20 papers · ranked by Valyu relevance
Jirô Akahori, Joseph Najnudel, Hau‐Tieng Wu, Ju-Yi Yen
Phase-rectified signal averaging (PRSA) is a widely used algorithm to analyze nonstationary biomedical time series. The method operates by identifying hinge points in the time series according to prescribed rules, extracting segments centered at these points (with overlap permitted), and then averaging the segments.…
Yong Yang, Changjiang Li, Yi Jiang, Xi Chen + 4 more
'Xuhong Zhang' 'Zonghui Wang' 'Shouling Ji'] Prompt, recognized as crucial intellectual property, enables large language models (LLMs) to perform specific tasks without the need of fine-tuning, underscoring their escalating importance. With the rise of prompt-based services, such as prompt marketplaces and LLM…
Mei-Hui Lin, Chao-Chin Liu, Chiao-Wen Lu, Jwu-Ching Shu
Background Staphylococcus aureus secretes a variety of proteins including virulence factors that cause diseases. PrsA, encoded by many Gram-positive bacteria, is a membrane-anchored lipoprotein that functions as a foldase to assist in post-translocational folding and helps maintain the stability of secreted proteins.…
Julia L. E. Willett, Ethan B. Robertson, Gary M. Dunny
Enterococcus faecalis is a common commensal bacterium in the gastrointestinal tract as well as a frequent nosocomial pathogen. The secreted metalloprotease gelatinase (GelE) is an important E. faecalis virulence factor that contributes to numerous cellular activities such as autolysis, biofilm formation, and…
Zhao-Yi Wu, Anaamika Campeau, Chao-Hsien Liu, David J. Gonzalez + 6 more
'Masaya Yamaguchi' 'Shigetada Kawabata' 'Chieh-Hsien Lu' 'Chian-Yu Lai' 'Hao-Chieh Chiu' 'Yung-Chi Chang'] Title: ABSTRACT Streptococcus pyogenes (group A Streptococcus, GAS) is a strict human pathogen causing a broad spectrum of diseases and a variety of autoimmune sequelae. The pathogenesis of GAS infection mostly…
Mohammad M. Rahman, Svetlana Zamakhaeva, Jeffrey S. Rush, Catherine T. Chaton + 6 more
Proteins harboring intrinsically disordered regions (IDRs) that lack regular secondary or tertiary structure are abundant across three domains of life. Here, using a deep neural network (DNN)-based method we predict IDRs in the extracytoplasmic proteome of Streptococcus mutans, Streptococcus pyogenes and Streptococcus…
Chih-Chieh Hsu, Ron-Bin Hsu, Xoong-Harng Oon, Ya-Tang Chen + 6 more
'Jeng-Wei Chen' 'Che-Hao Hsu' 'Yu-Min Kuo' 'Yi-Hsien Shih' 'Jean-San Chia' 'Chiau-Jing Jung'] Title: ABSTRACT The role of secretion chaperone-regulated virulence proteins in the pathogenesis of infective endocarditis (IE) induced by viridans streptococci such as Streptococcus mutans is unclear. In this study, we…
Outi Heikkinen, Raili Seppala, Helena Tossavainen, Sami Heikkinen + 3 more
'Harri Koskela' 'Perttu Permi' 'Ilkka Kilpeläinen'] Background Staphylococcus aureus is a Gram-positive pathogenic bacterium causing many kinds of infections from mild respiratory tract infections to life-threatening states as sepsis. Recent emergence of S. aureus strains resistant to numerous antibiotics has created a…
Adrian S Geissler, Line D Poulsen, Nadezhda T Doncheva, Christian Anthon + 7 more
The production of the alpha-amylase (AMY) enzyme in Bacillus subtilis at a high rate leads to the accumulation of unfolded AMY, which causes secretion stress. The over-expression of the PrsA chaperone aids the enzyme folding and reduces stress. To identify affected pathways and potential mechanisms involved in the…
Charles Agbavor, Madeline Torres, Nicole L. Inniss, Sarah Latimer + 11 more
'George Minasov' 'Ludmilla Shuvalova' 'Zdzislaw Wawrzak' 'Dominika Borek' 'Zbyszek Otwinowski' 'Peter J. Stogios' 'Alexei Savchenko' 'Wayne F. Anderson' 'Karla J. F. Satchell' 'Laty A. Cahoon' 'Craig D. Ellermeier'] Title: ABSTRACT During infection, bacterial pathogens rely on secreted virulence factors to manipulate…
Nikolaus Kriegeskorte, Jörn Diedrichsen
High-resolution functional imaging is providing increasingly rich measurements of brain activity in animals and humans. A major challenge is to leverage such data to gain insight into the brain's computational mechanisms. The first step is to define candidate braincomputational models (BCMs) that can perform the…
Authors not listed
Peptide-binders have been generated by Rosetta-Fold diffusion (RFdiffusion) against the dimer-interfaces of the positive regulatory factor A (prfA) regulon of Listeria monocitogenes (Lm). Lm are amongst those raising worldwide concerns because of their multiple-resistant food-borne infective intracellular Gram-positive…
Yuhao Sun, Albert Tenesa, John Vines
Risk Score for Genetic Health Prediction Authors: ['Yuhao Sun' 'Albert Tenesa' 'John Vines'] Precision Medicine (PM) transforms the traditional "one-drug-fitsall" paradigm by customising treatments based on individual characteristics, and is an emerging topic for HCI research on digital health. A key element of PM, the…
Andrew G Reidenbach, Eric Vallabh Minikel, Hien T Zhao, Stacy G Guzman + 5 more
Antisense oligonucleotides (ASOs) designed to lower prion protein (PrP) expression in the brain through RNAse H1-mediated degradation of PrP RNA are in development as prion disease therapeutics. ASOs were previously reported to sequence-independently interact with PrP and inhibit prion accumulation in cell culture, yet…
Authors not listed
Furin is a calcium-dependent endopeptidase. It is found in all vertebrates and many invertebrates. It is localized in the Golgi apparatus, and in the extra cellular space. It functions in the biosynthesis of a diverse group of cellular proteins that includes hormones, growth factors, matrix metalloproteases, and…
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…
Chuang-Kai Chueh, Nilanjan Som, Lu-Chu Ke, Meng-Ru Ho + 2 more
Carboxyl (C)-terminal processing proteases (CTPs) participate in protective and regulatory proteolysis in bacteria. The PDZ domain is central to the activity of CTPs but plays inherently different regulatory roles. For example, the PDZ domain inhibits the activity of the signaling protease CtpB by blocking the active…
Edgar López-López, Oscar Robles, Fabien Plisson, José L. Medina-Franco
Peptides are a re-emerged strategy to fight a plethora of diseases and their utility has been expanded to new areas. Now sequence-based peptide design opens up new possibilities to develop peptidic molecular entities. However, its methodological limitations (e.g., its inefficiency in designing large peptides and that…
Logan Stapleton, Min Hun Lee, Diana Qing, M. R. Wright + 4 more
'Alexandra Chouldechova' 'Ken Holstein' 'Zhiwei Steven Wu' 'Haiyi Zhu'] Child welfare agencies across the United States are turning to datadriven predictive technologies (commonly called predictive analytics) which use government administrative data to assist workers' decision-making. While some prior work has explored…
julio coll
The respiratory syncytial virus (RSV) causes abundant annual fatalities on young children and elder adults by infecting human cells mediated by RSV fusion (F) surface homotrimeric proteins. Despite their RSV fusion in vitro inhibitors, anti-F therapeutic molecules are not yet clinically available because of emergent…