice we measure auditory-evoked brainstem response (ABR) thresholds.

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• SciCrunch
• 17 years ago - by Anonymous

The overall mission of the Comprehensive Neuroscience Center (CNC) is to promote and support interdisciplinary neuroscience research, clinical care and education at UAB. Despite significant advances over the last 15 years in understanding many basic neurological processes, development of more effective treatments for neurological and psychiatric diseases have been identified as the largest and fastest growing unmet medical need in this country. The institutions that can most rapidly and creatively establish the necessary neuroscience initiatives to facilitate the translation of basic research discoveries into effective therapies will be positioned to lead neurological and psychiatric disease research into the future. The Center integrates a variety of disciplines, including neurology, psychiatry, neurobiology, neurosurgery, psychology, vision science, and biomedical engineering. Faculty from the Schools of Medicine, Optometry, Social and Behavioral Sciences, Dentistry, Engineering, Health Professions, and Public Health are affiliated with the Center. The need to address neuroscience research is great: one in three Americans are affected by nervous system diseases including brain and spinal cord injury, dementing illnesses, schizophrenia, depression, movement disorders, multiple sclerosis, and autism. The burden of these diseases has an estimated economic cost of 500 billion per year in the United States. Center Research: The CNC serves as a vital center for neuroscience research at UAB and oversees six thematic programs of investigation: neurodevelopment and neurogenetics, neurodegeneration and experimental therapeutics, neuroregeneration and plasticity, behavioral and cognitive health, glial biology in medicine, and neuroimaging. The CNC helps coordinate the efforts of multiple neuroscience related centers at UAB, such as the Center for Glial Biology in Medicine, the Evelyn F. McKnight Brain Institute, the Civitan International Research Center, and the Alzheimers Disease Research Center. By interacting directly with these centers and establishing coalitions of centers and neuroscience subdisciplines, the CNC aids the UAB neuroscience community in meeting the challenges of modern neuroscience investigation. The CNC builds on other recent advances in neuroscience at UAB, including an 8.6 million grant from the National Institutes of Health to establish the Alabama Neuroscience Blueprint Core Center Facility awarded in September 2006. The Neuroscience Blueprint establishes research infrastructure on campus that is shared by investigators from institutions across Alabama and the Southeast. UAB has also added dynamic new leadership in the neuroscience fields including the following new chairs: Ray L. Watts, MD, Neurology (from Emory University); David Sweatt, PhD, Neurobiology (from Baylor College of Medicine); and James Meador-Woodruff, MD, Psychiatry (from the University of Michigan).

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 17, 2013. A web interface for identification of potential inter-species CNV information by finding duplicated regions within a genome (paralogues) and between different genomes (orthologues). The paralogues/orthologues are inferred from pairwise sequence alignments between 16 vertebrate species. Note that the CNVs referred here are not equal to copy number polymorphisms of a population. Further experimental evidence is needed to support the polymorphism status of the inferred CNVs in this database.

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• SciCrunch
• 16 years ago - by Anonymous