How a PhD prize is supporting chemistry’s bright young stars

By David Evans, Scientific Affairs Director at Reed Elsevier Properties SA

The fuel efficiency of our cars depends on the relative reactivity of the hydrocarbons in the fuel; in 2013 a PhD student published a paper describing a new material that can filter out the molecules that make our cars less efficient. A year later, a different PhD student published work that makes it possible to watch the tiny structures inside cells moving around in real-time, using a microscope.

Rising chemistry stars like these will be tomorrow’s leading scientists, developing solutions to many of the problems we face today. Recognizing their work and supporting their careers is vital, and that’s exactly what the Reaxys PhD Prize is for. The best known and respected of its kind, the Prize has attracted almost 2500 submissions from more than 400 universities in its six-year history.

Every year, 45 finalists are selected out of hundreds of submissions from chemistry PhD candidates and researchers who have recently been awarded their PhD, in a process managed by a review committee of renowned chemists. The finalists represent the world’s best young chemists, and their work is showcased at an annual Symposium.

Submissions are now open for the 2016 PhD Prize, and we’re preparing to see even more outstanding and impactful research this year.

Celebrating success
Imagine you’re just finishing your chemistry PhD and you’re standing at the foot of your career, wondering how you’ll be able to scale the mountain. You’ve done some really cutting-edge work already, but you have even bigger ideas. Now you need people to bounce them around with and a mentor to guide you.

The Reaxys PhD Prize gives exceptional young researchers a leg-up, helping them scale the difficult first part of their career and supporting them with lifetime benefits.

The two PhD students mentioned at the start of this article are previous PhD Prize winners and are now two of almost 300 members of an elite group – the Reaxys Prize Club. Each year the 45 new finalists are welcomed into the Prize Club, giving them the chance to network with some of the world’s best chemists.

The PhD Prize has been running since 2010, hence, Club members now hold a variety of positions in academia and industry, giving incoming members a great opportunity to find mentors and collaborators. Over 50 members are now in their first independent academic positions.

How it works
The 2016 PhD Prize is open to those who are in a chemistry PhD program or have completed their PhD after 1 January 2015, and who have published a peer-reviewed paper during their PhD. They apply online with their peer-reviewed paper, along with a CV (resume) and a letter of recommendation from their PhD supervisor.

Submissions are open until 8 February 2016, after this the review process will start, and once completed the review committee will select the 45 finalists. All 45 finalists automatically become members of the Reaxys Prize Club and a host of other benefits, including unlimited personal access to Reaxys and Reaxys Medicinal Chemistry and discounts on Elsevier Chemistry books and scientific conferences.

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All the finalists are invited to attend the 2016 Reaxys PhD Prize Symposium. Before the symposium, the review committee will publish a shortlist of applicants. At the Symposium, all the finalists will present their research at a poster session, and the shortlisted candidates will give oral presentations. The three winners will be chosen after the oral presentations and will each be awarded a cheque for $2000.

Are you up for the challenge? We are looking forward to seeing the exciting new research being done by today’s rising stars and to welcoming a new wave of members to the Reaxys Prize Club.

To stay updated on the finalists, shortlisted candidates and the winners, visit the PhD Prize website.

Science Startups meet at Le Web 2014

Axon

Since becoming Elsevier’s VP of Strategy, Mendeley Co-founder and CEO Victor Henning has been up to a lot of exciting stuff. Here he tells us a bit about his latest project, Axon, which is stirring things up by bringing together the best and brightest new startups in the fields of Science and Research at Le Web 2014.

Over the last few years, I have watched something interesting happen in the world of science: Tech startups and VCs suddenly care about scientists. Strangely, this wasn’t always the case.

When the World Wide Web was invented at CERN, its original purpose was to help manage and share scientific information about particle accelerator experiments. Yet, with the exception of a few search engines, document repositories, and journal databases, the web remained barren of well-designed tools and applications engineered for scientists.

