54 datasets

NCL Data2026 · dataset

UniProt Pan-Proteomes 2026_02<p dir="ltr">This is the Pan-Proteomes dataset published as part as UniProt release 2026_02 (10-Jun-2026).</p><p dir="ltr">It is the first release of the new UniProt Pan-Proteomes.</p><p dir="ltr">Please note that due to upload limitations, the original pp* subfolders have been replaced by a single compressed .tgz archive.</p><p dir="ltr">The latest version (published

figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">This dataset contains 2,612 nucleotide sequences representing 116 retained phylogenetic markers across 23 Rhizobium genomes. GToTree screened the Alphaproteobacteria-specific set of 117 targets. Ribosomal_L34 yielded no hits in any genome, leaving 116 markers for phylogenetic analysis.</p><p dir="ltr">Sequences were exported from the processed individual marker alignments with gap cha

UP Research Data Repository2026 · dataset

<p dir="ltr">This dataset contains AlphaSpatial-predicted cell-level gene expression and spatial coordinates for two breast tissue sections, 187 cases from the Yale HER2-status cohort and 81 cases from the Yale trastuzumab-response cohort. The archive comprises 270 AnnData files containing 14,594,148 valid cell predictions, together with an ROI mapping table. Each file provides untransformed predi

ZivaHub + Deakin Research Online + DMU Figshare2026 · dataset

<p dir="ltr">It's the list of exons in builld 37. This file is required to create the chanjo database</p>

ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · Astronomical catalogue

<p><br></p><p dir="ltr"><b>[A] Genome-derived 16S rRNA gene sequences of 50-species gut mock community</b></p><p dir="ltr">File: refseqs_50species_gut_mock_V1V9.fasta</p><p dir="ltr"><br></p><p dir="ltr"><b>[B] Simulated ONT reads</b></p><p dir="ltr">Files: simulated_mock_compositions_n_reads.tsv, refseqs_simulations_V1V9.tar.gz, simulated_fastq.tar.gz</p><p dir="ltr"><i>Long amplicon reads were s

ZivaHub + Deakin Research Online + DMU Figshare2026 · dataset

<p dir="ltr">This online resource is linked to our manuscript:</p><p dir="ltr">"Revealing pan-cancer clonal niches of T cells from single-cell RNA sequencing using contrastive learning".</p><p dir="ltr">It contains our pre-trained models following hyper-parameter tuning, ready for direct use and application using your own single-cell data. A gene table with the relevant genes used for training is

ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">Processed AnnData (<code>.h5ad</code>) file used for the trajectory and cell-state transition analyses. Data set for tutorial</p>

ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">See the .figshare_data/Readme</p>

ZivaHub + Deakin Research Online + DMU Figshare2026 · dataset

<p dir="ltr">Bioinformatical scWGS Pipeline using snakemake as workflow manager to implement different tools and custom Rtools to aneuploid analyse scWGS data via Aneufinder.</p>

ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">All bioinformatics outputs related to "Paired sequencing of IgA-bound bacteria reveals widespread associations between adaptive immunity and gut microbiome gene expression" which are required to recreate the statistical analysis in the manuscript.</p><p dir="ltr">Data were generated from IgA-sorted (FACS) gut microbiota of IgMi mice, which produce monoclonal IgA. Positive (IgA-bound)

ZivaHub2026 · dataset

<p dir="ltr">Aging is commonly modeled as a gradual linear decline, yet humans undergo nonlinear transitions between distinct functional states across their lifespan. Identifying these transition dynamics is critical, as intervention windows may emerge only before periods of accelerated molecular change. Here, we present a framework for studying aging as a nonlinear process using DNA methylation d

ZivaHub2026 · dataset

<p dir="ltr">Code for a webserver platform for metabolic engineering design for overproduction of valuable chemicals by microbial cells. </p>

ZivaHub2026 · dataset

<p dir="ltr">EVA v1.2.1 source code</p>

ZivaHub + HKU DataHub + figshare + Loughborough Research Repository + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">This archive contains a precomputed LinGraph graph summary for reconstructing the local graphs used in structural variant calling, including challenging repetitive regions of the genome.</p><p dir="ltr">Download and extract the archive, then use LinGraph to reconstruct all local graphs from the summary. The reconstructed graphs can be used with LinGraph’s <code><strong>singular</stron

