10 papers · ranked by Valyu relevance
David S Stolz, Laura Müller-Pinzler, Sören Krach, Frieder M Paulus
Experiencing events as controllable and attributing positive outcomes to own contributions is essential for human well-being. Based on classic psychological theory we test how internal control beliefs impact the affective valuation of task outcomes, neural dynamics and ensuing behavioral preferences. In three…
Tine Claeys, Maxime Menu, Robbin Bouwmeester, Kris Gevaert + 1 more
Using data from 183 public human data sets from PRIDE, a machine learning model was trained to identify tissue and cell-type specific protein patterns. PRIDE projects were searched with ionbot and tissue/cell type annotation was manually added. Data from physiological samples were used to train a Random Forest model on…
Mathias Walzer, David García-Seisdedos, Ananth Prakash, Paul Brack + 8 more
The number of mass spectrometry (MS)-based proteomics datasets in the public domain keeps increasing, particularly those generated by Data Independent Acquisition (DIA) approaches such as SWATH-MS. Unlike Data Dependent Acquisition datasets, the re-use of DIA datasets has been rather limited to date, despite its high…
William E Fondrie, Wout Bittremieux, William S Noble
The volume of proteomics and mass spectrometry data available in public repositories continues to grow at a rapid pace as more researchers embrace open science practices. Open access to the data behind scientific discoveries has become critical to validate published findings and develop new computational tools. Here…
Georg Auge, Matthis Clausen, Konstantin Ketterer, Jacob Schaefer + 6 more
An unprecedented amount of mass spectrometry-based proteomics data is publicly available through repositories such as the PRoteomics IDEntifications Database (PRIDE), and the field is increasingly leveraging machine learning approaches. However, the available data is not ready to be reused in a scalable way beyond the…
Qi-Xuan Yue, Chengxin Dai, Selvakumar Kamatchinathan, Chakradhar Bandla + 14 more
The increasing scale and complexity of proteomics data demand robust, scalable, and interpretable quality control (QC) frameworks to ensure data reliability and reproducibility. Here, we present pmultiqc, an open-source Python package that standardizes and generates web-based QC reports across multiple proteomics data…
Pathmanaban Ramasamy, Natalia Tichshenko, Adrián Díaz, Kevin Velghe + 3 more
Protein phosphorylation is a central regulatory mechanism controlling protein activity, interactions, and cellular signalling, and its dysregulation is implicated in numerous diseases. Advances in mass spectrometry–based phosphoproteomics have led to a rapid expansion in the number of reported phosphorylation sites…
Pathmanaban Ramasamy, Demet Turan, Natalia Tichshenko, Niels Hulstaert + 3 more
Protein phosphorylation is a key post-translational modification (PTM) in many biological processes, and is associated to human diseases such as cancer and metabolic disorders. The accurate identification, annotation and functional analysis of phosphosites is therefore crucial to understand their various roles.…
Taylor R. Jancetic, Micaela Lembo, Chloe L. Hampson, Donisha D. Smith + 6 more
Ethnic identity refers to how individuals perceive and experience themselves in the context of social groups, racial background, or culture (86). Ethnic identity is positively associated with psychological well-being (94) and negatively associated with depression and anxiety (40). Those with strong ethnic identity may…
Katelyn M. Cooper, Carly A. Busch, Alice Accorsi, Derek A. Applewhite + 16 more
While scientific environments have been described as unwelcoming to the LGBTQ+ community, and fields like physics have systematically documented these challenges, the climate in biology workplaces has not been assessed. We conducted the largest survey to date of LGBTQ+ experiences in biology, including 1419 biologists…