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Article
| Open Access
Genome-wide fine-mapping identifies pleiotropic and functional variants that predict many traits across global cattle populations
Genomic prediction of phenotype may be improved by using DNA mutations with functional, evolutionary, and pleiotropic consequences. Here the authors describe a method for genome-wide fine-mapping of QTLs and develop a genotyping array for improved prediction of genetic values for cattle traits.
- Ruidong Xiang
- , Iona M. MacLeod
- & Michael E. Goddard
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Article
| Open Access
Common diseases alter the physiological age-related blood microRNA profile
Aging is a key risk factor for chronic diseases of the elderly. Here the authors perform large-scale miRNA profiling of blood from individuals of a range of ages and show that common diseases alter the physiological age-related blood microRNA profile.
- Tobias Fehlmann
- , Benoit Lehallier
- & Andreas Keller
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Article
| Open Access
A cell-type deconvolution meta-analysis of whole blood EWAS reveals lineage-specific smoking-associated DNA methylation changes
Smoking-associated DNA methylation changes in whole blood have been reported by many EWAS. Here, the authors use a cell-type deconvolution algorithm to identify cell-type specific DNA methylation signals in seven EWAS, identifying lineage-specific smoking-associated DNA methylation changes.
- Chenglong You
- , Sijie Wu
- & Andrew E. Teschendorff
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Article
| Open Access
Multi-site clonality analysis uncovers pervasive heterogeneity across melanoma metastases
Metastatic melanoma is associated with a poor prognosis and understanding the genetic features of metastases may enable better treatment strategies. Here, the authors analyse multiple metastases from individual patients finding high levels of heterogeneity in metastases from different organs.
- Roy Rabbie
- , Naser Ansari-Pour
- & David J. Adams
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Article
| Open Access
Comprehensive human cell-type methylation atlas reveals origins of circulating cell-free DNA in health and disease
The methylation status of circulating cell-free DNA (cfDNA) can be informative about recent cell death events. Here the authors present an approach to determine the tissue origins of cfDNA, using a reference methylation atlas of 25 human tissues and cell types, and find that cfDNA from patients reveals tissue contributions that agree with clinical findings.
- Joshua Moss
- , Judith Magenheim
- & Yuval Dor
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Article
| Open Access
Stromal and epithelial transcriptional map of initiation progression and metastatic potential of human prostate cancer
Stromal cells contribute to tumor development but the mechanisms regulating this process are still unclear. Here the authors analyze gene expression profiles in the prostate and show that stromal gene signature changes ahead of the epithelial gene signature as prostate cancer initiates and progresses.
- Svitlana Tyekucheva
- , Michaela Bowden
- & Massimo Loda
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Synapse microarray identification of small molecules that enhance synaptogenesis
Large scale synapse assays can facilitate identification of drug leads. Shiet al. develop a 'synapse microarray' technology that enables sensitive, high-throughput, quantitative screening of synaptogenic events, and use it to identify novel histone deacetylase inhibitors that enhance synaptogenesis.
- Peng Shi
- , Mark A. Scott
- & Mehmet Fatih Yanik
Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling