Barbara Bo-Ju Shih

Nanopore sequencing identifies a new Tyr::CreERT2 allele circulating in existing mouse stocks

The paper identifies a new Tyr::CreERT2 allele in a mouse stock used for melanoma research through nanopore sequencing and confirms its Mendelian inheritance.

CSF1R-dependent macrophages control B cell development and function in the chicken immune system.

This study identifies CSF1R-dependent macrophage subpopulations in chickens and shows their critical role in B cell development and function.

Characterisation of human hair follicle development

This study characterizes human hair follicle development from gestational weeks 8 to 19, comparing it to mouse development and identifying similarities and differences in molecular markers and morphogenesis.

Age-associated inflammatory monocytes are increased in menopausal females and reversed by Hormone Replacement Therapy

This study shows that older females have more inflammatory monocytes, which is reversed by Hormone Replacement Therapy.

Defining the pig microglial transcriptome reveals their core signature, regional heterogeneity, and similarity with humans

The paper defines the pig microglial transcriptome, identifies a core signature of 365 genes, reveals regional heterogeneity, and shows greater similarity between pig and human microglia than pig and mouse.

Hacking the diversity of SARS-CoV-2 and SARS-like coronaviruses in human, bat and pangolin populations

The paper compares genomic sequences of SARS-CoV-2, bat-CoV, and pangolin-CoV to identify host-associated divergences and high-impact variants.

Graphia: A platform for the graph-based visualisation and analysis of complex data

Graphia is an open-source platform for graph-based analysis of complex biomedical data, offering visualization, transformation, and analysis tools for high-dimensional datasets.

A detailed graphical and computational model of the mammalian renal circadian clock

The paper constructs a computational model of the mammalian renal circadian clock and validates it against experimental data to understand its role in blood pressure regulation.

A core transcriptional signature of human microglia: derivation and utility in describing region-dependent alterations associated with Alzheimer’s disease

The paper defines a core transcriptional signature of human microglia through meta-analysis and shows its utility in identifying region-specific alterations in Alzheimer’s disease.

ImSig: A resource for the identification and quantification of immune signatures in blood and tissue transcriptomics data

ImSig provides immune gene signatures for blood and tissue transcriptomics data to monitor immune phenotypes in clinical samples.

Visualisation and analysis of RNA-Seq assembly graphs

The paper develops a graph-based visualization method for RNA-Seq data to better understand transcript diversity and assembly issues.