🧠 Just out in Bioinformatics Advances: “Deep learning for regulatory genomics: A survey of models, challenges, and applications.” Explore the full study: https://doi.org/10.1093/bioadv/vbaf271

🧩 Explore the latest from Bioinformatics Advances: “CoRTE: A web-service for constructing temporal networks from genotype-tissue expression data.”   Full article available: https://doi.org/10.1093/bioadv/vbaf272

🧠 Now published in Bioinformatics Advances: “PSO-FeatureFusion: A general framework for fusing heterogeneous features via particle swarm optimization.”  Read the full paper here: https://doi.org/10.1093/bioadv/vbaf263

🔥 Now published in Bioinformatics Advances: “Shiny-Calorie: A context-aware application for indirect calorimetry data analysis and visualization using R.”    Read the full paper here: https://doi.org/10.1093/bioadv/vbaf270  Authors include: @wachtenlab.bsky.social, @ecsignalmetabolism.bsky.social

💊 Now published in Bioinformatics Advances: “DSA-DeepFM: A dual-stage attention-enhanced DeepFM model for predicting anticancer synergistic drug combinations.”  Read the full paper here: https://doi.org/10.1093/bioadv/vbaf269

🧬 Just out in Bioinformatics Advances: “TidyGWAS: A scalable approach for standardized cleaning of genome-wide association study summary statistics.”   Explore the full study: https://doi.org/10.1093/bioadv/vbaf262  Authors include: @joellepasman.bsky.social

🧠 Now published in Bioinformatics Advances: “Gaining insights into Alzheimer’s disease by predicting chromatin spatial organization.”    Read the full paper here: ttps://doi.org/10.1093/bioadv/vbaf268

🧬 Explore the latest from Bioinformatics Advances: “MutSeqR: An open-source R package for standardized analysis of error-corrected next-generation sequencing data in genetic toxicology.”  Full article available: https://doi.org/10.1093/bioadv/vbaf265

🧪 Now published in Bioinformatics Advances: “SUMO: An R package for simulating multi-omics data for methods development and testing.”  Read the full paper here: https://doi.org/10.1093/bioadv/vbaf264

🧬 Just out in Bioinformatics Advances: “Unifying proteomic technologies with ProteinProjector.”  Explore the full study: https://doi.org/10.1093/bioadv/vbaf266

🧩 Explore the latest from Bioinformatics Advances: “StarPepWeb: An integrative, graph-based resource for bioactive peptides.”  Full article available: https://doi.org/10.1093/bioadv/vbaf261

🌾 Now published in Bioinformatics Advances: “NifFinder: Improved Nif protein prediction using SWeeP vectors and neural networks.”  Read the full paper here: https://doi.org/10.1093/bioadv/vbaf260

🌊 Now published in Bioinformatics Advances: “The Hydractinia Genome Project Portal: Multi-omic annotation and visualization of Hydractinia genomic datasets.”   Read the full paper here: https://doi.org/10.1093/bioadv/vbaf215

🧠 Explore the latest from Bioinformatics Advances: “ICCTax: A hierarchical taxonomic classifier for metagenomic sequences on a large language model.”  Full article available: https://doi.org/10.1093/bioadv/vbaf257

🪶 Just out in Bioinformatics Advances: “In silico analysis of insect-associated bacterial phytases reveals optimal biochemical properties and function in poultry gut condition.”  Explore the full study: https://doi.org/10.1093/bioadv/vbaf256

🧪 Now published in Bioinformatics Advances: “Pathogenicity patterns in cytochrome P450 family.”    Read the full paper here: https://doi.org/10.1093/bioadv/vbaf231  Authors include: @krapnik.bsky.social

🧠 Explore the latest from Bioinformatics Advances: “Asymmetric integration of various cancer datasets for identifying risk-associated variants and genes.” Full article available: https://doi.org/10.1093/bioadv/vbaf253

🧬 Now published in Bioinformatics Advances: “ProtFun: A protein function prediction model using graph attention networks with a protein large language model.”    Read the full paper here: https://doi.org/10.1093/bioadv/vbaf245

🦠 Now published in Bioinformatics Advances: “K-FluDB: A novel k-mer based database for enhanced genomic surveillance of influenza A viruses.” Explore the full study: https://doi.org/10.1093/bioadv/vbaf254

🧩 Explore the latest from Bioinformatics Advances: “Nextpie: A web-based reporting tool and database for reproducible Nextflow pipelines.” Read the full paper here: https://doi.org/10.1093/bioadv/vbaf252  Authors include: @lonnberg-lab.bsky.social

🧬 Just out in Bioinformatics Advances: “OncotreeVIS: An interactive graphical user interface for visualizing mutation tree cohorts.” Explore the full study: https://doi.org/10.1093/bioadv/vbaf247  Authors include: @cbg.ethz.ch

🌍 Now published in Bioinformatics Advances: “GeoGenIE: A deep learning approach to predict geographic provenance of biodiversity samples from genomic SNPs.”   Read the full paper here: https://doi.org/10.1093/bioadv/vbaf250

🧠 Explore the latest from Bioinformatics Advances: “KinMethyl: Robust methylation detection in prokaryotic SMRT sequencing via kinetic signal modeling and deep feature integration.” Full article available: https://doi.org/10.1093/bioadv/vbaf249

🧪 Now published in Bioinformatics Advances: “Retention order prediction of peptides containing non-proteinogenic amino acids.” Explore the full study: https://doi.org/10.1093/bioadv/vbaf246

🧬 Now published in Bioinformatics Advances: “Advances and challenges in understanding evolution through genome comparison.” Read the full paper here: https://doi.org/10.1093/bioadv/vbaf223

