16 June 2009 by Jason Hoyt

Ever hear of Douglas Prasher? Probably not. He just missed out on this past year’s Nobel in chemistry. That’s not unusual, as many scientists never even come close to a Nobel. What is unusual, is that Dr. Prasher works at a car dealership, not in a lab. Despite doing the critical research on discovering GFP that became the work for last year’s Nobel Prize, he was unable to find grant money and a job to continue his work.

Prasher’s story is what concerns me with science, engineering, math, and technology. In the U.S., we are constantly hearing about how the country is falling behind in science. We need more scientists to fill all of those jobs we want to create. And the cure to that is to fund more PhD programs! Yet, when you ask graduate students and postdoctoral scholars what their individual experiences are, a science career is a very tough road with low pay and few career prospects. It’s such a tough path that an entire PhD comic strip was born to alleviate the situation with laughter. Why then, is there such a disconnect?

As a friend of mine, who has worked for two decades in both academia and industry, recently put it, “it’s a Ponzi scheme” (name withheld to protect his job). Large corporations and universities need a lot of workers to meet their objectives. While conspiracy theories abound over biopharma lobbying the government for more PhDs with the secret ambition to lower wages, it doesn’t seem too far-fetched. Universities need grad students and postdocs to churn out the papers that bring in grant money for the professors. While that is a well-established tradition going on for more than a century, what is different now is how we are attracting students into science careers. With tuition paid-in-full PhD programs and benefits as a graduate student, many who would normally not enter science are lured in. Reality usually hits after the second year, in which qualification exams to continue in the programs are taken. Only then, do students realize the road that lies ahead is dotted with pit stops leading, not to Nobel glory, but a journeyman career with salaries well below that of their friends who went into business, law, or medicine. With a PhD, a postdoc can expect to start, at most, US $42K a year in academia and $52K in industry.

More over, 45% of all recent doctorates are now taking postdoc positions prior to a faculty appointment. This contrasts with only 31% following the same path 25 years ago (see NSF). And postdoc positions are increasing in length of time as well, and are often followed by a second or even third “tour of duty.” While the National Science Foundation’s (NSF) most recent data shows an average of two years per postdoc across all disciplines, my own anecdotal experience in the life sciences shows that number is closer to four years.

In reality, more PhDs are a good thing, but should something be done to help out recent graduates and what could be done? President Obama has included just a 1.5% increase in the National Institutes of Health (NIH) budget for 2010, which doesn’t even make up for the lost years of keeping up with inflation under the Bush era. Obama has promised to double NIH’s budget within 10 years. Great, but how will that money be spent? The NIH budget doubled from $7.5 billion in 1990 to $15.5 billion in 1999 and has doubled again to $30 billion in 2009, yet the career path to a tenured faculty position has become a tougher pill to swallow. While more money in science is a great thing and should be increased, the data suggests that money alone is not the answer to improving the engineer/scientist quality of life. Specific policy to increase salaries would do this, but the reality of that occurring is thin at best. And as data from the NIH shows in the figure below, despite an ever growing number of PhDs and increased national budgets, there are disproportionally fewer young faculty receiving NIH grants.

NIH Grants by Age

This is a fairly dark picture that has just been described. Being somewhat of an optimist, there are some changes beginning to occur that give me hope. As usual, it is a grassroots movement that is taking the lead. In the United States, The National Postdoctoral Association was established in 2003. It has made some major accomplishments in getting the NIH, NSF, and more than 160 universities to adopt new policies. The biotech industry was born in the late 1970s, and despite visions of grand careers in science, it has largely failed to deliver. One could argue that this failure is more related to the biotech industry being a failure itself, since it was billed as the “next computer industry.” Ironically though, biotech is slowly morphing with the computer industry in the form of genomics and computational biology. And the computer industry is starting to meet science in the middle with specific programs from Google, Microsoft, IBM, and others. And of course, Mendeley is a melding of academia with computers and online tools.

Despite calls for promoting alternative careers in graduate school, in the end it is going to be a slow organic movement toward cross-disciplinary careers, perhaps with in silico technology, that improves the life of a PhD. An actionable example of this would be the Singularity University hosted at NASA Ames, which is having its inaugural class this year. The “University” part is a bit of a misnomer, as it is really just a nine-week networking event with an intense lecture schedule. And it is far too early to measure its beneficial impact. However, this may serve as inspiration for real universities to establish more practical PhD programs alongside the critical basic research type of degrees.

Curiously, science has always been more of an art than a science, and artists are often exploited. With computers, one can remove artistry, at least somewhat. If there’s one piece of advice for graduate students and postdocs, it would be to inject a bit of computational work into your career. Don’t wait for policy changes to create greater salaries, benefits and more tenured positions. While treading the same arduous path that our predoctoral or postdoctoral advisors tread has become regarded as a rite of passage, it doesn’t need to remain such. The story of one Douglas Prasher losing a Nobel is one too many.

Update – A few others have also started a discussion over on Friendfeed

Find me onTwitter and Mendeley

8 June 2009 by Victor

Here’s my recent talk at the Next ‘09, where we were part of the start-up session (the Mendeley presentation starts at the 10:40 mark). Watching myself on video makes me cringe, so I can’t tell you whether it’s any good. At least one guy thought it was, fortunately. Enjoy!

