Posts by Category: Biological Informatics

Updated> Biological Informatics 2018 Subject Tracer White Paper Link Dataset Compilation

September 01, 2017

Updated> Biological Informatics 2018 Subject Tracer White Paper Link Dataset Compilation
http://www.BiologicalInformatics.info/

I have just updated my Subject Tracer™ Information Blog white paper link dataset compilation titled Biological Informatics 2018 which is now a 37 page paper listing selected resources both new and existing that will help anyone who is attempting to find the latest information about biological informatics that are available over the Internet. It is freely available as a .pdf file (296KB) at the above link from the Virtual Private Library™ and authored by Marcus P. Zillman, M.S., A.M.H.A. It was completely updated including link validation and new links added on September 1, 2017. Other white papers are available by clicking here.

This research is powered by Subject Tracer Bots™ available from the Virtual Private Library™.

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Awareness Watch Newsletter V15N8 September 2017

August 26, 2017

Awareness Watch Newsletter V15N8 September 2017
http://AwarenessWatch.VirtualPrivateLibrary.net/V15N9.pdf
Awareness Watch™ Newsletter Blog and Archives
http://www.AwarenessWatch.com/

The September 2017 V15N9 Awareness Watch Newsletter is a freely available 57 page .pdf document (399KB) from the above URL. This month’s featured report covers Biological Informatics 2018 and represents the latest World Wide Web resources for discovering new knowledge and understanding the latest happenings with regards to the biological informatics. The world is rapidly changing as transparency, big data and the ability to access data from new and now accessible databases becomes a reality both in the web and the deep web! This area is one of the fastest growing and expanding areas on the Internet! These resources are constantly updated by Subject Tracer™ Information Bots and the latest resources for biological informatics are available from the following URL: http://www.BiologicalInformatics.info/. These resources will help you to discover the many pathways available to you through the Internet to find the latest biological informatics reference resources, sources and sites and to actively participate in these rapidly expanding biological happenings and events! The Awareness Watch Spotters cover many excellent and newly released annotated current awareness research sources and tools as well as the latest identified Internet happenings and resources including a number of neat and must-have tools! The Awareness Watch Article Review covers Fostering Digital and Scientific Literacy: Learning Through Practice by Patricia Dias da Silva, Lorna Heaton.

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eLabFTW – Free and Open Source Electronic Lab Notebook

August 25, 2017

eLabFTW – Free and Open Source Electronic Lab Notebook
https://www.elabftw.net/

Designed by researchers, for researchers, with usability in mind. With eLabFTW you get a secure, modern and compliant system to track your experiments efficiently but also manage your lab with a powerful and flexible database. If you do experimental research, then eLabFTW is for you. Whatever your field is. It is also well suited for teachers, or biotech companies. eLabFTW is powered by PHP/MySQL in Docker containers. It should be installed on a server. One install can be for a team, or the whole institution. You can also install it on your computer just for yourself. Features include: 1) Free – Open-source with an AGPL licence means free as in beer but also free as in freedom. You have the freedom to modify it, look how it works and even redistribute your changes; 2) Secure – Strong encryption, good practices and modern codebase offers the best security for your data; 3) Responsive – You can access your lab book from any device, running any operating system, from anywhere in the world; 4) Cross-platform – Use your favorite operating system. You only need a recent browser; 5) Timestamps – RFC 3161 compliant timestamping of experiments (for intellectual property); 6) Inventory management – Store reagents, protocols, plasmids, cell lines, mice or anything you want, you can customize everything; 7) Stay master of your data – Import and export your data in common file formats (PDF, ZIP, CSV, JSON). Your data is not locked somewhere; 8) Internationalization – eLabFTW is translated in several languages because not everyone is comfortable with english; 9) Scheduler – Use the integrated scheduler to book anything you need to like microscopes, rooms, machines, etc. This will be added to Biological Informatics Subject Tracer™. This will be added to Entrepreneurial Resources Subject Tracer™. This will be added to the tools section of Research Resources Subject Tracer™.

