Category Archives: Scholarly Collaboration

BenchSci, an antibody-finding search engine free to academics

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The Peter B. Lewis Library is pleased to present BenchSci to the Princeton research community.

Registration is free to all scientists with a princeton.edu or affiliated institutional emails at https://www.benchsci.com

BenchSci is a online platform designed to help scientists find antibodies from publications. Their proprietary machine-learning algorithm was trained by PhD-level scientists to identify and understand the usage of commercial antibodies in the research literature.

When searching for a specific protein target, BenchSci curates published data in the form of figures to simplify the literature search process. The figures can then be filtered by specific experimental contexts cited in the paper such as techniques, tissue, cell lines, and more, to help users pinpoint antibodies that have been published under experimental conditions matching their study interest.

For more information about BenchSci, please refer to this article: https://blog.benchsci.com/7-features-to-find-antibodies

To learn how to navigate BenchSci, please watch this short video: https://youtu.be/EFaDwTtqlv4

For further inquiries or feedback, contact Maurice Shen, PhD, the Head of Academic Relations at BenchSci, at maurice@benchsci.com

Data Management Plan Presentation – Wed., March 28th

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Data Management Plan Presentation

Wednesday, March 28, 12:00 – 1:00 pm

347 Lewis Science Library, Washington Road & Ivy Lane
[Lunch will be provided. RSVP here.]

This one-hour presentation by PU librarians, OIT and PICSciE/Research Computing staff is open to Princeton researchers, graduate students and grants personnel. Please share with those who may benefit from this presentation.

Topics

  • Why manage research data?
  • Elements of data management
  • How to write a data management plan
  • Common data management issues
  • Best practices for managing research data
  • Resources and support on campus

Best of the Web, GEN (Vol. 37, No. 8) SciPy PYTHON

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“Computer programming is becoming (or rather, already has become) an essential skill for modern-day life scientists. A popular programming language in many fields is Python, in large part due to its open-source development. As a result, there exist many free resources available to both experienced and novice Python users. A large collection of such resources can be found on SciPy.org, home of a number of scientific and computational software packages/libraries for Python. In addition to offering free downloads of those packages, the SciPy website also includes SciPy Central (a collection of useful Python code snippets), a blog, documentation for the various software packages, and a place for users to report bugs. Site visitors in search of even more information can browse the SciPy Cookbook, a collection of user-contributed “recipes” that span topics such as graphics, linear algebra, simple plotting, and differential equations.”

Genetic Engineering & Biotechnology News, April 15, 2017,  URL:scipy.org

Rated “Excellent”, free software downloads, good documentation

Chemists to get their own preprint server

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World’s largest scientific society plans to introduce ChemRxiv for a traditionally reluctant discipline.

  • Daniel Cressey

11 August 2016

Nature DOI: doi:10.1038/nature.2016.20409

http://www.nature.com./news/chemists-to-get-their-own-preprint-server-1.20409

From Bob Buntrock (Princeton Class of ??)   on the CHMINF Listserv.

Like arXiv and bioRxiv, ChemRxiv, hopes to facilitate the discovery and sharing of significant happenings in Chemistry.  ACS is welcoming input during this planning stage.

arXiv hits 1 million submissions

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From the “Cornell Chronicle”, Jan. 15, 2015, and seen in the “Fast Facts” column of “College & Research Libraries News”, Vol. 76(2)  p. 108, Feb., 2015,

“As an open-access service, it allows scientists from disciplines encompassing physics, statistics, computer science and others to share research before it’s formally published. One million papers have now been uploaded to the repository.”

“arXiv received more than 97,000 new submissions in 2014. More than 150 subject experts from around the world evaluate and categorize every article posted on arXiv.”

http://news.cornell.edu/stories/2015/01/research-repository-arxiv-hits-1-million-submissions

 

Virus Evolution — New OA journal from OUP

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The Virus Evolution      http://ve.oxfordjournals.org/

“Virus Evolution is a new Open Access journal focusing on the long-term evolution of viruses, viruses as a model system for studying evolutionary processes, viral molecular epidemiology and environmental virology.

The aim of the journal is to provide a forum for original research papers, reviews, commentaries and a venue for in-depth discussion on the topics relevant to virus evolution.”

