Supplementary file 1_ParaDeep: sequence-based deep learning for residue-level paratope prediction using chain-aware BiLSTM-CNN models.docx حسب Piyachat Udomwong (22563212)

"…<p>Accurate prediction of antibody paratopes is a critical challenge in structure-limited, high-throughput discovery workflows. We present ParaDeep, a lightweight and interpretable deep learning framework for residue-level paratope prediction directly from amino acid sequences. …"

Various depictions of figures can be created using different software using the same data. حسب Hector Torres (11708207)

Quetzal: Comprehensive Peptide Fragmentation Annotation and Visualization حسب Eric W. Deutsch (13887)

"…We describe how Quetzal annotates spectra using the new Human Proteome Organization (HUPO) Proteomics Standards Initiative (PSI) mzPAF standard for fragment ion peak annotation, including the Python-based code, a web-service end point that provides annotation services, and a web-based application for annotating spectra and producing publication-quality figures. …"

Quetzal: Comprehensive Peptide Fragmentation Annotation and Visualization حسب Eric W. Deutsch (13887)

"…We describe how Quetzal annotates spectra using the new Human Proteome Organization (HUPO) Proteomics Standards Initiative (PSI) mzPAF standard for fragment ion peak annotation, including the Python-based code, a web-service end point that provides annotation services, and a web-based application for annotating spectra and producing publication-quality figures. …"

ASC Hypothesis — Reproducibility Dataset (proofs, CI, HEP configs) حسب PS BigBig (22415578)

Code used to run simulations and generate figures. حسب Guillaume Mestdagh (22656397)

Cost analysis of casting techniques. حسب Víctor Hugo Gonzalo Quispe Mamani (21213092)

"…The selection process was non-probabilistic and based on convenience, with specific inclusion and exclusion criteria to ensure precision and relevance. …"

Flowchart of the study participants. حسب Saeid Rasouli (20370998)

"…<div><p>Background</p><p>Optic neuritis (ON) can be an initial clinical presentation of multiple sclerosis This study aims to provide a practical predictive model for identifying at-risk ON patients in developing MS.…"

Comparison of previous predictive models. حسب Saeid Rasouli (20370998)

"…<div><p>Background</p><p>Optic neuritis (ON) can be an initial clinical presentation of multiple sclerosis This study aims to provide a practical predictive model for identifying at-risk ON patients in developing MS.…"

Feature importance of variables. حسب Saeid Rasouli (20370998)

"…<div><p>Background</p><p>Optic neuritis (ON) can be an initial clinical presentation of multiple sclerosis This study aims to provide a practical predictive model for identifying at-risk ON patients in developing MS.…"

Landscape Change Monitoring System (LCMS) Conterminous United States Cause of Change (Image Service) حسب U.S. Forest Service (17476914)

"…Reference data are collected using TimeSync, a web-based tool that helps analysts visualize and interpret the Landsat data record from 1984-present (Cohen et al., 2010).Outputs fall into three categories: change, land cover, and land use. …"

Explained variance ration of the PCA algorithm. حسب Abeer Aljohani (18497914)

"…The efficiency and accuracy of the proposed method is presented in details. All our simulation is performed in computation softwares, Matlab and Python. …"

Knowledge Graph validation using SHACL Shapes حسب Ángel Iglesias Préstamo (19745767)

"…SHACL (Shapes Constraint Language) has emerged as a W3C Recommendation for validating RDF (Resource Description Framework) graphs, enabling constraints to be defined for quality assurance. In this paper, we present rudof, a Rust-based library that implements SHACL validation for RDF-based knowledge graphs. …"

Supplemental Material for Perez, 2024 حسب Marcos Francisco Perez (11788328)

"…Additional annotations are present - whether the interaction was detected or not in each dataset (NA means that the TF was not present in that dataset), and the WormBase Gene IDs / gene names for all TFs and targets. …"

LNP drug delivery image data حسب Philip Harrison (8899735)

"…Data to accompany the manuscript "Deep learnings models for lipid-nanoparticle-based drug delivery"<div><br></div><div><u>Abstract:</u></div><div>Large-scale time-lapse microscopy experiments are useful to understand delivery and expression in RNA-based therapeutics. …"

Overview of generalized weighted averages. حسب Nobuhito Manome (8882084)

"…The code is available at <a href="https://github.com/manome/python-mab" target="_blank">https://github.com/manome/python-mab</a>.…"

Horuss Research: methodology for validating unstructured data using large language models حسب Fabiano Castello (6803171)

Deakin IoT Traffic Dataset حسب Aleksandar Pasquini (13092765)

"…It enables the study and differentiation of network behaviors based on device functions and supports behavior-based profiling to identify irregular activities or potential security threats.…"

Bayesian Changepoint Detection via Logistic Regression and the Topological Analysis of Image Series حسب Andrew M. Thomas (712104)

"…An implementation of our method is available in the Python package bclr.</p>…"

Elements: Streaming Molecular Dynamics Simulation Trajectories for Direct Analysis – Applications to Sub-Picosecond Dynamics in Microsecond Simulations حسب Matthias Heyden (17087794)

"…<p dir="ltr">We present a software development effort aimed at enabling real-time analysis of data from molecular dynamics (MD) simulations of biomolecules such as proteins. …"