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Cytoscape – Network Data Integration, Analysis and Visualization In a Box

August 22, 2017

Cytoscape – Network Data Integration, Analysis and Visualization In a Box
http://www.cytoscape.org/

Cytoscape is an open source software platform for visualizing molecular interaction networks and biological pathways and integrating these networks with annotations, gene expression profiles and other state data. Although Cytoscape was originally designed for biological research, now it is a general platform for complex network analysis and visualization. Cytoscape core distribution provides a basic set of features for data integration, analysis, and visualization. Additional features are available as Apps (formerly called Plugins). Apps are available for network and molecular profiling analyses, new layouts, additional file format support, scripting, and connection with databases. They may be developed by anyone using the Cytoscape open API based on Java™ technology and App community development is encouraged. Most of the Apps are freely available from Cytoscape App Store. This will be added to Biological Informatics Subject Tracer™. This will be added to Entrepreneurial Resources Subject Tracer™. This will be added to the tools section of Research Resources Subject Tracer™.

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Peptides Guide

June 30, 2017

Peptides Guide
http://www.peptidesguide.com/

Peptides play significant role in cell signaling and function and can be used as an important tool for research and therapeutic treatments. Here we discuss both the structure and activities of peptides as well as strategies for their synthesis. Both peptides and proteins fall under a category called polypeptide chains. These chains contain two or more amino acids (forming amino acid polymers) that are coupled by a peptide bond. The bond is a special linkage between the nitrogen atom of one amino acid and the carboxyl carbon atom of another. Peptides differ from proteins by amount of amino acid residues the molecule contains. Polymer molecules with ten or fewer amino acid residues are called oligopeptides. Peptides often contain up to fifty amino acid residues, protein are molecules with more than fifty amino acid residues. Peptides are functioning in human body on many ways, such as regulating metabolism (insulin) and mediating pain signals (dynorphin). They also play a role in endocrine signaling and can act as a growth factor. Other organisms have produced peptides as a means for defense, such as fungal production of cyclosporin A used clinically as an immunosuppressant, and cone snail secretion of Ziconotide which is used to treat a pain. Modern medicinal and biochemical research is unthinkable without peptides application because of their selectivity, specificity and potency interaction with the target proteins. Peptides’ large size and surface area allow for more specific docking to the target molecules. Researchers’ interest in developing peptide ligands and probes for studying target receptors’ structures and functions has increased dramatically lately. More recently, peptides have been considered as the desirable candidates for therapeutics. Not only can peptides be made very selelctive, decreasing the risk of side effects, but they rapidly metabolize by proteases and allow short time activity in the body. Peptides’ activity can be lengthened by incorporating modifications, such as non-natural and D-amino acids, cyclization and modifications at the N or C-terminus. Therapeutic peptides also have some advantages compared to their protein counterparts. Biological therapeutics, which are generally proteins, have earned an increasing share of the pharmaceutical marketplace over the past few years. While biologics are often highly safe and effective, they must be produced in bioreactors, which use whole cells. Their purification and structural analysis is often complex and expensive. Further, biologics almost invariable must be injected. Peptides, on the other hand, can often be accessed chemically, and their purification and analysis is much simpler. There is also an increasing number of examples of orally active peptides, which make them more desirable for drug development. Endogenous peptides have also been utilized for research and medical interventions. They can be monitored for diagnostic purposes, such as in the case of C-peptide, which is used to monitor insulin production and to help determine the cause of low blood sugar (hypoglycemia). This will be added to Biological Informatics Subject Tracer™.

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The Cell Image Library™

June 16, 2017

The Cell Image Library™
http://www.cellimagelibrary.org/

The Cell Image Library™ is a freely accessible, easy-to-search, public repository of reviewed and annotated images, videos, and animations of cells from a variety of organisms, showcasing cell architecture, intracellular functionalities, and both normal and abnormal processes. The purpose of this database is to advance research, education, and training, with the ultimate goal of improving human health. This will be added to Biological Informatics Subject Tracer™. This will be added to Healthcare Resources Subject Tracer™.

