Manchester Bioinference

CellTypeAI: Automated cell identification for scRNA-seq using local generative-AI

Sun, 01 Mar 2026 00:00:00 +0000

Integration of unpaired and heterogeneous clinical flow cytometry data

Sun, 01 Mar 2026 00:00:00 +0000

Glucocorticoid-dependence and independence of the circadian liver transcriptome

Sun, 01 Feb 2026 00:00:00 +0000

One-Hot News: Drug Synergy Models Shortcut Molecular Features

Thu, 01 Jan 2026 00:00:00 +0000

Genomic foundation models reveal RNA-binding proteins regulating translation and mRNA degradation during Drosophila development

Mon, 01 Dec 2025 00:00:00 +0000

Decoding the Spatial and Epigenetic Logic of Early Skin Development

Mon, 01 Sep 2025 00:00:00 +0000

From Discovery to Delivery: A Rapid and Targeted Proteomics Workflow for Monitoring Chinese Hamster Ovary Biomanufacturing

Tue, 01 Jul 2025 00:00:00 +0000

Cell–ECM Graphs: A Graph-Based Method for Joint Analysis of Cells and the Extracellular Matrix

Sun, 01 Jun 2025 00:00:00 +0000

Spatial gene regulatory networks driving cell state transitions during human liver disease

Sun, 01 Jun 2025 00:00:00 +0000

Flux Sampling Suggests Metabolic Signatures of High Antibody‐Producing CHO Cells

Tue, 01 Apr 2025 00:00:00 +0000

CellPie : a scalable spatial transcriptomics factor discovery method via joint non-negative matrix factorization

Sat, 01 Mar 2025 00:00:00 +0000

Exploiting the SunTag system to study the developmental regulation of mRNA translation

Sat, 01 Feb 2025 00:00:00 +0000

Multi-omics analysis in primary T cells elucidates mechanisms behind disease-associated genetic loci

Sat, 01 Feb 2025 00:00:00 +0000

Spatially regulated mRNA decay sharpens expression patterns in the Drosophila embryo

Sat, 01 Feb 2025 00:00:00 +0000

Transferability of Single- and Cross-Tissue Transcriptome Imputation Models Across Ancestry Groups

Sat, 01 Feb 2025 00:00:00 +0000

Scalable Multi-Output Gaussian Processes with Stochastic Variational Inference

Wed, 01 Jan 2025 00:00:00 +0000

Extracellular matrix phenotyping by imaging mass cytometry defines distinct cellular matrix environments associated with allergic airway inflammation

Fri, 01 Nov 2024 00:00:00 +0000

From Discovery to Delivery: A Rapid and Targeted Proteomics Workflow for Monitoring Chinese Hamster Ovary Biomanufacturing

Fri, 01 Nov 2024 00:00:00 +0000

GPMelt: A hierarchical Gaussian process framework to explore the dark meltome of thermal proteome profiling experiments

Sun, 01 Sep 2024 00:00:00 +0000

Identification of differences in CD4+ T-cell gene expression between people with asthma and healthy controls

Fri, 01 Dec 2023 00:00:00 +0000

SynBa: improved estimation of drug combination synergies with uncertainty quantification

Thu, 01 Jun 2023 00:00:00 +0000

Modulation of transcription burst amplitude underpins dosage compensation in the Drosophila embryo

Sat, 01 Apr 2023 00:00:00 +0000

Modulation of transcription burst amplitude underpins dosage compensation in the Drosophila embryo

Wed, 01 Feb 2023 00:00:00 +0000

Contact

Mon, 24 Oct 2022 00:00:00 +0000

Team Members

Mon, 24 Oct 2022 00:00:00 +0000

Chronic inflammatory arthritis drives systemic changes in circadian energy metabolism

Sun, 01 May 2022 00:00:00 +0000

Murine AGM single-cell profiling identifies a continuum of hemogenic endothelium differentiation marked by ACE

Sat, 01 Jan 2022 00:00:00 +0000

Sex differences in innate anti-viral immune responses to respiratory viruses and in their clinical outcomes in a birth cohort study

Wed, 01 Dec 2021 00:00:00 +0000

Scalable inference of transcriptional kinetic parameters from MS2 time series data

Mon, 01 Nov 2021 00:00:00 +0000

Chromatin Looping Links Target Genes with Genetic Risk Loci for Dermatological Traits