Instead, the last 15 years witnessed the explosion of the consumer web and mobile apps, fueled by advertising revenue. Jeff Hammersbacher, an early Facebook data science employee (and now founder of Cloudera), summed it up as:

“The best minds of my generation are thinking about how to make people click ads. That sucks. If instead of pointing their incredible infrastructure at making people click on ads, they pointed it at great unsolved problems in science, how would the world be different today?”

How indeed? We might be watching hilarious cat gifs on the screens of our flying cars.

Around 2008, things started to change: A small wave of bootstrapped startups began building document management tools, social networks, and recommendation engines for scientists. Among them was Mendeley, my own company. Grown out of our own frustrations as researchers, my co-founders and I built Mendeley to make science more open, more efficient, and more collaborative. Getting started wasn’t easy – many VCs turned us down because they saw research as a “niche”. We nonetheless managed to convince a couple of angel investors (among them the founders of Skype) to invest in us.

After launching in 2009, we came to LeWeb to participate in the startup competition. I have the fondest memories of the event – a freezing, pre-Christmas Paris in December, and Dave McClure, the famously foul-mouthed Silicon Valley angel investor, tweeting his sexual arousal at seeing our pitch:

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Events like LeWeb helped put us on the map with international investors, press, and potential users. From there, Mendeley grew to a research platform connecting more than 3.5 million researchers in 180 countries, with institutional customers like Stanford, Harvard, and MIT. In April 2013, we were acquired by Elsevier, the world’s largest publisher of science and health information.

Without wanting to claim undue credit, quite a few Ph.D. students and Postdocs who became entrepreneurs themselves have told me that Mendeley was an inspiration for them: It proved that tools for researchers could go from garage to global audience, and it proved to potential investors that the “niche” could also deliver sizeable exits.

We are now seeing the emergence of a second wave of venture-backed research startups, offering a much wider range of scientific workflow tools. They help scientists keep electronic versions of lab notebooks, organize and share experimental data, order lab materials, write papers collaboratively, outsource experiments to other labs and to the cloud, get credit for peer reviews, launch their own journals, and even raise crowdfunding for their research projects.

It’s time to give this movement more visibility. Elsevier and LeWeb 2014 are teaming up to run a half-day event called Axon@LeWeb (in case you’re wondering – in the brain, axons are the fibres that carry impulses from neurons to other nerve cells). We want to bring together the most exciting science and research startups – the ones that build tools for the best minds of our generation, to help them crack those great unsolved problems.

Startups can apply online here, and we already have applications from amazing companies in the US, Canada, Sweden, France, the UK, and Germany. The 15 best startups will receive a free ticket to LeWeb 2014, as well as the opportunity to present at Axon@LeWeb and network with the hottest companies in this space. Even if your startup is not among the 15 selected to present, Elsevier is sponsoring a €200 discount on the regular startup ticket for all science and research startups that want to join us at LeWeb.

Applications for Axon@LeWeb close on Sunday, 16th November, at midnight CET, and the winning startups will be announced by Tuesday, 18th November.

Hope to see you in Paris in December!

"You Need Perseverance to realise your dreams" Meet Adriana Ocampo, Lead Program Executive at NASA’s New Frontier’s Program

Adriana Ocampo

Interview by Claire van den Broek

“I used to go to the roof of my house in Buenos Aires and dream about the stars,” recalls Adriana Ocampo. And as Science Program Manager at NASA, it’s probably fair to say that she’s one of those people who tends to turn their dreams into reality.

I tell students that they must have the courage to move forward with their dreams and believe in themselves. I have a mnemonic that I use, with the word STARS:

Smile, life is a great adventure

Transcend to triumph over the negative

Aspire to be the best

Resolve to be true to your heart

Success comes to those that never give up on their dreams

Born in Colombia and raised in Argentina, as a young girl she would sit with her dog on the roof of her house and spend hours wondering what those points of light actually were, and knew that science was her calling.

“Our parents always encouraged our imagination and dreaming big. I remember the moon landing. I was still in Argentina, a very young kid, July 20th, 1969, and here were humans walking in another world. I was completely fascinated by that, and NASA was the agency that enabled that. I thought: That’s where I can make my dreams come true! I would steal pots and pans from my mother’s kitchen, and my father was an electronics technician. I would make my own space models and draw lunar colonies. I even wrote to NASA, in Spanish. And somehow that letter got to somebody’s desk and they responded. That meant so much to me, that somebody actually took the time.”

