14 papers · ranked by Valyu relevance
Authors not listed
The Protein Data Bank (PDB) is one of the richest open‑source repositories in biology, housing over 277,000 macromolecular structural models alongside much of the experimental data that underpins these models. By systematically collecting, validating, and indexing these models, the PDB has accelerated structural…
Abootaleb Sedighi, Tudor Radu, Qirat Ashraf, Balmiki Kumar + 3 more
We developed the Interdisciplinary Science Program in Research and Entrepreneurship (INSPIRE) to address the changing career landscape that students with an interest in Physical Chemistry, Biophysics and Biochemistry face. Third and fourth-year undergraduate Chemistry and Physics students participated in a 4-week…
Dionisio A. Olmedo, Armando A. Durant-Archibold, José Luis López-Pérez, Jose L. Medina-Franco
Chemical libraries and compound data sets are among the main inputs to start the drug discovery process at universities, research institutes, and the pharmaceutical industry. The approach used in the design of compound libraries, the chemical information they possess, and the representation of structures, play a…
Chonghuan Zhang, Qianyue Zhang, Alexei Lapkin
Biochemical transformations may allow significant improvements in synthetic efficiency of complex functional molecules through reduction in the number of synthetic steps or avoidance of harsh conditions and/or toxic solvents/reactants. Yet, there is a limited access to biochemical reaction data, which reduces the…
Authors not listed
One Health seeks to integrate and balance the health of humans, animals, and environmental systems. These three spheres are intricately interconnected through microbiomes, which are universally present and exchange microbes and genes, influencing not only human and animal health but also key environmental…
Authors not listed
Bacteria-mediated biotherapy, also known as bacterial therapy or bacteriotherapy, is a treatment that utilizes live bacteria or bacterial products to treat various medical conditions. Despite their extensive exploration for treating many cancer types, the limited therapeutic efficiency of bacterial-mediated…
Ulrich Pabst
The idea of peptide mass fingerprinting (PMF) was first introduced in 1989, when protein research was facing a serious issue with automated Edman-degradation taking nearly one hour per reaction cycle. There was a dire need for more streamlined and fast ways to analyse proteins and peptides. Since the first steps…
Rebecca Brunk, Kriti Shukla, Bryant Hutson, Yue Wang + 7 more
Genomic sequencing and other big biological data is unquestionably of paramount value, however the success in recruiting highly skilled individuals with diverse backgrounds has been limited. A main reason for this deficiency could be due to the lack of educational resources and early exposure to the field. With the…
Authors not listed
Mass spectrometry (MS) is a cornerstone technology in modern molecular biology, powering diverse applications across proteomics, metabolomics, lipidomics, glycomics, and beyond. As the field continues to evolve, rapid advancements in instrumentation, acquisition strategies, machine learning, and scalable computing have…
Denise Slenter, M. Kutmon, Chris T. Evelo, Egon L. Willighagen
Metabolomics data analysis for phenotype identification commonly reveals only a small set of biochemical markers, often containing overlapping metabolites for individual phenotypes. Differentiation between distinctive sample groups requires understanding the underlying causes of metabolic changes. However, combining…
Authors not listed
Untargeted metabolomics is a powerful approach for exploring the chemical diversity and dynamics of biological systems. However, the types of questions that can be addressed depend not only on experimental design but also on the data processing and analysis workflows employed, many of which require advanced…
Eric W Deutsch, Juan Antonio Vizcaíno, Andrew R Jones, Pierre-Alain Binz + 25 more
The Human Proteome Organization (HUPO) Proteomics Standards Initiative (PSI) has been successfully developing guidelines, data formats, and controlled vocabularies (CVs) for the proteomics community and other fields supported by mass spectrometry since its inception twenty years ago. Here we describe the general…
David Degnan, Kevin Zemaitis, Logan Lewis, Lee Ann McCue + 5 more
Due to its speed, accuracy, and adaptability to various sample types, matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) has become a popular method to identify molecular isotope profiles from biological samples. Often MALDI-MS data does not include tandem MS fragmentation data, and thus the…
Maia I Kelly, Christopher Ashwood
Glycans are sugar-based polymers found to modify biomolecules including lipids and proteins, as well as occur unconjugated as free polysaccharides. Due to their ubiquitous cellular presentation, glycans mediate crucial biological processes and are frequently sought after as biomarkers for a wide range of diseases.…