🧬 Explore the latest from Bioinformatics Advances: “Synthetic data-driven AI approach for fetal chromosomal aneuploidies detection.”  Full article available: https://doi.org/10.1093/bioadv/vbaf244

🧠 Explore the latest from Bioinformatics Advances: “SNP-based prediction of schizophrenia using machine learning.”    Read the full paper at https://doi.org/10.1093/bioadv/vbaf219

🦟 Explore the latest from Bioinformatics Advances: “Craft: A machine learning approach to dengue subtyping.”  Full article available at https://doi.org/10.1093/bioadv/vbaf224  Authors include: @tuliodna.bsky.social

🧬 Now published in Bioinformatics Advances: “FastGA: Fast genome alignment.” Explore the full study at https://doi.org/10.1093/bioadv/vbaf238

🧬 Now published in Bioinformatics Advances: “FBAT-DAP-G: Fine-mapping of genetic associations in family-based studies using the Deterministic Approximation of Posteriors algorithm”  Read the full paper here: https://doi.org/10.1093/bioadv/vbaf233

🧮 Just out in Bioinformatics Advances: “Orthonormal pairwise logratio selection (OPALS) algorithm for compositional data analysis in high dimensions”    Explore the full study: https://doi.org/10.1093/bioadv/vbaf229

🧪 Explore the latest from Bioinformatics Advances: “optTMT: optimizing any experimental design to minimize false positives caused by TMT reporter ion interference”    Full article available: https://doi.org/10.1093/bioadv/vbaf243

🧩 Now published in Bioinformatics Advances: “SLiMs prediction method based on Enhanced Attention Mechanism and Feature fusion”    Read the full paper here: https://doi.org/10.1093/bioadv/vbaf240

🧪 Just out in Bioinformatics Advances: “Computational strategies in tumor phylogenetics: Evaluating multi-modal integration and methodological trade-offs across study designs”   Explore the full study: https://doi.org/10.1093/bioadv/vbaf242

🗂️ Now published in Bioinformatics Advances: “Metadata harmonization from biological datasets with language models” Read the full paper here: https://doi.org/10.1093/bioadv/vbaf241

📚 Explore the latest from Bioinformatics Advances: “An overview of computational methods for gene prediction in eukaryotes: Strengths, limitations, and future directions”    Full article available: https://doi.org/10.1093/bioadv/vbaf222

🧬 Explore the latest from Bioinformatics Advances: "Deconvolution and phylogeny inference of diverse variant types integrating bulk DNA-seq with single-cell RNA-seq" Full article available: https://www.doi.org/10.1093/bioadv/vbaf234

🦠 Now published in Bioinformatics Advances: "SocialViruses: Integrating quantitative phage–bacteria and phage–phage interaction networks for rational cocktail design"  Read the full paper here: https://doi.org/10.1093/bioadv/vbaf239

🧪 Just out in Bioinformatics Advances: "Disc-Hub: a python package for benchmarking machine learning strategies in DIA-MS identification"  Explore the full study: https://www.doi.org/10.1093/bioadv/vbaf232

🧬 Just out in Bioinformatics Advances: "TAILcaller: An R package for analyzing differences in poly(A) tail length for Oxford Nanopore RNA sequencing”  Full article available: https://doi.org/10.1093/bioadv/vbaf235

🧬 Now published in Bioinformatics Advances: “sc2DAT: Workflow for targeting tumor subpopulations of single cells” Full article available: https://doi.org/10.1093/bioadv/vbaf237

🧪 Now published in Bioinformatics Advances: "FinaleToolkit: Accelerating cell-free DNA fragmentation analysis with a high-speed computational toolkit" Explore the full study: https://doi.org/10.1093/bioadv/vbaf236

📊 Explore the latest from Bioinformatics Advances: "Sparse dimensionality reduction for analyzing single-cell-resolved interactions"  Read the full paper here: https://doi.org/10.1093/bioadv/vbaf230

🧪 Now published in Bioinformatics Advances: "Deep Active Learning based Experimental Design to Uncover Synergistic Genetic Interactions for Host Targeted Therapeutics" Read the full paper here: https://doi.org/10.1093/bioadv/vbaf228

🧬 Explore the latest from Bioinformatics Advances: "Benchmarking of variant pathogenicity prediction methods using a population genetics approach"    Full article available: https://doi.org/10.1093/bioadv/vbaf227 Authors include: @egiannoulatou.bsky.social

🧰 Now published in Bioinformatics Advances: "Atlantool: A command line tool to retrieve DNA and RNA sequencing reads from BAM files by the read identifier"    Read the full paper here: https://doi.org/10.1093/bioadv/vbaf226  Authors include: @nibor.org, @egiannoulatou.bsky.social

📊 Just out in Bioinformatics Advances: "tBN-CSDI: A time-varying blue noise-based diffusion model for time series imputation" Explore the full study: https://doi.org/10.1093/bioadv/vbaf225

🖥️ Explore the latest from Bioinformatics Advances: "Termal: A fast and interactive terminal-based viewer for multiple sequence alignments" Full article available: https://doi.org/10.1093/bioadv/vbaf208

🧬 Now published in Bioinformatics Advances: "DeepEPI: CNN-Transformer-based model for extracting TF interactions through predicting enhancer–promoter interactions" Read the full paper here: https://doi.org/10.1093/bioadv/vbaf221

🧩 Recently published in Bioinformatics Advances: “Rosace-AA: Enhancing interpretation of deep mutational scanning data with amino acid substitution and position-specific insights”   Full article available: https://doi.org/10.1093/bioadv/vbaf218