2 June 2009 by Jan

Roughly three and a half months after our announcement that we would plan to collaborate with CiteULike it’s even better news to announce that the first step is live – Mendeley users can now access their CiteULike data from within Mendeley. As we said in our previous blog post,

Your CiteULike account will show up as a “Document Group” in our Mendeley Desktop software, thus making your CiteULike metadata available to you in a desktop interface – from where you can manage them offline or insert citations and bibliographies into Microsoft Word, for example.

Follow these steps to activate the integration of CiteULike with Mendeley:

  • On your settings page, scroll to the bottom and enter your CiteULike username. Then click OK, and allow any pop-up blocking messages displayed by your browser — if any.
  • You will be taken to an activation message on CiteULike’s site — confirm this action.
  • This will take you to your Edit Profile page with a check-box displayed next to Enable Mendeley. You will find this at the bottom of the form, highlighted. Click Update Profile to save this.
  • You will now see your CiteULike profile page. Don’t worry if you don’t see any confirmation — this is normal. The synchronization is now set up successfully.

You can enable, or disable, Mendeley synchronization by going to your Edit Profile page on CiteULike, and checking, or unchecking, the check-box labelled Enable Mendeley. If you don’t login to Mendeley once every 30 days, this sync will be disabled. You can re-enable it by re-checking this box.

This is obviously just a first step – together with the guys at CiteULike we are now working on a two-way synchronization. Our reference manager Mendeley Desktop now already offers a wide selection of import/export options (plus a Web Importer to grab citations off the web), and if you have any additional suggestions or comments, have your say on our feedback page.

27 May 2009 by Jan

academic life Announcing Science Online London 2009 at the Royal InstitutionFollowing last year’s successful “Science Blogging 2008” conference in London (see Victor’s blog post), we are happy to announce a slightly rebranded “Science Online London” as this year’s follow-up conference. The event will take place 22 August 2009 at the Royal Institution, London, and is co-hosted by Nature Network, the Royal Institution of Great Britain, and Mendeley. To accomodate for a wider range of topics (i.e. not only science blogging), we changed the name to “Science Online London”, and we encourage you to suggest topics for the programme.

The Web is rapidly changing the communication, practice and culture of science. Science online London 2009 will explore the latest trends in science online. How is the Web affecting the work of researchers, science communicators, journalists, librarians, educators, students? What can you do to make the best use of the growing number of online tools?

As stated on the Science Online London webpage, “Topics include blogging and microblogging, online communities, open access and open data, new teaching and research tools, author identifies and measuring the impact of research.” Subscribe to the newsletter, send us your ideas – and let us know if you want to sponsor the conference. We’re all very much looking forward to meeting you at the Royal Institution on 22 August!

21 May 2009 by Victor

If you knew the old site, you’ll certainly have noticed already! The main color used to be dark blue with some red-brownish hues. Our goal with the redesign was to make it brighter, airier and less cramped, with the main colors being silver-grey and deep red. We also added better explanations and illustrations of what Mendeley actually is and does!

Here’s the new homepage (the screenshot is actually matched to each visitor’s OS – e.g. if you’re using Linux, the screenshot will show Mendeley Desktop on Ubuntu):

New Mendeley homepage

And here’s the new “How it works” page, which replaces our old “Tour” page.

design research tools Mendeley Web redesign goes live

The redesign isn’t completely finished yet – we’ll be updating many more parts of the site soon, while also adding new features. Please let us know if you catch bugs or design niggles we’ve missed!

What do you think of the new look? Is it pretty enough to want to make you kiss your screen?

12 May 2009 by Victor

Exciting news: Jason Hoyt, the founder of Ologeez (a semantic frontend for PubMed), is joining Mendeley! Jason holds a Ph.D. in Genetics from Stanford University. At the moment, he is still based in Palo Alto, but once the visa issues are sorted out, Jason will be joining us here in London as our new Research Director. TechCrunch broke the story today with a headline that made our geek hearts beat faster, comparing us to a Klingon battle cruiser de-cloaking in London.

To get started, Jason wrote up his reasons for joining us, and how Mendeley can help change the Impact Factor. Over to him:

———————————

Changing the Journal Impact Factor

Right, so the first thing I had to ask myself was “Why on earth would I move from San Francisco, leaJason Hoytving behind a cushy life for London, and work for a reference management start-up?” Surely any rational person would find this a bit odd.

Well, I’m not going to answer by talking about how great the team is or how enthusiastic the founders are about improving research, which is certainly all true. Rather, let’s take a real-world example of how the “tech” behind Mendeley is already making a difference with how we view the impact factors of research.

Read more »

11 May 2009 by Paul

After putting the installers on our website last week we now set the auto-update for Windows, Mac and Linux as well. This update adds integration with OpenOffice.org on Windows, fixes several file organiser problems as well as various bugs reported by users. Work is under way on the next update which will include an integrated PDF viewer and many usability improvements to the user interface.

