The CIGENE journal club reviews and discuss new and old scientific papers within genetics, genomics, comparative omic’s, bioinformatics, and computational biology. Basically all the good stuff. Feel free to get inspired and read small comments on past club-papers.
Paper 4: Will be presented by Jing
Boyle et al., From polygenic to omnigenic (Cell, 2017).
Paper 3:Presented by Simen
Crawford et al. presents a GWAS study of skin pigmentation in 1500 Africans. They find four major regions explaining 30% of the phenotypic variation in skin pigmentation (using the top 8 associated SNPs). The nice thing about this paper is how they then integrate population genomics, extensive functional omics data (RNAseq, ChIPseq, chromatin structure), and functional experimental validation studies to predict causative variation in non-coding regions and shed light on the evolution of skin pigmentation in African (and non African) populations. For example, the results support the idea that the modern human lineage evolved darker pigmentation in Africa several hundred thousands of years ago, and that dark skin colouration in south-east Asian are encoded by the same alleles as exists in Africa populations (and not attributed to convergent evolution).
Paper 2: Presented by Dag Inge
Jachowicz et al. have produced an extremely method dense paper, telling a compelling a story about how TEs are important and integral part of embryonic development in mice (and most likely in other mammals). The authors show how LINE1 expression (retro-transposable elements) play an important role in regulating global chromatin accessibility in the early mouse embryo, from 2 cell stage to blastocyte stage. The results clearly demonstrate the non-junkness of “junk DNA”. Creative molecular biology and omic’s approaches! For example, TALEs for targeted manipulation of global LINE1 expression to evaluate the effects on post-zygotic development.
Paper 1: Presented by Torgeir.
Guschanski et al. (Genome Research. 2017) have made a comprehensive analyses of gene regulatory evolution of mammalian gene duplicates. This is a super interesting read for those of you with an interest in comparative transcriptomics and genome evolution.