When she emigrated to the United States with her family, as soon as she got off the plane in Los Angeles her first question was “Donde esta NASA? (which translates to where is NASA?”, since she did not know any English yet). And at her high school she joined the Space Exploration Post #509 who were sponsored by the Jet Propulsion Laboratory, NASA’s centre of excellence for exploration of the Solar System.

“As soon as I learned they were looking for volunteers, I immediately stood up and in my broken English said I wanted to do this. To me this was like Disneyland. Here where these people, engineers and scientists, that donated their time to provide guidance and to educate us about space exploration. At the JPL auditorium we worked with mentors who gave lectures, and eventually started doing hands-on projects. We constructed a telecommunication station to communicate with weather satellites. For the first time I experienced what it’s like to work together, and to lead a team. We had to do all these reports, and present them to the Director of JPL ,who was Dr W. Pickering at that time. It was a big responsibility. None of us had even graduated from high school yet!”

She stresses the huge importance of having mentors, such as the very bright JPL engineer Michael Kaiserman, who was the Lead Advisor for the Space Explorer Post. He gave generously his time to provide kids those opportunities and inspire them. Adriana fondly remembers the volunteer engineer and scientists who opened the doors of NASA space exploration to her.

“Thanks to the JPL mentors the Space Exploration Post was able to go on space science trips. We went to see the last Apollo launch, Apollo 17, together. We collected money by washing cars, selling cookies, etc. Those are the memories that mark you for life and I’ve been extraordinarily fortunate to have being given the opportunity to grow up in such an environment. I started working at JPL from the lowest possible position, as a kid in a summer program, and someone took me on and paid me to be his assistant after I graduated from high school. And when I started going to college JPL provided me with the opportunity to continue working part-time, which facilitated for me to pay for my own education.” 

But was it difficult to make it through the ranks as a woman, and did she ever feel out of place?

“Obviously there were not many girls, and on top of being a girl I spoke English with a “funny” accent, so I was kind of a double minority. But they were really open and gave me a chance. Through my experience at NASA, I’ve seen how they truly look for talent. If you bring a good idea to the table, they listen to it, and if it’s a good idea it moves forward. One of the good things I learned here is that mistakes are part of the process to mission success. When we have problems with a mission, it’s part of learning how to do it better. Blame is not part of NASA vocabulary, nor is problem, we use instead the word “challenge”. It’s about: “How can we learn to do it better next time?” That’s something that really helps build confidence, trust, and a team spirit.”

These days she spends as much time as possible helping to create the next generation of scientists and explorers, trying give young girls some of that same inspiration and support.

“It is truly important, having somebody who is a mentor, developing that relationship and seeing that a young women could see herself working in this team, having someone who believes in her. Just responding to those dreams, sometimes a thing as simple as taking the time to respond to a message, as someone once did for me, can make a tremendous difference.”

For example, she participated in a Shadow Program organised by the Society of Women Engineers, where young girls come and spend a day with people such as Adriana, to get a flavour of what life at NASA is like, and develop a relationship and dialogue which helps to guide and support them in their STEM career path. It is a well-acknowledged problem that a high number of women are lost as they make their way up the career ladder in those fields, something that Professor Athene Donald from the University of Cambridge defined as the “leaky pipeline”

“Right now we’re facing a generation of people who are retiring. We need more talent in science and engineering, so that’s one of our challenges. But for every space mission that NASA launches, one percentile of their budget is allocated to education and public outreach. Those programs help kids get involved, but they also help teachers. We need to inspire not only the students, but the teachers and the parents. Less than 1% of science teachers actually have a science degree, even at Bachelor’s level. So you need to incentivize, and educate them, so they can build that sense of “wonder” in students.”

This is not easy though, specially with women, and those, like her, who come from minority backgrounds. “I remember a case where we had a very talented young woman who had a full scholarship to Stanford, to become an engineer. Her parents wouldn’t let her go, because San Francisco was too far away. Many parents of girls from minority families don’t see becoming an astronomer, mathematician, or physicist as a career path. They think they won’t be able to support themselves.

