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Digital tools for researchers (science 2.0): research management, publication, citation management, collaborative working, data vizualisation, lab management...
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How 'Google Science' could transform academic publishing (Wired UK)

How 'Google Science' could transform academic publishing (Wired UK) | Digital research tools | Scoop.it

Google is allegedly working on a free, open access platform for the research, collaboration and publishing of peer-reviewed scientific journals. (...) - by Liat Clark, Wired UK, 13 August 2014

Tree of Science's insight:

Google Science project is mostly build around all the Google tools already existing for editing, share and collaborate (Google docs, sheets, drive...). The community of researchers will self-managed and based and Google+. Journals would be able to be created by members themselves and peer-reviewed by scientists of the communities. Google analytics will be used as altmetrics of published articles.

Will it works with a platform based on "ten percent tools and technology, and 90 percent community? A Self-governing community of researchers would be able to generate an active life on the platform?

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Startup of the Week: Figshare (Wired UK)

Startup of the Week: Figshare (Wired UK) | Digital research tools | Scoop.it

Figshare wants to open up scientific research and data to the world. The idea was first born in 2010 while founder Mark Hahnel was studying at Imperial College London, before a 2012 launch. He wanted to develop a way to share all kinds of datasets -- digital and otherwise -- in an easy-to-use, opensource way. At that point it was just to "allow scientists and researchers like me to get credit and recognition for all their work," says Hahnel. Two years on and the platform now has employees in the UK, US and Romania and serves hundreds of thousands of researchers a month, hosting more than 1.5 million files.  (...) - Wired UK, 25 July 2014

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Extracting data from plots, images, and maps with WebPlotDigitizer

Extracting data from plots, images, and maps with WebPlotDigitizer | Digital research tools | Scoop.it

It is hard to understand why in today’s all-interactive world, scientific data continues to be represented as still, lifeless images. Sadly, the good old pdf or html versions of research papers do not allow us to extract and reuse the data represented as graphics. While we wait for publishers to finally bring interactive figures to publications, and for data to be more open an easily accessible, a simple and reliable method to extract data from graph would be great. Lucky for us,WebPlotDigitizer does exactly that! (...) - Blog "Connected Researchers", June 12, 2014

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Will Digital Humanities #Disrupt the University?

Will Digital Humanities #Disrupt the University? | Digital research tools | Scoop.it

It’s no secret that the humanities—literature, history, philosophy, the foreign languages— are suffering from a precipitous plummet in higher education. But hark! Digital humanities are here to rescue the field—or maybe just kill it off for good. (...) - by Rebecca Schuman, Slate, April 16, 2014

Tree of Science's insight:

Digital humanists are using  digital tools for researchers and are more often practicing  open science. But is it good at least that they tend to become like computer scientists? 

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figshare is now working with IOP

figshare is now working with IOP | Digital research tools | Scoop.it
Figshare and the Institute of Physics (IOP) Publishing are joining up to help authors share their work. Figshare are currently working on a collaborative pilot to test new ways to help authors share figures and data from IOP’s journals more easily. The aim of the pilot is to assist authors further increase the visibility of their research and to help IOP explore solutions to questions surrounding open data using existing cloud-based technology. (...) - by Laura Wheeler, Digital Science, April 09, 2014
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Meeting the research data management challenge

Meeting the research data management challenge | Digital research tools | Scoop.it

Jisc’s Rachel Bruce describes the changes required to ensure managing data is a high priority for research institutions

With the drive for open data and the expansion in terms of the size, variety and complexity of data that researchers and institutions are handling, the need to manage these datasets effectively has never been more pertinent. (...) - by Rachel Bruce, Research Information, 4 March, 2014

 

Tree of Science's insight:

Research has produced more data since two years than ever before. Therefore data management is now critical for scientists and moreover for those in front of big data issues.

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Thomson Reuters Elevates Web of Science as Its Next Generation Research Discovery Platform

Web of Science becomes the Thomson Reuters scientific search and discovery environment, with new and intuitive user interface, expanded content and open-web access for subscribers. (...) - GFII, 16 January 2014

Tree of Science's insight:

Web of Science platform from Thomas Reuters has been improved by open access to SciELo Citation index and Chinese Science Citation Database. New open access funtionnalty was also introduced.

