Category Archives: Blog

Brief comparison of NGS platforms

Short reads (SBL and SBS types) SBL – Sequencing by ligation type Solid [50-75 bp] (80-320 Gb) BGISEQ [50-100 bp] (8-200 Gb) SBS – Sequencing by synthesis type (CRT Cycle Reversible Termination) Illumina [25-300 bp] (540 Mb – 900 Gb) … Continue reading

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Evolutionary history of the cobalamin-independent methionine synthase gene family across the land plants

Plants are successful paleopolyploids. The wide diversity of land plants is driven strongly by their gene duplicates undergoing distinct evolutionary fates after duplication. We used genomic resources from 35 model plant species to unravel the evolutionary fate of gene copies … Continue reading

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I Curso de Inverno em Bioinformática UNIFESP

The first Winter School of Bioinformatics of Institute of Science and Technology of the Federal University of São Paulo (ICT-Unifesp) will be holden next july 10 to 12. The speakers are linked to the Biocomputational Project – fomented by CAPES … Continue reading

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Applied Computational Genomics Course at UU, Aaron Quinlan

Professor Aaron Quinlan (University of Utah), author of BEDtools (link1, link2), has published his “Applied Computational Genomics Course at UU: Spring 2017”. Highly recommended! https://github.com/quinlan-lab/applied-computational-genomics

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Both mechanism and age of duplications contribute to biased gene retention patterns in plants

In general, transcription factor (GO:003700) paralogs tend to be overrepresented amongst ancient (Ks > 1) duplication regardless of mechanism of duplication. RESEARCH ARTICLE – https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-016-3423-6 – https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5219802/

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Shining the dark matter

Genes are just the infinitesimal part of the story. This is a reasonable conclusion after reading “The dark side of the human genome“. Major part of superior species genomes are composed by ‘non-coding’ DNA – known as dark matter – which … Continue reading

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Neutral Theory: The Null Hypothesis of Molecular Evolution

In the decades since its introduction, the neutral theory of evolution has become central to the study of evolution at the molecular level, in part because it provides a way to make strong predictions that can be tested against actual … Continue reading

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