Hoike: A Joint-Embedding Predictive Architecture for Transcriptome Data Generation with Diffusion Models

In biomarker discovery, access to sufficient quantities of condition-specific transcriptomic data is often limited by cohort size, privacy concerns, and domain shift between normal and condition popul...

biorxiv.org

Kukulu: Diffusion-Based Reconstruction of Antibody CDR Loops using a Structure-Aware Joint Embedding Predictive Architecture

Antibody complementarity-determining regions (CDRs), especially CDR-H3, are a dominant source of binding specificity but remain difficult to design due to coupled sequence-structure constraints and lo...

biorxiv.org

A map of the historical spread of Cyclospora cayetanensis with a focus on the United States of America (USA)

Cyclospora cayetanensis causes significant seasonal foodborne illness, characterized by recent large-scale nationwide outbreaks. We are currently experiencing the largest recorded outbreak in USA hist...

medrxiv.org

Building Multi-agentic Bioworkflows with Microsoft Foundry and Nextflow

As bioinformatics workflows grow in scale and complexity, automating the data retrieval, analysis, and interpretation is imperative for…

medium.com

Computational Structural Analysis Predicts Host-Range Promiscuity and Antiviral Resistance in North American H5N1 Lineages | Computational and Structural Biotechnology Journal

Influenza A virus has been circulating in birds in Eurasia for more than 146 years, but human infection has been sporadic. H5N1 (clade 2.3.4.4b) has recently infected hundreds of species of wild and d...

spj.science.org

Colby Ford: Building Multi-agentic Bioworkflows with Microsoft Foundry and Nextflow

YouTube video by Nextflow

youtu.be

Building Agentic Solutions with Microsoft Foundry: Patterns, Workflows, and Best Practices for Intelligent Agents

Building Agentic Solutions with Microsoft Foundry: Patterns, Workflows, and Best Practices for Intelligent Agents [Ford, Colby T.] on Amazon.com. *FREE* shipping on qualifying offers. Building Agentic Solutions with Microsoft Foundry: Patterns, Workflows, and Best Practices for Intelligent Agents

a.co

Connecting OpenClaw to Models in Microsoft Foundry

OpenClaw has taken the AI world by storm as it enables users to build local, personal AI agents to perform various tasks. Some people are…

medium.com

Structuring Proteomics Data from Multiple Lab Vendors in Cloud Data Warehouses

When dealing with genomics and transcriptomics data, the bioinformatics community has mostly settled on a few file formats (e.g., BAM, VCF…

medium.com

Building Data-Heavy Bioinformatics APIs using Serverless Azure Functions and Cosmos DB

I’ve been using Azure Functions and Cosmos DB for years across various clients and use cases. However, it was only recently that I…

medium.com

peleke-1: A Suite of Protein Language Models Fine-Tuned for Targeted Antibody Sequence Generation

The discovery of therapeutic antibodies is a traditionally arduous process. Today, the lab-based process of antibody discovery consists of several time-consuming steps that involve live animal immuniz...

biorxiv.org

Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability

YouTube video by Boston Protein Design and Modeling Club

youtu.be

5 Tips for Fine-Tuning Protein Language Models (PLMs) on Azure Machine Learning

Protein Language Models (PLMs) are ramping up as the next frontier in AI-assisted drug design. We have seen the utility of models like…

blog.colbyford.com

New research shows how bird flu is evolving

It is evolving and researchers at UNC Charlotte have discovered that could be a problem

wbtv.com

H5N1 Adapts for a Human Host

YouTube video by UNC Charlotte

youtu.be

AI-Based Antibody Design Targeting Recent H5N1 Avian Influenza Strains

In 2025 alone, H5N1 avian influenza is responsible for thousands of infections across various animal species, including avian and mammalian livestock such as chickens and cows, and poses a threat to h...

biorxiv.org

Comprehensive guide for epigenetics and transcriptomics data quality control

Host response to environmental exposures such as pathogens and chemicals can include modifications to the epigenome and transcriptome. Improved signat…

sciencedirect.com

Human cytokine and coronavirus nucleocapsid protein interactivity using large-scale virtual screens

Understanding the interactions between SARS-CoV-2 and the human immune system is paramount to the characterization of novel variants as the virus co-evolves with the human host. In this study, we empl...

frontiersin.org

CAGI, the Critical Assessment of Genome Interpretation, establishes progress and prospects for computational genetic variant interpretation methods - Genome Biology

Background The Critical Assessment of Genome Interpretation (CAGI) aims to advance the state-of-the-art for computational prediction of genetic variant impact, particularly where relevant to disease. ...

genomebiology.biomedcentral.com

PD-1 Targeted Antibody Discovery Using AI Protein Diffusion

bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution

biorxiv.org

Exploring AI-Based Protein Sequence Generation with EvoDiff from Microsoft Research

EvoDiff is a new, state-of-the-art protein sequence generation system from Microsoft Research. How well does it work?

colbyford.medium.com