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Big Data meets Old History: Digital Humanities explained in 2 minutes

Adam Crymble describes his thesis of using Computer Science methods for historical analysis of Irish Immigrants in 19th century London, England. - by PhD Comics, 6th September 2013

Tree of Science's insight:
Big Data meets Old History. Watch this 2 minute video about Adam Crymble thesis in the Digital Humanities Department at Kings College London.
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Green Open Access on your Android device: ArXiv mobile

Green Open Access on your Android device: ArXiv mobile | Digital research tools | Scoop.it

ArXiv mobile for Android grants access to the repository, presenting many useful features, thanks to which the data can be searched quickly and easily. The app displays a list of categories and content marked as favorite. It also has an extensive search engine with several filters, such as: author, ID, time, title and abstract. 

Tree of Science's insight:

After the useful iPhone app of ArXiv, the android app display great features: a list of categories, an extensive search engine, see authors papers collection, display articles in PDF format, a special widget. With a well designed UX.

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Using JURN to find open access journals in arts and humanities

Using JURN to find open access journals in arts and humanities | Digital research tools | Scoop.it

If you are looking for unrestricted scientific material, for example in the form of free editions of journals, the Internet is the place to look. Open Access enjoys the full benefits of the web, and I can venture to say that without the Internet there would be no open access. The Internet however is full of junk, and it is hard to navigate through it if you do not have the know-how. Thankfully, there are numerous specialized tools and repositories that allow you to quickly and easily locate any content.


One of these tools is JURN – an Internet search engine, designed to identify scientific journals. JURN focuses on the arts and humanities, so if you are looking for materials in these fields of research, it can be very useful. (...) - by Kamil Mizera, on OpenScience, October 8, 2013

Tree of Science's insight:

JURN is a unique search-engine dedicated to indexing free ‘open access’ ejournals in the arts and humanities, along with other relevant arts and scholarly publications offering free content.

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Julien Hering, PhD's curator insight, October 20, 2013 1:57 PM

An interesting open access search-engine dedicated to humanities and arts

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New Mendeley Desktop 1.10 released

New Mendeley Desktop 1.10 released | Digital research tools | Scoop.it

Mendeley Desktop 1.10 has been released. Journal abbreviations, one of the most requested features has been implemented. Mendeley will now automatically abbreviate publication titles according to the rules of the style. Other great improvement is related research, it gives you instant recommendations based on specific articles and drill-down into recommendations.


The next release of Mendeley Desktop is here. You can update from within the app via Help → Check for Updates or download it here. (...) - Mendeley Blog, 1 October, 2013

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Projects integrates with figshare to bring cloud storage and public sharing

Projects integrates with figshare to bring cloud storage and public sharing | Digital research tools | Scoop.it

The latest version of Digital Science’s research data management tool, Projects, offers integration with figshare to simplify the workflow from data collection and management to publication. (...) - Digital Science, bu Nathan Westgarth, August 7, 2013

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Feature Release: New image marker tool for labfolder users

Feature Release: New image marker tool for labfolder users | Digital research tools | Scoop.it

In order to use images in a scientific context, you need to make a few annotations very often: Marks and labels help to understand what´s important, be it in your notes or in your publications. In your good old paper notebook, you would just simply scribble by hand to get the message across and to highlight your findings on agarose gels, graphs, or any other data output. [...] 

We have added the most frequently used editing tools to the image annotation section. (...) - labfolder blog, by Johanna Havemann, July 29th, 2013

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Instead of using Photoshop or Power Point to annotate your research images, Labfolder (a data manager) provides now some editing tools

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Digital Science invests in WriteLaTeX

Digital Science invests in WriteLaTeX | Digital research tools | Scoop.it

We're delighted to announce that WriteLaTeX has secured investment from Digital Science to support the continued development of our collaborative science platform, Overleaf.

If you've not yet tried it, Overleaf is our easy-to-use WYSIWYG manuscript editor with real-time collaboration that produces structured, fully typeset output automatically as you type. It’s a great way to start developing your scientific manuscript, especially one with multiple authors/contributors.  (...) - writeLaTeX Blog, July 23, 2014

Tree of Science's insight:

After buying Labguru (research management platform) and figshare, the british Digital Science company (a division of Macmillan Science & Education) is now continuing its growth by investing in WriteLaTeX. 