ZivaHub + HKU DataHub + figshare + Loughborough Research Repository + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">All data generated and used in the manuscript "<i>IQC</i>: A Novel Criterion for Assessing Feature Selection Stability in High-Dimensional Analyses." General information on each file is described below:</p><p dir="ltr"><b><u>Simulated Data</u></b></p><ul><li>"IQC_Model_Iterations_[...].csv": Files containing all 100 model iterations used to compute IQC for microarray gene expression c

ZivaHub + HKU DataHub + figshare + Loughborough Research Repository + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">Verification debt due to agentic decision steps in Biomni through 10 research questions with varying degrees of complexity.</p>

HKU DataHub + figshare + Loughborough Research Repository + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr">This repository contains supplementary datasets and the data package required to reproduce the analysis, results, and figures presented in Savino et al. (2026).<br><br>The study leverages CRISPR-based functional genomics to systematically evaluate Variants of Unknown Significance (VUS) in oncology, identifying actionable therapeutic targets and highlighting novel opportunities for dru

ZivaHub2026 · dataset

<p dir="ltr">Code and frozen models of PlasmidCall, which classifies short-read assembly contigs as plasmid- or chromosome-derived from the calls of twelve published plasmid classifiers. This item archives release v1.1.0 of https://github.com/piranfar/PlasmidCall (git tag v1.1.0, commit 19e840546799a9d404fdf77c0a099df206efab2f) as one zip file.</p><p dir="ltr">The release contains the frozen Plasm

ZivaHub2026 · dataset

<p dir="ltr">Complete master R script file for the manuscript "<i>IQC</i>: A Novel Criterion for Assessing Feature Selection Stability in High-Dimensional Analyses." File contains all code used to simulate data, run IQC algorithm, perform microarray gene expression case study, and generate all figures and supplemental figures used in the manuscript. Code is fully annotated and sectioned into sub-p

HKU DataHub + figshare + Loughborough Research Repository + UP Research Data Repository2026 · Astronomical catalogue

<p dir="ltr"><b>Background</b>: Optimising sampling frames for genomic surveillance of <i>E. coli</i> and <i>Klebsiella </i>may support interventions to mitigate bloodstream infections (BSIs), but approaches to estimating sample size and how these relate to bacterial population diversity at multiple genetic levels (strain/plasmid/antimicrobial resistance genes</p><p dir="ltr">[ARGs]) are lacking.<

HKU DataHub + figshare + Loughborough Research Repository2026 · Astronomical catalogue

<p dir="ltr">Histoplasma capsulatum is an important fungal pathogen of humans. While genome sequencing has been used for H. capsulatum epidemiology studies, most of these studies are in the form of Illumina reads without an accompanying genome assembly. This limits the development of applications based on genome assemblies, such as genome-based multilocus sequence typing (MLST). Firstly, 403 genom

HKU DataHub + figshare + Loughborough Research Repository2026 · Astronomical catalogue

<p dir="ltr">Complete dataset supporting an in silico screen of 21,000 natural product compounds from Indonesian medicinal plants against <i>Plasmodium falciparum</i> calcium-dependent protein kinase 2 (<i>Pf</i>CDPK2, PDB ID 4MVF), a transmission-blocking antimalarial target. All files needed to reproduce the reported analyses are included.</p><p dir="ltr">Contents: molecular docking outputs and

HKU DataHub + figshare + Loughborough Research Repository2026 · Astronomical catalogue

<p dir="ltr">Dataset, codes, and supplementary materials for "Synthesis of 3D Fluorescence Images Using VAE-Diffusion Models and Their Application for 3D-UNETR Neuronal Cell Identification" by Yuxiang HUANG, Yuichi IINO, and Yu TOYOSHIMA (<a href="https://dx.doi.org/10.1109/ACCESS.2026.3738430" target="_blank" rel="noreferrer">https://dx.doi.org/10.1109/ACCESS.2026.3738430</a>) </p>

figshare + Loughborough Research Repository2026 · Astronomical catalogue

<p>PlaScope classifies contigs as chromosomal or plasmid-derived with Centrifuge against a <strong>species-specific</strong> index, and ships one built for <em>Escherichia coli</em>. Applied to another genus it abstains rather than failing, so the misconfiguration is silent. This deposit supplies the index that was missing for <em>Enterococcus</em>, the material and commands it was built from, and

figshare + Loughborough Research Repository2026 · Astronomical catalogue

<p dir="ltr">Supplementary Data 1 for Alami et al. Benchmarking and integration of viral prediction tools to uncover viral dark matter across divergent low abundance metagenomes.</p>