“We need to change that paradox in society, science can be fun and is necessary for the future of the species.I strongly believe that everyone is a scientist. Anybody who is a good observer and uses her or his imagination is a scientist. We need to develop that excitement about science and space exploration into the parents, the family and society. During the International Year of Astronomy  I organized an event for 24,000 students and the whole theme was ‘space adventures’ and making science hands on and fun. At the end, we gave each student an oath, the essence of which was that science is to be used for the good of humanity. We all share the responsibility for science and technology to be use to benefit society.”

At Mendeley we’re very keen to support female researchers (nothing against the male ones of course!) in their pursuit of STEM careers, and are proud to have a number of fantastic women in our team. In fact, you can hear a few of their stories about how they got into technology on our YouTube channel. If you’re interested in the subject, or are working to help young girls get inspired to follow those careers, you might like to check out the Every Girl Digital community on Facebook and join our dedicated Mendeley Women in STEM group!

 

JoVE Guest Blog Post – Visualising Scientific Experiments

JoVE October blog

This is the first in a series of guest posts from JoVE, the Journal of Visualized Experiments. Each month we’ll be featuring a different peer-reviewed video article with insights from their team. Like Mendeley, JoVE is using technology to make science more open, and we were really happy to have their Director of Marketing Rachel Greene join us at Social Media Week London for the Mendeley Masterclass on How Technology is Changing Research. You can watch the video of her presentation, talking about how visualising experiments enhance reproducibility on the Mendeley YouTube channel, and as usual let us know what you think in the comments below!

MALDI-TOF MS, an Adaptable Method for Protein Characterization, Visualized in a JoVE-Chemistry Video Article

(J. Vis. Exp. (79) e50635, doi:10.3791/50635 (2013))

By Val Buntrock, Ph.D.

Journal Development Editor, JoVE

A recent video-article published in JoVE, the Journal of Visualized Experiments, by a research group at the Centre National de la Racherche Scientifique (CNRS) captures the process of analyzing intact proteins using mass spectrometry (MS). In their video article, Signor et al. demonstrate how to accurately measure large proteins using matrix assisted laser-desorption ionization time-of-flight (MALDI-TOF) MS. Often, when describing MALDI-TOF MS procedures in text, essential information is omitted, leading to poor reproducibility. Part of a new trend in publishing, this video demonstration records the subtleties and nuances of this complex technique. Employing proper technique and variable consideration, this research group identifies an intact, large protein (> 100 kDa) with high sensitivity using a small amount (0.5 pmoles) of protein sample. Using these video instructions, research groups around the globe can modify this flexible technique to identify an infinite number of large proteins.

Phosphoregulation

Characterizing proteins is important for determining the current state of the protein, which has severe implications to several biological processes. The significance of proteins switching between active and inactive forms via protein kinase phosphorylation events has been recognized and applied to cellular and molecular research for several decades. Researchers have gone on to show that protein folding, as determined by phosphorylation, either exposes or protects structural motifs that serve as binding sites for effector molecules. Further, the binding between protein and effector molecule controls protein function. Therefore, the initial protein phosphorylation event regulates the activity level of the protein.

Protein activity or function plays a role in switching on or off a large number of cellular processes, such as cell communication and cell replication. As structural biologists identify a growing number of disease states related to malfunctioning protein modifications and subsequent de-regulation, understanding and identifying the differences between the two states of the protein (active or inactive) has become a priority.

Protein Characterization

A simple, fast, and common method of determining the presence or absence of phosphorylation in proteins is by determining their mass using mass spectrometry (MS). MS ionizes the molecule of interest, generating a charged species, and measures its mass-to-charge or m/z ratio.  The m/z ratio is determined by the isotopic distribution of each element present, meaning that each molecule or protein has its own unique isotopic pattern or fingerprint.