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PubMed Update: Social Media Icons Added

PubMed Update: Social Media Icons Added | Digital research tools | Scoop.it

The PubMed Abstracts now display social media icons for Facebook, Twitter, and Google+. - NLM Technical Bulletin. 2014 Jul–Aug

Tree of Science's insight:
PubMed is one of biggest citations databases for biomedical literature with more than 22 million citations from MEDLINE, life science journals, and online books. You have now the opportunity to directly share abstracts to social media (#facebook, #twitter, #google+) from PubMed.
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Zotero awarded to improve several new features

Zotero awarded to improve several new features | Digital research tools | Scoop.it

Zotero has been recently awarded by two foundations to develop and asses new functionality in collaboration with several universities.

 

The Andrew W. Mellon Foundation has funded a two-year collaboration between Penn State and George Mason University to develop and assess new Zotero functionality. At first, RSS and Atom feeds that enable users to follow scholarly journals and easily collect publications by simply dragging them to their Zotero libraries. Moreover Zotero will turn into a institutional repository (IR) for at the beginning Pen State university students and staff to deposit self-authored works directly into the IR from Zotero. A pluggable architecture will then be also developed to enable other IR to establish similar connections with Zotero. Like an iFTT for Zotero, a push-based API and a standalone service that connects Zotero to other third-party web applications.


The Alfred P. Sloan Foundation has funded Zotero and two other universities to develop a preliminary API that returns anonymous readership counts when fed universal identifiers (e.g. ISBN, DOI), enabling bibliometric research and integration into third-party apps. The research will help to improve our understanding of social media’s value in scholarly communication and the actual meaning of various altmetric scoring systems.

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How to get indexed by Google Scholar?

How to get indexed by Google Scholar? | Digital research tools | Scoop.it

Google Scholar is an 'invitation based search engine’, which means it index content cited by articles already indexed are included in the database. (...) - Blog Open Science, April 11, 2014

Tree of Science's insight:

Researchers are using different ways to find scientific articles for their work : free field-centered search engines (i.e. PubMed for life science) or services with subscriptions (like EBSCO, ProQuest, ...). Google Scholar is one of the most worlwide used. To be easily founded, researchers have to correctly indexed their articles. #research #science2dot0 #scientificpublications

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Altmetric begin tracking mentions of articles on Sina Weibo

Altmetric begin tracking mentions of articles on Sina Weibo | Digital research tools | Scoop.it

We would like to announce that Altmetric have begun tracking mentions of academic articles on Chinese microblogging site Sina Weibo, and the data will shortly be fully integrated into existing Altmetric tools.(...) - 

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Mobile Apps Conquering Research Labs

Mobile Apps Conquering Research Labs | Digital research tools | Scoop.it

Labfolder releases mobile apps which complement its digital laboratory notebook. Mobile apps have an increasing impact on research by substituting for the common paper laboratory notebooks. Digitization of scientific data opens up new horizons for data processing and have an immense effect on the efficiency of laboratory research. - Labfolder, February 2014

Tree of Science's insight:

The Berlin-based labfolder GmbH releases its free mobile app which allows scientists to use their iPhones, smartphones,  tablets and iPads as digital lab notebooks. The scientist­‐entrepreneurs from
Berlin complement their web application by native apps for mobile devices operating under Android and iOS. Notes, photos, annotations and sketches recorded with the labfolder mobile app are seamlessly transferred into the digital lab notebook. Likewise, notes, descriptions
of experiments and results can be retrieved at all places in the laboratory and outside. Unlike most generic apps, labfolder follows the
guidelines for good scientific practice: All entries are provided with a
timestamp and a full audit trail.

In spite of the growing impact of mobile apps on personal life, many industries still struggle to implement the benefits of mobile devices into their work environments. Research institutes, universities and research driven companies need to catch up ­‐ impressively shown by

the fact that in most laboratories, paper notebooks are still being used for documentation and archiving of scientific results.

