Quantitative proteomics by mass spectrometry is widely used in biomarker research and basic biology research for investigation of phenotype level cellular events. Despite the wide application, the methodology for statistical analysis of differentially expressed proteins has not been unified. Various methods such as t-test, linear model and mixed effect models are used to define changes in proteomics experiments. However, none of these methods consider the specific structure of MS-data. Choices between methods, often originally developed for other types of data, are based on compromises between features such as statistical power, general applicability and user friendliness. Furthermore, whether to include proteins identified with one peptide in statistical analysis of differential protein expression varies between studies. Here we present DEqMS, a robust statistical method developed specifically for differential protein expression analysis in mass spectrometry data. In all datasets investigated there is a clear dependence of variance on the number of PSMs or peptides used for protein quantification. DEqMS takes this feature into account when assessing differential protein expression. This allows for a more accurate data-dependent estimation of protein variance and inclusion of single peptide identifications without increasing false discoveries. The method was tested in several datasets including E.coli proteome spike-in data, using both label-free and TMT-labelled quantification. In comparison to previous statistical methods used in quantitative proteomics, DEqMS showed consistently better accuracy in detecting altered protein levels compared to other statistical methods in both label-free and labelled quantitative proteomics data. DEqMS is available as an R package in Bioconductor.

The presentation of post-translationally modified (PTM) peptides by cell surface HLA molecules has the potential to increase the diversity of targets for surveilling T cells. Whilst immunopeptidomics studies routinely identify thousands of HLA-bound peptides from cell lines and tissue samples, in-depth analyses of the proportion and nature of peptides bearing one or more PTMs remains challenging. Here we have analyzed HLA-bound peptides from a variety of allotypes and assessed the distribution of mass spectrometry-detected PTMs, finding deamidation of asparagine or glutamine to be highly prevalent. Given that asparagine deamidation may arise either spontaneously or through enzymatic reaction, we assessed allele-specific and global motifs flanking the modified residues. Notably, we found that the N-linked glycosylation motif NX(S/T) was highly abundant across asparagine-deamidated HLA-bound peptides. This finding, demonstrated previously for a handful of deamidated T cell epitopes, implicates a more global role for the retrograde transport of nascently N-glycosylated polypeptides from the ER and their subsequent degradation within the cytosol to form HLA-ligand precursors. Chemical inhibition of Peptide:N-Glycanase (PNGase), the endoglycosidase responsible for the removal of glycans from misfolded and retrotranslocated glycoproteins, greatly reduced presentation of this subset of deamidated HLA-bound peptides. Importantly, there was no impact of PNGase inhibition on peptides not containing a consensus NX(S/T) motif. This indicates that a large proportion of HLA-I bound asparagine deamidated peptides are generated from formerly glycosylated proteins that have undergone deglycosylation via the ER-associated protein degradation (ERAD) pathway. The information herein will help train deamidation prediction models for HLA-peptide repertoires and aid in the design of novel T cell therapeutic targets derived from glycoprotein antigens.

Invitation Only Research Event

Reverse innovation may sound like some attempt to return to the dark ages - but it has a specific meaning, especially when it comes to med-tech. It’s about where we look for innovation - and overturning our preconceived ideas of where new ideas come from. Mark Skopec, and Matthew Harris - both from Imperial College London are two of the authors...

This MPI Europe webinar examines innovative ways to better design and implement predeparture orientation programs for resetttling refugees. The discussion features observations from a refugee who went through an orientation program before being resettled in the Netherlands, and a resettlement agency official in Norway.

The third Social Innovation for Refugee Inclusion conference in Brussels, co-organized by MPI Europe with the U.S. and Canadian Missions to the European Union and the European Economic and Social Committee, explored how innovations in living situations for refugees can promote community-driven inclusion, overcome divisions, facilitate economic opportunities, and foster a sense of "home."

The Center for Research & Education in Technology is encouraging dental schools to find out how to participate in its program and learn about the benefits to the school and its students.

In the three years since the European migration and refugee crisis vividly captured public attention, a wave of innovative initiatives has emerged to help newcomers settle into receiving societies. Now, as the sense of crisis abates, this report explores what these initiatives will need to do to outlast the hype and produce lasting change on key integration issues such as housing, economic inclusion, and community building.

Fostering the social and economic inclusion of refugees has long been the domain of governments and NGOs. In the wake of the 2015–16 European migration and refugee crisis, however, new actors have emerged and taken on important roles in integrating newcomers. This report describes key discussions and takeaways from an MPI Europe conference on these developments.

Over the last decade, a number of governments have launched start-up visa programs in the hopes of attracting talented immigrant entrepreneurs with innovative business ideas. With the track record for these programs a mixed one, this report explains how embedding start-up visas within a broader innovation strategy could lead to greater success.

"The objective of the audit was to assess whether the award of funding under the RJIP program was informed by appropriate departmental advice and that processes complied with the grants administration framework."--Page 8.

People have been giving presentations for thousands of years, from Moses with his stone tablets to Elon Musk revealing his grand plans to colonize Mars. While the elements of a great pitchman generally have remained the same over the past 5,000 years -- conviction, charisma, credibility -- today's successful presenters do more than just get in front of an audience and talk.