Sun, 01 Aug 2021 00:00:00 +0000

Non-parametric modelling of temporal and spatial counts data from RNA-seq experiments

Thu, 01 Jul 2021 00:00:00 +0000

Inferring kinetic parameters of oscillatory gene regulation from single cell time series data

Sat, 01 May 2021 00:00:00 +0000

P058 Persistence of neutrophil abnormalities in COVID-19 convalescence

Thu, 01 Apr 2021 00:00:00 +0000

HOX paralogs selectively convert binding of ubiquitous transcription factors into tissue-specific patterns of enhancer activation

Tue, 01 Dec 2020 00:00:00 +0000

A model of k-mer surprisal to quantify local sequence information content surrounding splice regions

Sun, 01 Nov 2020 00:00:00 +0000

Longitudinal immune profiling reveals key myeloid signatures associated with COVID-19

Tue, 01 Sep 2020 00:00:00 +0000

Sex differences in innate anti-viral immune responses to respiratory viruses

Tue, 01 Sep 2020 00:00:00 +0000

Modulation of the Promoter Activation Rate Dictates the Transcriptional Response to Graded BMP Signaling Levels in the Drosophila Embryo

Sat, 01 Aug 2020 00:00:00 +0000

OscoNet: inferring oscillatory gene networks

Sat, 01 Aug 2020 00:00:00 +0000

Using functional genomics to advance the understanding of psoriatic arthritis

Sat, 01 Aug 2020 00:00:00 +0000

Glucocorticoids rapidly inhibit cell migration through a novel, non-transcriptional HDAC6 pathway

Mon, 01 Jun 2020 00:00:00 +0000

Longitudinal immune profiling reveals distinct features of COVID-19 pathogenesis

Mon, 01 Jun 2020 00:00:00 +0000

Uncovering tissue-speciﬁc binding features from diﬀerential deep learning

Wed, 01 Jan 2020 00:00:00 +0000

Modulation of the promoter activation rate dictates the transcriptional response to graded BMP signaling levels in the Drosophila embryo

Fri, 01 Nov 2019 00:00:00 +0000

Modelling gene expression dynamics with Gaussian process inference

Mon, 01 Jul 2019 00:00:00 +0000

About Us

Mon, 01 Jan 0001 00:00:00 +0000

The Manchester Bioinference group develops computational modelling and machine learning approaches to understand the complexity of biological systems. We develop a range of computational methods for probabilistic modelling, multi-modal machine learning and system biology modelling, applied to diverse applications involving spatial and single-cell omics technologies, imaging and longitudinal health data. We collaborate with scientists working on cancer research, industrial biotechnology, developmental biology and immunology. Our research is funded by awards from the UKRI, Wellcome Trust, CRUK and industry partners.

Research Projects

Mon, 01 Jan 0001 00:00:00 +0000

Defining the spatiotemporal gene expression dynamics controlling embryonic patterning Wellcome Trust Discovery Award to Hilary Ashe and Magnus Rattray. Researchers: Logan Brase and William Morgans

MRC Centre of Research Excellence in Exposome Immunology Data Pillar Leadership Team: Magnus Rattray; Researchers: Rufus Daw and Stepan Denisov

AI-hub in Generative Models Generative Biology Theme leads: Magnus Rattray and Jason Hartford; Hub researcher: Yuhan Wang

Preoperative brain irradiation in glioblastoma (POBIG), Medical Research Council (MRC) Awarded to: Gerben Borst, Mudassar Iqbal, James O’Connor and Federico Roncaroli

Unraveling the Molecular Mechanisms driving Endothelial-to-Haematopoietic Transition during Blood Formation, BBSRC (Feb 2026 - Feb 2029) Awarded to: Georges Lacaud, and Mudassar Iqbal

Bridging the Gap: AI-Powered Spatial Tumour Profiling of Glioblastoma from Routine H&E Images, UMRI Pump Priming. Awarded to: Sokratia Georgaka, Hongpeng Zhou, David Jenkins. Researcher: Yusuf Hakan Usta

Multimodal AI for Immunology PDRA Project funded by the MRC Centre of Research Excellence in Exposome Immunology Research Pillar 1 (Data Foundation) Madhvi Menon, Sokratia Georgaka, Calliope Dendrou, Timothy Hinks. Researcher: Qian Zhao

Resources

Mon, 01 Jan 0001 00:00:00 +0000

See the Manchester Bioinference GitHub for software resources