12 papers · ranked by Valyu relevance
Huihai Wu, Ashleigh Lister, Iain Macaulay, Katie Long + 10 more
Single-cell and spatial transcriptomics are transforming our understanding of cellular heterogeneity and tissue organization, yet their analytical complexity remains a major bottleneck. Here, we present EISCA and EISTA, two standardized, end-to-end pipelines for single-cell RNA- seq and imaging-based spatial…
Jenny Michelle Roberts, Philip Donkersley, Stephen Quayle, Allan Edward Watson Rennie
Propolis is a plant-derived resin collected by honeybees, essential for maintaining colony health by protecting against pathogens and building the hive. With the aim of determining influencing factors on the wax content of propolis, 139 samples of propolis were collected from hives across the United Kingdom in 2025 via…
Yilan Wu, Dun Jack Fu, Yukun Zhou, Siegfried K Wagner + 2 more
Background Large language model (LLM) agents capable of generating and executing statistical code from natural language may broaden access to clinical data analysis, yet which pipeline stages they perform reliably and which require expert oversight remain poorly defined. Objective This study aimed to evaluate the…
Jama Mohamed, Hamse Mohamed Amoud, Ahmed Ismail Mohamed, Abdisalam Hassan Muse + 2 more
2.3.1#### Dependent Variable In this study, the dependent variable is the number of TT injections received before giving birth (i.e., 0, 1, 2, …, 8). 2.3.2#### Independent Variables To achieve the study's objective, we selected 25 variables that may influence the number of TT vaccine injections received before birth.…
Maria Juliana Rodriguez-Cubillos, Tomasz Zieliński, Jason R. Swedlow, T. Ian Simpson + 1 more
Ensuring the availability and accessibility of research data is fundamental to advancing knowledge, as codified in the FAIR principles (Findable, Accessible, Interoperable, and Reusable). Accurate metadata documentation is indispensable for meeting these principles; however, entries in deposition databases often…
Atilio Barreda II, Carrie Diaz Eaton, Sam Hansen, Joseph E. Hibdon Jr. + 10 more
Mathematics researchers are becoming more involved with research questions at the interface of data science and social justice. This type of research needs to be grounded in the needs of the community in order to have significant impact. In this paper, we examine two examples of community-research partnerships in data…
Anthony Christidis, Andrew Ghazi, Smriti Chawla, Nitesh Turaga + 2 more
Although cell type annotation has become an integral part of single-cell analysis workflows, the assessment of computational annotations remains challenging. Many annotation tools transfer labels from an annotated reference dataset to a new query dataset of interest, but blindly transferring labels from one dataset to…
Zichao Jin, Jiaoru Wang, Wenjiang Huang, Jingcheng Zhang + 2 more
Accurate, reliable, large-scale disease predictions are essential to ensure rice production. Existing disease prediction models often face a trade-off between interpretability and predictive capability, necessitating the integration of mechanistic knowledge and data-driven learning within a modelling framework.…
Simeon Streit, Nadja Mostacci, Julia Moor, Anne Oppliger + 2 more
Pig farming is one of the most intensive human–animal interfaces, and farm workers carry gut microbiotas that differ from those of non-farmers. Whether this overlap reflects genuine strain transmission or shared environmental exposure is unclear. Using shotgun metagenomics, we profiled the gut microbiomes of pigs at…
Roy La Touche, Ferran Cuenca-Martínez, Jose Vicente León-Hernández, Alba Paris-Alemany + 3 more
A series of random-effects meta-analyses were conducted using the metafor package ([https://cran.r-project.org/web/packages/metafor/index.html]()) in R (R Core Team, 2022) in RStudio (Version 2023.06.0-431) , based on the guideline “Doing Meta-analysis with R: A Hands-On Guide” . Standardized mean differences (SMD) and…
Peter Gill, Helen Johannessen, Christine Børsum, Ane Elida Fonneløp + 1 more
DNA findings on clothing are often evaluated at sub-source level to address whether a person contributed DNA to a sample. In many cases, however, the disputed issue is not whose DNA is present, but how the DNA was transferred. This paper applies the HaloGen framework to evaluate DNA findings on stockings under…
Akemi Morohashi, Satoshi Yamashita, Takahiro Imaizumi, Takuto Sano + 3 more
1## Introduction The use of real-world data (RWD) to generate real-world evidence (RWE) has expanded globally to support regulatory decision-making, postmarketing surveillance, and clinical research . Indeed, regulatory authorities worldwide have increasingly used RWE derived from routine electronic health records…