Speech by Mr Agustín Carstens, General Manager of the BIS, at the Founding Ceremony, Swiss Centre BIS Innovation Hub, Zurich, 8 October 2019.

Based on remarks by Mr Luiz Awazu Pereira da Silva, Deputy General Manager of the BIS, with Jon Frost and Leonardo Gambacorta at the Santander International Banking Conference on "Banking on trust: Building confidence in the future", Madrid, 5 November 2019.

Youth around the world are increasingly turning away from agriculture. Traditionally requiring tough manual labour and offering low wages, agriculture does not often appeal to new generations who generally prefer to try their luck finding jobs in cities.  

The Bank for International Settlements (BIS) today announced two key appointments to the BIS Innovation Hub, a new initiative designed to support central bank collaboration on new financial technology. (Press release, 19 February 2020)

Press release "Saudi G20 Presidency and the Bank for International Settlements (BIS) Innovation Hub invite global innovators to solve RegTech and SupTech challenges", 27 April 2020

The National Museum of American History will undergo a dramatic makeover

The post Collaborative Business Innovation Role for Education appeared first on SOLIDWORKS Education Blog.

Fewer than one-third of America's teachers say ed-tech innovations have changed their beliefs about what school should look like, according to a new Education Week survey.

A new nonprofit that will convene technology experts from across business, nonprofit, government, and education sectors will begin its big-picture problem solving in the educational arena.

An innovative rural school district is creating a community-based, authentic work experience in which students prepare for the future while honoring their community's past.

Boston Public Schools is turning innovative ideas into action through a new professional development network.

Technology can fuel innovation, foster creativity, and create engaging learning environments. Ineffective edtech and instruction, however, can punish our poorest and most vulnerable students--especially students of color and those living in rural areas. This post explores strategies for avoiding thi

Improvement and innovation have different rules, expectations, and risks. The key is knowing which game you're playing, but getting the balance right between fostering innovation and fighting for equity may be the challenge of our time.

Every time an education institution loses a funding source, rethinks program delivery, revises positions, incorporates technology, or changes curriculum, it is making an investment in change. These are sizable, important investments, so why not protect them?

I regularly receive invitations to participate in essay contests devoted to rethinking American education. These competitions, I fear, are the worst way to spur real change.

The planning team of the district's Innovation Incubator applied the same hacking mindset taught in the professional-development program to improve the program itself.

As a profession, we need to work to innovate, see education as it needs to be now, and stop comparing it to what it was when we were doing it. The stakes are too high.

After more than six years and 800 blog posts, I am wrapping up my contributions to Education Week. Before I go, a look at innovation vs. improvement and how we can all support creating a future that works for everyone.

Are education leaders spending too much time chasing the latest tech trends rather than trying to maintain what they have? Benjamin Herold explores the innovation trap.

Even the most promising education innovations often struggle to gain traction. In a new paper, New Classrooms CEO Joel Rose identifies three barriers to innovation and what to do about them.

Rick talks with Larry Rosenstock, education icon, the founder and CEO of High Tech High, and recent recipient of the WISE Prize for Education, about what he's learned after a half century in education.

Three national educational funders explain a new program that is highlighting innovative practices in schools around the country.

If I've learned anything after hanging out at a think tank for close to two decades, it's that dreaming up education innovations is easy. Number 12 in our countdown is my take on the goofy contests that talkers seem to be so fond of.

In rural Kentucky, teachers and students are awarded innovation grants to solve a challenge facing their community or classroom.

Two Penn State University Libraries employees at Berks Thun Library, Penn State Berks, have been awarded the American Library Association’s 2020 Emerging Technologies Section 2020 Best Emerging Technology Application (BETA) Award, which recognizes a technology application that directly benefits library users.

Across Pennsylvania, the Invent Penn State innovation hub network has pivoted to deliver needed programming and services online, by providing online mentoring, webinars, virtual speaker series, and a Virtual Idea TestLab.

The intercollege minor in entrepreneurship and innovation (ENTI) continues to spread its influence as it graduates its largest number of students this spring with 153 across eight clusters.

In 2019 alone, Corner LaunchBox had 10 accelerator program graduates, supported five new startups anchored in Pennsylvania, and helped create 20 new jobs. More than 900 individuals utilized the facility for a variety of free and low-cost activities, including the 10-week Corner Opportunity accelerator program, an Idea TestLab, small business and entrepreneurship workshops, free legal clinics, weekly information sessions, and networking events.

DOVER – Delaware State Housing Authority (DSHA) held an event today marking the completion of renovations at Liberty Court, a public housing site in Dover, and recognizing the authority’s 20th year participating in Moving to Work (MTW), a U.S. Department of Housing and Urban Development (HUD) program. Many of the residents at Liberty Court participate […]

New law establishes a refundable tax credit for qualified investors in Delaware small businesses NEWARK, Del. – Governor John Carney on Thursday signed into law House Bill 170, the Angel Investor Job Creation and Innovation Act, at the Delaware Technology Park at the University of Delaware’s STAR Campus. The Angel Investor Job Creation and Innovation […]

We will look at geographical expansion for our salons; but for products, we aim to expand within India at the moment.