Two MS techniques are typically used to ionize heavy and labile biomolecules, such as proteins: electrospray ionization (ESI MS) and matrix assisted laser-desorption ionization time-of-flight (MALDI-TOF MS). ESI MS analysis requires dissolution of the sample in a pure solvent for direct ionization from the solution mixture. MALDI-TOF MS utilizes a co-crystallization method wherein the protein is crystallized with an ultraviolet (UV) absorbing organic species. This organic molecule is referred to as the matrix molecule or substance.

While ESI MS is more sensitive and accurate, the instrument compatible solvents or buffers typically contain significant amounts of substances, such detergents and salts, which interfere with the desired protein pattern. Additionally, ESI MS data is more difficult to interpret given that ESI MS spectra are riddled with multiple overlapping charge states from a single protein. A more gentle technique, MALDI-TOF MS produces fewer multiply-charged species, leading to a much cleaner spectra that is easier to analyze. This is especially true for larger biomolecules, such as proteins, which can fragment into numerous multiply charged species using ESI MS. For these reasons, MALDI-TOF MS is the preferred technique for protein analysis.

Optimizing MALDI-TOF MS Technique

Matrix

Purity at every stage of MALDI-TOF MS analysis is crucial to obtaining the highest quality MS spectra or protein fingerprint. For this reason, Signor et al. provide detailed instructions for how to effectively 1) clean the MALDI plate that holds the matrix and protein of interest and 2) purify the matrix substances using standard recrystallization techniques. Further, they employ two different matrix systems to compare which one yields the best results for the protein of interest. A single matrix and a mixed matrix system are used, demonstrating the influence of the matrix on the resulting spectra. In their work, Signor et al. found that the mixed matrix system yielded a higher signal to noise and a greater sensitivity than the single matrix system.

Deposition Method

The deposition method is another technique variable that impacts the quality of MALDI-TOF MS results. The two most commonly employed deposition methods are the droplet and thin layer method. Using a droplet technique, a mixture of the protein analyte and matrix solution is “dropped” onto the target substrate, and the solvent is evaporated, yielding a crystalline mixture of the matrix and protein. Slightly more controlled, the thin layer technique is composed of layers of matrix sandwiching the protein analyte layer. While the droplet method suffers from poor resolution and an inability to observe larger proteins (> 100 kDa), the thin layer deposition yields a protein fingerprint for large proteins, sharper peaks, and a higher signal to noise.

As protein analysis becomes a more vital component of studying protein modifications, mastering protein characterization techniques is increasingly important. In this video-article, Signor et al. provide a detailed overview of the steps involved in utilizing MALDI-TOF MS to analyze proteins. They also provide essential considerations and modifications to guide beginners and experts alike through tailoring this powerful technique to study different target proteins. Shown in video format, the necessary level of details, such as how to properly perform multiple deposition methods, is captured and relayed to the viewer for increased transparency.

 

 

 

 

Science Show-and-tell

source: jove.com

Back in 2006, Moshe Pritsker thought to use video technology to capture and transmit the intricacies of life science research, facilitating both the understanding and reproduction of experiments and techniques. This idea of “letting scientists look over each other’s shoulders” led to the launch of JoVE, the Journal of Visualized Experiments, which is peer reviewed and PubMed-indexed. As a scientific journal, it has an editorial board and hierarchical structure, and ensures consistent quality of its video content by maintaining a network of professional videographers spread across major science centres. Scientists from leading institutions participate by submitting video articles that visualize their experiments.

As science advances, processes and tools also become more complex. Procedures and techniques such as growing stem cells are tremendously complicated and difficult to accurately follow with just a set of written instructions, and visiting labs in person can be a very expensive alternative beyond the resources of many researchers. This challenge of poor experiment reproducibility is what JoVE tries to address, claiming that traditional written and static picture-based print journals are no longer sufficient to accurately convey the intricacies of modern research. Translating findings from the bench to clinical therapies rely on the rapid transfer of knowledge within the research community.

