Curator Dashboard

This collection of tools stream-lines the processing of HiC data from raw sequence to contact matrices and beyond.

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• SciCrunch
• 13 years ago - by Anonymous

A bioinformatics tool for error correction of HTS read data.

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• SciCrunch
• 13 years ago - by Anonymous

The CIRRIE Database of International Rehabilitation Research currently contains almost 90,000 citations of international rehabilitation research published between 1990 and the present. The CIRRIE Database collects citations from all areas of rehabilitation and compiles them into one central source. In addition to indexing from mainstream journals and internet sites, CIRRIE also includes citations to resources not readily available to U.S. researchers. Over 5000 journals are represented in the Database and abstracts are available for most citations. A list of journals is now available. There are almost 90,000 citations currently indexed with citations added monthly. The database includes citations from 1990 to the present. It was created to facilitate the sharing of information and expertise in rehabilitation and disability research between the U.S. and other countries.

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• SciCrunch
• 17 years ago - by Anonymous

A parallel multistage k-hopo spectrum based homopolymer-length error corrector for 454 sequencing data.

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• SciCrunch
• 13 years ago - by Anonymous

A database of ingredients in brand-name household products linked to health information from Material Safety Data Sheets (MSDS) provided by manufacturers. The database is designed to help answer the following typical questions: *What are the chemical ingredients and their percentage in specific brands? *Which products contain specific chemical ingredients? *Who manufactures a specific brand? How do I contact this manufacturer? *What are the acute and chronic effects of chemical ingredients in a specific brand? *What other information is available about chemicals in the toxicology-related databases of the National Library of Medicine? NLM and its Contractor (the Database Providers) do not test products nor investigate to determine if this information is complete or accurate.

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• SciCrunch
• 17 years ago - by Anonymous

IRIS is a toxicology data file on the National Library of Medicine''s (NLM) Toxicology Data Network. It contains data in support of human health risk assessment. It is compiled by the U.S. Environmental Protection Agency (EPA) and contains over 500 chemical records. It is a compilation of electronic reports on specific substances found in the environment and their potential to cause human health effects. IRIS was initially developed for EPA staff in response to a growing demand for consistent information on substances for use in risk assessments, decision-making and regulatory activities. The information in IRIS is intended for those without extensive training in toxicology, but with some knowledge of health sciences. The Integrated Risk Information System (IRIS) is an electronic database containing information on human health effects that may result from exposure to various substances in the environment. IRIS is prepared and maintained by the EPAs National Center for Environmental Assessment (NCEA) within the Office of Research and Development (ORD). The heart of the IRIS system is its collection of searchable documents that describe the health effects of individual substances and that contain descriptive and quantitative information in the following categories: -Noncancer effects: Oral reference doses and inhalation reference concentrations (RfDs and RfCs, respectively) for effects known or assumed to be produced through a nonlinear (possibly threshold) mode of action. In most instances, RfDs and RfCs are developed for the noncarcinogenic effects of substances. -Cancer effects: Descriptors that characterize the weight of evidence for human carcinogenicity, oral slope factors, and oral and inhalation unit risks for carcinogenic effects. Where a nonlinear mode of action is established, RfD and RfC values may be used.

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• SciCrunch
• 17 years ago - by Anonymous

A program to merge paired end Illumina reads that are overlapping into a single longer read.

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• SciCrunch
• 13 years ago - by Anonymous