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Link your figshare and ImpactStory accounts

Link your figshare and ImpactStory accounts | Digital research tools | Scoop.it

We’re big fans of figshare at ImpactStory: it’s one of a growing number of great ways to get research data into the open, where others can build on it.

So we’re excited today to announce figshare account integration in ImpactStory! All you have to do is paste in a figshare account URL; then, in the background, we gather your figshare datasets and report their views, downloads, tweets, and more.

Tree of Science's insight:

Digital research tools provides nice help in the workday of researchers. But a great improvement is obtained by linking tools  features  to optimize our time. figshare and ImpactStory are going in this way by linking your accounts. You have then an access to precise statistics on your figshare datasets! 

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A look at Pubmed's new commenting platform

A look at Pubmed's new commenting platform | Digital research tools | Scoop.it

Pubmed is implementing a new function that enables researchers to share their thoughts about scientific publications. By allowing readers to comment and debate about specific papers publicly,  PubMed Commons is trying to extend the peer-review of manuscripts after their publication. If successful, PubMed Commons will become a platform for scientific discussions that could foster constructive criticism and eventually improve published papers and science. (...) - Connected Researchers, November 4, 2013

Tree of Science's insight:

By implementing public comments as a post-publication peer-review, PubMed is providing to readers a way to share their comments about publications

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New features from figshare

New features from figshare | Digital research tools | Scoop.it

A lot of figshare users use the platform to manage their research outputs privately in the cloud. We appreciate that it is not just about simply open or closed, but about control. Thus we are extending the control researchers have over their files stored on figshare. This means that now using figshare, any academic, for free can:

Store their research outputs privately.

Share their research outputs privately, with a selected number of other researchers.

Make their outputs openly available under the most liberal CC licenses.

When you log in you will notice two new areas next to "My data": Projects and Activity. The Projects tab allows you to create collaborative spaces and control who else has access to these spaces. You can just type in their name and add them to the space if they already have an account, or put in their email address so that they get a notification alerting them that they have been invited to collaborate. The activity stream allows researchers to keep track of who has viewed, commented, added notes to, or uploaded files to a collaborative space - adding a layer of transparency to collaborations. Users can also receive email notifications when this happens, if they so choose.

Tree of Science's insight:

New interesting features that provide the ability to create real and secured collaborative spaces to work with collaborators and colleagues. 

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[New feature] Stay Alert with Scizzle

[New feature] Stay Alert with Scizzle | Digital research tools | Scoop.it

We know you are super busy and remembering to check your scizzling feeds is not always on your mind. As our goal in life is to make sure you stay on top you can now set up alerts for each of your feeds. The default is weekly alerts.

Now you can rest assured that if there's a new paper on CRTC1-SIK1 pathway you'll know it immediately; or just chill with a monthly alert on how to make a great ice age, or whatever it is that tickles your fancy. 

Tree of Science's insight:

Scizzle provides now the possibility to manage your e-mail alerts of your different feeds from daily to monthly (or "never" if you'd like to make a break witth a feed). Great new feature to stay close to your needs.

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Data-sharing: Everything on display : Naturejobs

Data-sharing: Everything on display : Naturejobs | Digital research tools | Scoop.it

Researchers can get visibility and connections by putting their data online — if they go about it in the right way. (...) - by Richard Van Noorden, Nature 500, 243-245, 07 August 2013

 
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What is Scizzle all about?

Do you feel super-excited every time you get your weekly publications alert saying you have 304 new results? Well, we weren’t excited at all scanning endless list of links, which is why we ended up usually deleting these emails and missing out on important papers.

That’s why Scizzle was born! We want you to be able to easily and pleasently keep up with the literature and organize and collaborate on papers of interest, so you can always be on top of your game!

Scizzle is about putting everything that matters to you in science in one place. So instead of having numerous eTOC alerts, PubMed alerts and what not flooding your email inbox, you can just Scizzle. Just set up your feeds for the things you care about and find it all in one easy user-friendly and clean interface, that doesn’t look like the usual boring stuff.

Please note that Scizzle is still in beta, and we're not talking about beta-mercaptoethanol, we mean it's our pilot experiment. We are still in our infnacy and there's much more of Scizzle to come; so stay tuned and don't hesitate to let us know what you think!

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