This month’s issue features an article by Connors et al of Massachusetts Eye & Ear and Harvard Medical School, who have developed an audio-based virtual environment simulator that uses audio cues and a video game context to build cognitive maps of three-dimensional spaces and help blind people improve their navigation skills. Other videos include a new non-invasive method being developed at the Massachusetts General Hospital and Harvard Medical School for measuring brain metabolism in new-born babies, and a demonstration of how a biopolymer gel derived from polysaccharides found in brown algae can help patients with heart failure.

There are also other companies operating in the scientific video space, but what they offer is a looser user-generated environment. One of the most successful of those is SciVee, which is backed by the Public Library of Science and features videos that sit alongside traditional journal papers.

So is this the new frontier? Are we actually looking at a situation where most researchers will feel comfortable communicating with their peers using video? Has the scientific community truly given its blessing to such new approaches to science communication? We’d love to hear your thoughts.

What the scientific community wants computers to do for them: The results of the PLoS and Mendeley Call for Apps

A little over a week ago, PLoS and Mendeley got together to issue a “Call for Apps” to the scientific community. We have now collected some really great ideas which we’d like to pass along to the developer community. Some of the ideas are Binary Battle-ready, while others are just kinda cool, so take a look at the list and see if anything inspires you.

Some interesting Binary Battle-ready ideas are:Read More »

Join us on June 21st @ 9 AM EDT / 1 PM GMT for "Building your Reference Library with Mendeley", a free online instructional session

Calling all researchers and information professionals! We have a great schedule of instructional sessions targeted to your specific needs. Next up is “Building your Reference Library with Mendeley” on June 21st at 09:00 AM EDT / 01:00 PM GMT. Join us to learn about the many different ways to get information and documents into Mendeley so you can stay on top of your research.

Ricardo Vidal, Community Liaison for Mendeley, will be conducting this session. There will be plenty of time for questions after and during the session.

Registration is open until June 21, 2011 09:00 AM EDT

Date: Tuesday, June 21th 2011
Time: 09:00 AM EDT
Presenter: Ricardo Vidal


UPCOMING:

Mendeley for Librarians 6/23/2011 08:00 PM EDT
Collaborative Research with Mendeley 6/30/2011 12:00 noon EDT
Mendeley for Life Scientists 7/07/2011 01:00 PM EDT
Introduction to Mendeley 7/13/2011 02:00 PM EDT
Mendeley for Educational Research 7/19/2011 02:00 PM EDT
Mendeley for Librarians 7/26/2011 01:00 PM EDT

NB: Unfortunately, GoToMeeting doesn’t work on Linux. We’re very sorry, but we haven’t found a better solution that allows us to accommodate a large number of attendees and supports all platforms. We’re currently looking at WebEx as a possible replacement.

Think beyond the consumer internet: Hack for Knowledge!

Knowledge keeper by RuiPereira, on Flickr

Photo by Rui Pereira

Do you dream of creating the Blippy for BriteKite, or the Gowalla for GetGlue? No? Well, maybe you’re thinking beyond better ways to sell stuff to people and wanting to try something a little bigger. You wouldn’t be alone. Universities, governmental bodies, and companies have increasingly begun to make their data available to the public and they want it to be used! All we need now is for smart developers to realize there’s as much money and considerably more fame to be had in helping people find the next cure for cancer or spotting public health issues than in spotting buy-one-get-one deals at the local store. Please join us on June 11th and 12th for Hack4Knowledge.Read More »

Science and Drinks at Mendeley was a success!

Last Friday, 30 folks came over to the Mendeley offices in New York for drinks and conversation. Attendees were from all over the city, including NYU, Columbia, City University of New York, Einstein College of Medicine, and Nature Publishing’s NY. James Hedges and Umesh Rajashekar, post-docs from The Laboratory for Computational Vision at New York University spoke briefly about how they use Mendeley and how they’re trying to spread the word about us. They initially picked Mendeley because it’s cross-platform and has great annotation features, but came to realize that the social networking component is really useful for finding related research. Their main challenge has been convincing their PI and the senior post-docs who are already set in their ways that it’s worth the time to switch to Mendeley. It’s worth mentioning that two of the top 10 papers in computer science on Mendeley are on the subject of computer vision, so perhaps they’re doing a really good job!

Here’s a few pictures from the night:Read More »