Results 91 to 100 of about 101,522 (253)

Analysing the significance of small conformational changes and low occupancy states in serial crystallographic data

FEBS Open Bio, EarlyView.
This protocol paper outlines methods to establish the success of a time‐resolved serial crystallographic experiment, by means of statistical analysis of timepoint data in reciprocal space and models in real space. We show how to amplify the signal from excited states to visualise structural changes in successful experiments.
Jake Hill, Yelyzaveta Pulnova, Elke De Zitter, Helen M. Ginn, Briony A. Yorke   +4 more
wiley   +1 more source

Rule-based systems to automatically count bites from meal videos

Frontiers in Nutrition
Eating behavior is a key factor for nutritional intake and plays a significant role in the development of eating disorders and obesity. The standard methods to detect eating behavior events (i.e., bites and chews) from video recordings rely on manual ...
Michele Tufano, Marlou P. Lasschuijt, Aneesh Chauhan, Edith J. M. Feskens, Guido Camps, Guido Camps   +5 more
doaj   +1 more source

Visual Image Annotation for Bowel Obstruction: Repeatability and Agreement with Manual Annotation and Neural Networks. [PDF]

J Digit Imaging, 2023
Murphy PM.
europepmc   +1 more source

AutoJudge: Judge Decoding Without Manual Annotation

CoRR
We introduce AutoJudge, a method that accelerates large language model (LLM) inference with task-specific lossy speculative decoding. Instead of matching the original model output distribution token-by-token, we identify which of the generated tokens affect the downstream quality of the response, relaxing the distribution match guarantee so that the ...
Garipov, Roman, Velikonivtsev, Fedor, Ermakov, Ivan, Svirschevski, Ruslan, Egiazarian, Vage, Ryabinin, Max   +5 more
openaire   +2 more sources

Large‐scale bidirectional arrayed genetic screens identify OXR1 and EMC4 as modifiers of αSynuclein aggregation

FEBS Open Bio, EarlyView.
Activation of the mitochondrial protein OXR1 increases pSyn129 αSynuclein aggregation by lowering ATP levels and altering mitochondrial membrane potential, particularly in response to MSA‐derived fibrils. In contrast, ablation of the ER protein EMC4 enhances autophagic flux and lysosomal clearance, broadly reducing α‐synuclein aggregates.
Sandesh Neupane, Lea Nikolić, Lorenzo Maraio, Thomas Goiran, Nathan Karpilovsky, Stefano Sellitto, Vangelis Bouris, Jiang‐An Yin, Ronald Melki, Edward A Fon, Adriano Aguzzi, Elena De Cecco   +11 more
wiley   +1 more source

YIPFα1A expression is regulated by multilayered molecular mechanisms

FEBS Open Bio, EarlyView.
YIPFα1A, a five‐pass Golgi protein, is regulated at multiple layers. (1) Rare‐codon enrichment drives translation‐coupled mRNA decay. (2) A proximal 3′‐UTR element stabilizes mRNA. (3) A distal 3′‐UTR element included by alternate poly(A) site usage represses translation, which can be overridden by the proximal 3′‐UTR element.
Tokio Takaji, Yurika Nakanishi, Nobuhiro Nakamura   +2 more
wiley   +1 more source

Benchmarking cell type annotation methods for 10x Xenium spatial transcriptomics data

BMC Bioinformatics
Background Imaging-based spatial transcriptomics technologies allow us to explore spatial gene expression profiles at the cellular level. Cell type annotation of imaging-based spatial data is challenging due to the small gene panel, but it is a crucial ...
Jinming Cheng, Xinyi Jin, Gordon K. Smyth, Yunshun Chen   +3 more
doaj   +1 more source

Molecular dynamics simulations of positively selected codons in FcγRI reveal novel biochemical binding properties

FEBS Open Bio, EarlyView.
Evolutionary analysis across 32 placental mammals identified positive selection at residues H148 and W149 in the immune receptor FcγR1. Ancestral reconstruction combined with molecular dynamics simulations reveals how these mutations may influence receptor structure and dynamics, providing insight into the evolution of antibody recognition and immune ...
David A. Young, Omar Arias‐Gaguancela, Fiona Gibson, Morgan Grainger, Jodie Score, Amit Nathubhai, Mauricio Cafiero, Lee Richard Machado   +7 more
wiley   +1 more source

YOLO‐Behaviour: A simple, flexible framework to automatically quantify animal behaviours from videos

Methods in Ecology and Evolution
Manually coding behaviours from videos is essential to study animal behaviour but it is labour‐intensive and susceptible to inter‐rater bias and reliability issues.
Alex Hoi Hang Chan, Prasetia Putra, Harald Schupp, Johanna Köchling, Jana Straßheim, Britta Renner, Julia Schroeder, William D. Pearse, Shinichi Nakagawa, Terry Burke, Michael Griesser, Andrea Meltzer, Saverio Lubrano, Fumihiro Kano   +13 more
doaj   +1 more source

An evaluation of GO annotation retrieval for BioCreAtIvE and GOA

BMC Bioinformatics, 2005
Background The Gene Ontology Annotation (GOA) database http://www.ebi.ac.uk/GOA aims to provide high-quality supplementary GO annotation to proteins in the UniProt Knowledgebase.
Camon Evelyn B, Barrell Daniel G, Dimmer Emily C, Lee Vivian, Magrane Michele, Maslen John, Binns David, Apweiler Rolf   +7 more
doaj   +1 more source