“Editors-in Chief, Professor Oliver Pybus, University of Oxford, and Professor Santiago Elena, Instituto de Biología Molecular y Celular de Plantas (CSIC-UPV) welcome submissions at:https://mc.manuscriptcentral.com/vevolu.”
Source of information:  Knowledgespeak Newsletter, Feb. 9, 2015

Institute of Biodiversity Genomics, Smithsonian Institution

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Smithsonian Jumps Into Biodiversity Genomics With New Institute

“On the heels of two vast analyses of the genomes of both birds and insects, the Smithsonian Institution in Washington, D.C., has announced that it will launch a virtual biodiversity genomics institute to accelerate efforts to capture and catalog all the DNA from Earth’s flora and fauna. Science, 12/12”

 

From: Total E-Clips <totaleclips@fbresearch.org>

To read more:

http://news.sciencemag.org/biology/2014/12/smithsonian-jumps-biodiversity-genomics-new-institute

World Library of Science introduced by UNESCO

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UNESCO has launched the World Library of Science. “The library will be accessible to internet users everywhere in the world, at no cost. The majority of the content is for university-level students, giving them resources to ‘complement their learning’.”  Target groups are students and teachers in the more underdeveloped parts of the world, especially, Africa.  “The library – WLoS – ‘contains’ more than 300 articles, 25 eBooks and some 70 videos, as well as a digital platform that “provides a community hub” for learning, according to UNESCO, which created the site jointly with the international Nature Education publishing group and the Swiss pharmaceutical company Roche.

“The library – WLoS – ‘contains’ more than 300 articles, 25 eBooks and some 70 videos, as well as a digital platform that “provides a community hub” for learning, according to UNESCO, which created the site jointly with the international Nature Education publishing group and the Swiss pharmaceutical company Roche.”

From ResearchBuzz Saturday Afternoon Buzz, November 15th, 2014, Tara Calishain

Global Forest Watch — Internet Resource

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http://www.globalforestwatch.org/(reviewed in CHOICE November 2014).

[Visited Aug’14] Global Forest Watch (GFW), currently in beta phase, is a dazzling, open data website that aims to monitor deforestation worldwide. With partners like Google, the Jane Goodall Institute, and UNEP (among many others) and “convened by the World Resources Institute,” GFW will impress visitors with its beauty and obvious value. In order to provide “near-real-time” access to information like logging practices, GFW uses satellite images and provides a hub for local communities to upload photos and report illegal deforestation by use of smartphones and GPS mapping. The goal is to track these events as they happen, instead of months or even years later. Unfortunately, it is not possible for all the maps to be updated instantly. Users must agree to a lengthy terms of service agreement before entering the site, ensuring that they understand the limitations of the data presented.

Technology-adept users will find GFW extremely intuitive. Users begin with a 2-D map featuring multiple overlays; displays can be selected from sections such as Forest Change, Forest Cover, Forest Use, and Conservation. Data can be limited by years, ranging from 2001 to 2013. The Countries section contains more in-depth information. The site also features stories about deforestation, a blog prepared by the GFW team, and an alert service. GFW is rightfully confident of its benefits, providing a detailed plan of how the site can be utilized. Significantly, GFW clearly identifies the sources of the information retrieved, supporters of the site, and funding sources. Brief tutorials and FAQs offer additional information. Nearly everyone can find a use for this site and the inestimable data within–whether as a teaching tool or as a primary source for research. Summing Up: Highly recommended. All academic, general, and professional library collections.”

–C. M. Woxland, Utah State University

Copyright 2014 American Library Association

DataCite & Data Citation Index (Thomson Reuters)

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“ Thomson Reuters and DataCite collaborate to expand discovery of research data –29 Aug 2014

The Intellectual Property & Science business of Thomson Reuters has announced a collaboration with DataCite, a global non-profit organization dedicated to enabling people to find, share, use, and cite data. The collaboration will promote the discovery of research data sets through the Data Citation Index, a single-point solution providing access to quality research data sets from multi-disciplinary repositories around the world.

This collaboration will connect the Data Citation Index to high quality research data from repositories worldwide that work with DataCite. This will ensure that the valuable content that has been made citable by DataCite is globally discoverable, properly attributed and reusable by other researchers. As part of the Web of Science – the premier scientific search and discovery platform and industry authority in science, social science, and arts & humanities citation indexes – inclusion within the Data Citation Index will also further DataCite’s mission of increasing acceptance of research data as citable contributions to the scholarly record.

Since creating the Data Citation Index, Thomson Reuters has worked closely with global industry leaders to expand the breadth of research discovery by capturing bibliographic records and cited references for digital research, as well as literature describing research which cites or uses the data, stewarding the accurate identification, attribution and measurement of this growing body of scholarship. The Data Citation Index allows users to gain a comprehensive view of the genesis of research projects and influence the future paths they may take, while minimizing the duplication of work and speeding the scientific research process to keep pace with the changing global research landscape. Through linked content and summary information, this data is displayed within the broader context of the scholarly research ecosystem, enabling users to gain perspective that otherwise would be lost if viewed in isolation.”

Source:  Knowledgespeak Newsletter