New Features:

  • OpenOffice.org integration on Windows. To setup the OpenOffice.org plugin, restart Mendeley after installing the update and select Tools -> Install OpenOffice Plugin
    OpenOffice.org integration for Linux will be coming soon.

Improvements to Existing Features:

  • Conversion between LaTeX commands for accents and equivalent unicode characters when importing from or exporting to Bibtex
  • Add clickable link under URLs field to open current URL in a browser
  • Add link in Tools menu to install the website importer in your browser which lets you easily import citations from popular websites such as Amazon, Google Scholar and PLoS

Bug Fixes

  • Fixes for various problems when installing the Word plugin
  • Abstract field was not filled in when clicking PubMed lookup button in metadata tab
  • Fixed problem where file organiser did not always respect ’sort into subfolders’ setting correctly
    on Windows
  • Fixed problem where file organiser could get stuck in an infinite loop, repeatedly copying the same files
  • Show more accurate progress information when organising files
  • Fix author extraction sometimes stripping out lower-case name parts such as ‘van’, ‘der’ etc.
  • Fixed problem on Windows where folder monitoring tried to re-import documents which had been explicitly removed from within Mendeley
  • After sorting the library view, the wrong metadata was shown in the right-hand pane
  • Improved RIS importer’s support for several non-standard fields
  • Fixed crash if a problem occurred loading the data files which support the metadata extraction algorithms
  • Export user’s notes to ‘annote’ rather than ‘note’ field in Bibtex to prevent the problem where the user’s reading notes could appear as part of the formatted citation in the rendered Latex document. Also import ‘comments’ field into the notes field in Mendeley.

If you have suggestions for improvements please let us know by visiting the feedback forum. If you encounter any problems using Mendeley or have questions to ask please email support@mendeley.com.

1 May 2009 by Paul

academic features Importers for Ebsco and ISI Web of KnowledgeAfter releasing support for PLoS – Public Library of Science last week we now updated our web importer again to support single article and search result pages for EBSCO Host and ISI Web of Knowledge. Just visit our importer page to add the bookmarklet to your browser.

24 April 2009 by Victor

progress update One million articles uploaded to Mendeley!We passed a landmark today: As of 16.50h GMT, our users have uploaded one million articles to their Mendeley accounts! Including the cited references which Mendeley also extracts from research papers, we now have over 14 million metadata sets in our database. Even we were surprised by the speed in which this has happened!

For the record, the millionth article added to our database was “The somatic marker hypothesis: A critical evaluation by Dunn et al. (2006) in Neuroscience and Biobehavioral Reviews – as luck would have it, that’s a topic related to my personal research on the role of emotions in decision making! The closest publication by one of our users, Joaquin Rivera, was added at 17.01h – a maths paper titled “On the exact multiplicity of solutions for boundary-value problems via computing the direction of bifurcations”, available for download on Joaquin’s Mendeley profile.

90% of these one million articles have been uploaded since January 2009, and our database is currently doubling in size every 6 weeks. For comparison, venerable PubMed – the largest database of biomedical literature – contains 18,813,527 records as of today. Assuming we managed to keep up our growth, we could surpass the size of the PubMed database within the next 6 months!

Roughly 43% of the papers in our database are in the biological and medical sciences (even though only about 27% of users are working in these academic disciplines). Computer and information science comes in second with roughly 11% of all papers, followed by engineering with 7%, and chemistry, physics, psychology and other social sciences with 4-5% each.

As we’ve said before on this blog and elsewhere (e.g. see my talk at the Plugg Conference), we’re not hoarding all that data just because we can, no Sir! Our vision is to create the largest open, interdisciplinary and ontological database of research – as crazy as that sounds, remember that Last.fm (whose former chairman and COO are our co-founders and investors) pulled it off in the space of music within just three years, using the same user data-aggregation model that Mendeley is built on.

We’ve already begun to report real-time “usage-based” research trends – a nice discussion of Mendeley statistics showing the most-read journal in the biological sciences can be found here (we’ll be writing more about this soon!). Analogous to Last.fm, we will provide APIs to let others mash up the research statistics we’re generating. Moreover, our database will be the basis for our upcoming collaborative filtering recommendation engine: Based on the articles in your Mendeley library, we will be able to tell you about articles you don’t know yet, but which have been read and recommended by researchers with similar interests. You can read more about these plans in our recent IEEE e-Science paper.

A big thank you to our wonderful users who have been helping us improve Mendeley with their constant feedback. After celebrating the millionth article upload tonight, we’ll get back to work on our next two releases, packed full with exciting new features!

10 April 2009 by Paul

A couple of days ago we released our latest update of Mendeley. Details about feature improvements and bug fixes of Mendeley Desktop v0.6.4 can be found in my last blog entry, but I thought I just mention some of the improvements in Mendeley Web:

academic features Release update

  • Improved grouping in online library
  • Introducing a simple document search
  • Support of two new sites for easy import (SpringerLink and WorldCat)
  • Duplicate detection for bookmarklet import

Next on the list for Mendeley Web is introducing group and network pages which are overdue for a long time. We are also working on a new site design which we’ll announce in a separate post soon.

Happy Easter! :)