Publications From Our
Our full-time bioinformaticians understand the challenges faced by bench biologists and enjoy using their expertise to help others. Some of their published scientific contributions are listed below. Our full-timers comprise only a small part of our team, which is augmented by similarly qualified bioinformaticians who greatly expand the topics we cover.
Genome-wide changes in lncRNA, alternative splicing, and regional gene expression patterns in autism
Neelroop N Parikshak*, Vivek Swarup*, T Grant Belgard*, Manuel Irimia, et al. Nature (2016).
CSN and CAVA: variant annotation tools for rapid, robust next-generation sequencing analysis in the clinical setting
A Transcriptomic Atlas of Mouse Neocortical Layers
T Grant Belgard, Ana C Marques, Peter L Oliver, Hatice Ozel Abaan, Tamara M Sirey, Anna Hoerder-Suabedissen, et al. Neuron (2011).
Genome-wide, integrative analysis implicates microRNA dysregulation in autism spectrum disorder
Ye E Wu, Neelroop N Parikshak, T Grant Belgard, Daniel H Geschwind. Nature Neuroscience (2016).
Correspondence between resting state activity and brain gene expression
Retooling spare parts: gene duplication and cognition
Transcriptional Profiling of Layers of the Primate Cerebral Cortex
Zoltán Molnár* and T Grant Belgard*. Neuron (2012).
Molecularly distinct astrocyte subpopulations spatially pattern the adult mouse brain
Mouse genomic variation and its effect on phenotypes and gene regulation
Thomas M Keane, Leo Goodstadt, Petr Danecek, Michael A White, Kim Wong, Binnaz Yalcin, Andreas Heger, Avigail Agam, Guy Slater, Martin Goodson, Nicholas A Furlotte, Eleazar Eskin, Christoffer Nellåker, Helen Whitley, James Cleak, Deborah Janowitz, Polinka Hernandez-Pliego, Andrew Edwards, T Grant Belgard, et al. Nature (2011).
Adult pallium transcriptomes surprise in not reflecting predicted homologies across diverse chicken and mouse pallial sectors
T Grant Belgard*, Juan F Montiel, Wei Zhi Wang, Fernando Garcia-Moreno, Elliott H Margulies, Chris P Ponting*, Zoltán Molnár*. Proceedings of the National Academy of Sciences of the United States of America (2013). (free PDF)
The role of flexibility and conformational selection in the binding promiscuity of PDZ domains
Dynamics based alignment of proteins: an alternative approach to quantify dynamic similarity
JGromacs: a Java package for analyzing protein simulations
Population structure confounds autism genetic classifier
T Grant Belgard, Ivana Jankovic, Jennifer K Lowe, Daniel H Geschwind. Molecular Psychiatry (2013).
Analysis of B cell repertoire dynamics following hepatitis B vaccination in humans, and enrichment of vaccine- specific antibody sequences
In-depth assessment of within-individual and inter-individual variation in the B cell receptor repertoire
Significant transcriptional changes in 15q duplication but not Angelman syndrome deletion stem cell-derived neurons
Nora Urraca, Kevin Hope, A Kaitlyn Victor, T Grant Belgard, Rawaha Memon, Sarita Goorha, Colleen Valdez, Quynh T Tran, Silvia Sanchez, Juanma Ramirez, Martin Donaldson, Dave Bridges, Lawrence T Reiter. Molecular Autism (2018).
An Immunoaffinity-Based Method for Isolating Ultrapure Adult Astrocytes Based on ATP1B2 Targetting by the ACSA-2 Antibody
Mykhailo Y. Batiuk, Filip de Vin, Sandra I. Duqué, Chen Li, Takashi Saito, Takaomi Saido, Mark Fiers, T. Grant Belgard, Matthew G. Holt. The Journal of Biological Chemistry (2017).
Elevated gene expression of most microglial markers, and reduced expression of most pyramidal neuron and interneuron markers, in postmortem autism cortex
Rebeca Borges-Monroy, Chris Ponting*, T Grant Belgard*. bioRxiv preprint (2015).
The Quality Sequencing Minimum (QSM): providing comprehensive, consistent, transparent next generation sequencing data quality assurance
OpEx – a validated, automated pipeline optimised for clinical exome sequence analysis
The ICR1000 UK exome series: a resource of gene variation in an outbred population
Histone Acetylome-wide Association Study of Autism Spectrum Disorder
Wenjie Sun, Jeremie Poschmann, Ricardo Cruz-Herrera del Rosario, Neelroop N Parikshak, Hajira Shreen Hajan, Vibhor Kumar, Ramalakshmi Ramaswamy, T Grant Belgard, et al. Cell (2016).
Water-Phase Synthesis of Cationic Silica/Polyamine Nanoparticles
Quang X Nguyen, T Grant Belgard, John J Taylor, Vinit S Murthy, Naomi J Halas, Michael S Wong. Chemistry of Materials (2012).
Plasma cell antibody repertoire analysis following administration of meningococcal polysaccharide and protein-polysaccharide conjugate vaccines: evidence of distinct patterns of B cell activation
Endothelium-derived extracellular vesicles promote splenic monocyte mobilisation in myocardial infarction
Naveed Akbar, Janet Digby, Thomas J Cahill, Abhijeet N Tavare, Alastair L Corbin, Sushant Saluja, Sam Dawkins, Laurienne Edgar, Nadiia Rawlings, Klemen Ziberna, Eileen McNeill, Oxford Acute Myocardial Infarction (OxAMI) Study, Errin Johnson, Alaa A Aljabali, Rebecca A Dragovic, Mala Rohling, T Grant Belgard, et al. JCI Insight (2017).
Expression profiling of mouse subplate reveals a dynamic gene network and disease association with autism and schizophrenia
Anna Hoerder-Suabedissen, Franziska M Oeschger, Michelle L Krishnan, T Grant Belgard, et al. Proceedings of the National Academy of Sciences of the United States of America (2013).
The genomic landscape shaped by selection on transposable elements across 18 mouse strains
Christoffer Nellaker, Thomas M Keane, Binnaz Yalcin, Kim Wong, Avigail Agam, T Grant Belgard, Jonathan Flint, David J Adams, Wayne N Frankel, Chris P Ponting. Genome Biology (2012).