Material Safety Data Sheets for chemical products are available to laboratory workers for most chemicals and reagents. However because many laboratory workers, whether in research, public health, teaching, etc., are exposed to not only chemicals but infectious substances as well, there was a large gap in the readily available safety literature for employees. These MSDS are produced for personnel working in the life sciences as quick safety reference material relating to infectious micro-organisms. The MSDS are organized to contain health hazard information such as infectious dose, viability (including decontamination), medical information, laboratory hazard, recommended precautions, handling information and spill procedures. The intent of these documents is to provide a safety resource for laboratory personnel working with these infectious substances. Because these workers are usually working in a scientific setting and are potentially exposed to much higher concentrations of these human pathogens than the general public, the terminology in these MSDS is technical and detailed, containing information that is relevant specifically to the laboratory setting. It is hoped along with good laboratory practices, these MSDS will help provide a safer, healthier environment for everyone working with infectious substances. The MSDS is ran by the Public Health Agency of Canada. The Public Health Agency of Canada (PHAC) is the main Government of Canada agency responsible for public health in Canada. PHACs primary goal is to strengthen Canadas capacity to protect and improve the health of Canadians and to help reduce pressures on the health-care system. To do this, the Agency is working to build an effective public health system that enables Canadians to achieve better health and well-being in their daily lives by promoting good health, helping prevent and control chronic diseases and injury, and protecting Canadians from infectious diseases and other threats to their health. PHAC is also committed to reducing health disparities between the most advantaged and disadvantaged Canadians. Because public health is a shared responsibility, the Public Health Agency of Canada works in close collaboration with all levels of government (provincial, territorial and municipal) to build on each others skills and strengths. The Agency also works closely with non-government organizations, including civil society and business, and other countries and international organizations like the World Health Organization (WHO) to share knowledge, expertise and experiences.

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• SciCrunch
• 17 years ago - by Anonymous

Provides an efficient tool for trimming adapter sequences and low quality sequences, in raw reads generated by the high throughput sequencing platforms.

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• SciCrunch
• 13 years ago - by Anonymous

Flexible barcode and adapter removal for sequencing platforms.

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• SciCrunch
• 13 years ago - by Anonymous

Contains data to inform healthcare decision-making from Cochrane and other systematic reviews, clinical trials, and more. Cochrane reviews bring you the combined results of the worlds best medical research studies, and are recognized as the gold standard in evidence-based health care. Consists of a regularly updated collection of evidence-based medicine databases, including The Cochrane Database of Systematic Reviews. This database includes systematic reviews of healthcare interventions that are produced and disseminated by The Cochrane Collaboration. It is published on a monthly basis and made available both on CD-ROM and the Internet. The review abstracts are available to browse and search free of charge on this website. The Cochrane Library Users'' Group (CLUG) provides a forum for discussion of usability, readability, searchability, and formatting issues related to the use of The Cochrane Library. The Cochrane Collaboration is an international not-for-profit and independent organization, dedicated to making up-to-date, accurate information about the effects of healthcare readily available worldwide. Funded by John Wiley and Sons Limited. The individual entities of The Cochrane Collaboration are funded by a large variety of governmental, institutional and private funding sources, and are bound by organisation-wide policy limiting uses of funds from corporate sponsors.

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• SciCrunch
• 14 years ago - by Anonymous

A public resource composed of a collection of databases, computational and experimental resources that relate to the control of gene expression in the grasses, and their relationship with agronomic traits. As knowledge on the interactions of transcription factors (TFs) and cis-regulatory elements in the promoters of the genes that they regulate continues to accumulate, the information is acquired by GRASSIUS, either through contributions by the community, or by literature analysis. The overarching objective of GRASSIUS is to provide a one-stop resource that will facilitate research and communication within the plant community with regards to genome-wide regulation of gene expression processes.

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• SciCrunch
• 13 years ago - by Anonymous

Sequence mapper for bisulfite sequencing reads for DNA methylation studies.

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• SciCrunch
• 13 years ago - by Anonymous

A single program that takes of bisulfite-treated reads and outputs per-base methylation data.

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• SciCrunch
• 13 years ago - by Anonymous

Software developed for analyzing data derived from methylated DNA immunoprecipitation (MeDIP) experiments followed by sequencing (MeDIP-seq).

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• SciCrunch
• 13 years ago - by Anonymous

Software that allows the prediction of absolute and relative methylation levels based on measures obtained by MeDIP-microarray experiments.

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• SciCrunch
• 13 years ago - by Anonymous

A virtual software pipeline that contains several PERL modules for processing next generation sequencing data.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that provides useful classes and functions to handle and analyze targeted bisulfite sequencing (BS) data such as reduced-representation bisulfite sequencing (RRBS) data.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that implements analysis tools for DNA methylation data generated using Nimblegen microarrays and the McrBC protocol.

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• SciCrunch
• 13 years ago - by Anonymous

A peak-finding algorithm used to analyze ChIP-chip microarray data.

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• SciCrunch
• 13 years ago - by Anonymous