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Epigenome-wide analysis in newborn blood spots from monozygotic twins discordant for cerebral palsy reveals consistent regional differences in DNA methylation

BackgroundCerebral palsy (CP) is a clinical description for a group of motor disorders that are heterogeneous with respect to causes, symptoms and severity. A diagnosis of CP cannot usually be made at birth and in some cases may be delayed until 2–3 years of age. This limits opportunities for early intervention that could otherwise improve long-term outcomes. CP has been recorded...

Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data

Due to their relatively low-cost per sample and broad, gene-centric coverage of CpGs across the human genome, Illumina's 450k arrays are widely used in large scale differential methylation studies. However, by their very nature, large studies are particularly susceptible to the effects of unwanted variation. The effects of unwanted variation have been extensively documented in...

SWAN: Subset-quantile Within Array Normalization for Illumina Infinium HumanMethylation450 BeadChips

DNA methylation is the most widely studied epigenetic mark and is known to be essential to normal development and frequently disrupted in disease. The Illumina HumanMethylation450 BeadChip assays the methylation status of CpGs at 485,577 sites across the genome. Here we present Subset-quantile Within Array Normalization (SWAN), a new method that substantially improves the results...

Stability of gene expression and epigenetic profiles highlights the utility of patient-derived paediatric acute lymphoblastic leukaemia xenografts for investigating molecular mechanisms of drug resistance

Nicholas C Wong Vivek A Bhadri 0 Jovana Maksimovic Mandy Parkinson-Bates Jane Ng Jeff M Craig Richard Saffery Richard B Lock 0 0 Children's Cancer Institute Australia for Medical Research, Lowy

Condensin I associates with structural and gene regulatory regions in vertebrate chromosomes

Davidson, Jovana Maksimovic, Alicia Oshlack, Paul Kalitsis & Damien F. HudsonDepartment of Paediatrics, University of Melbourne, Parkville, Melbourne, Victoria 3052, AustraliaJi Hun Kim, Tao Zhang, Alicia ... • Google ScholarSearch for Jovana Maksimovic in:Nature Research journals • PubMed • Google ScholarSearch for Alicia Oshlack in:Nature Research journals • PubMed • Google ScholarSearch for William C. Earnshaw

Conservation of the ST6Gal I gene and its expression in the mammary gland

Milk sialoglycoconjugates can protect the gastrointestinal tract of the suckling neonate by competitively binding to invading pathogens and promoting growth of beneficial flora, and their potential role in postnatal brain development is of particular interest in human infant nutrition. Although the concentration and the distribution of sialoglycoconjugates have been extensively...