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Updated> Biological Informatics 2017 Subject Tracer White Paper Link Dataset Compilation

June 13, 2017

Updated> Biological Informatics 2017 Subject Tracer White Paper Link Dataset Compilation
http://www.BiologicalInformatics.info/

I have just updated my Subject Tracer™ Information Blog white paper link dataset compilation titled Biological Informatics 2017 which is now a 36 page paper listing selected resources both new and existing that will help anyone who is attempting to find the latest information about biological informatics that are available over the Internet. It is freely available as a .pdf file (305KB) at the above link from the Virtual Private Library™ and authored by Marcus P. Zillman, M.S., A.M.H.A. It was completely updated including link validation and new links added on May 26, 2017. Other white papers are available by clicking here.

This research is powered by Subject Tracer Bots™ available from the Virtual Private Library™.

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EAGLE-I – Search Top Categories From 100,800 Biomedical Resources

June 06, 2017

EAGLE-I – Search Top Categories From 100,800 Biomedical Resources
https://www.eagle-i.net/

eagle-i is a resource discovery tool built to facilitate translational science research. Groundbreaking biomedical research requires access to cutting edge scientific resources, but those resources are often invisible beyond the laboratories or universities where they were developed. Using eagle-i’s free software, you can collect and share information about your research resources, giving any scientist, anywhere, access to one of the largest collections of information about Core Facilities, iPS cell lines, and other valuable, unique or rare scientific resources in the world. FOR RESEARCHERS: Query multiple institutions, connect with other researchers, share or request resources. FOR INSTITUTIONS: Collect and share information about research resources in a highly organized and accessible way. FOR DEVELOPERS: Get the open source software and search semantically rich data resources of all kinds. This will be added to Biological Informatics Subject Tracer™. This will be added to the tools section of Research Resources Subject Tracer™. This will be added to Entrepreneurial Resources Subject Tracer™. This will be added to Academic and Scholar Search Engines and Sources white paper.

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DIRECT2Experts – Distributed Interoperable Biomedical Research Experts Collaboration Tool

May 02, 2017

DIRECT2Experts – Distributed Interoperable Biomedical Research Experts Collaboration Tool
http://direct2experts.org/

The DIRECT2Experts network, open to all biomedical institutions, is a pilot project facilitated by the Research Networking Working Group of the NIH-supported Clinical & Translational Science Award (CTSA) Consortium. Their goal is to improve biomedical research and leverage our strengths as a community by creating a network that enables easy access to expertise and related resources across institutions regardless of local platforms and tools, and in collaboration with participating institutions to ensure access to approved and verified data. What makes DIRECT2Experts different? a) Rather than searching public databases or asking individual researchers to “sign-up”, DIRECT2Experts works directly with institutions to connect to their existing research networking tools.; b) DIRECT2Experts works across different software products and respects local privacy policies, enabling many institutions to participate; and c) The focus of DIRECT2Experts is to bring more institutions and investigators into the fold, allowing for an assessment of the value provided and challenges of searching a national network. This will be added to Internet Experts Subject Tracer™. This will be added to Biological Informatics Subject Tracer™. This will be added to the tools section of Research Resources Subject Tracer™. This will be added to Entrepreneurial Resources Subject Tracer™.

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EdX: The Extremes of Life: Microbes and their Diversity

April 18, 2017

EdX: The Extremes of Life: Microbes and their Diversity
https://www.edx.org/course/extremes-life-microbes-diversity-kyotoux-003x-0

Kyoto University offers this open EdX course dedicated to microorganisms and their role in our world. More specifically, this course investigates microbes that are able to survive in extreme nvironments and temperatures. As the course introduction explains, “Microorganisms are everywhere, and although some are notorious for their roles in human disease, many play important roles in sustaining our global environment.” In this course, anyone can learn more about microbes via video lectures, course readings, and assignments. These materials are divided into four units: Evolution and  the Diversity of Life; Life in Boiling Water; Diversity of Extremophiles; and Genome Sequences. Intended for anyone with a middle-school level knowledge of science, this course is self-paced but designed to be completed in about four weeks. Auditing The Extremes of Life is free; students also have the the option to earn a certificate if they pay a course fee. This will be added to Biological Informatics Subject Tracer™. Copyright © 2017 Internet Scout Research Group – http://scout.wisc.edu

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