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Title: "Is it time for directional evolution models to be the new standard?"
Title: "Database management in Ruby on Rails"
Leuenberger et al. (2017) Cell-wide analysis of protein thermal unfolding reveals determinants of thermostability. Science 355:eaai7825 - http://science.sciencemag.org/content/355/6327/eaai7825.full
Trible et al. (2017) orco mutagenesis causes loss of antennal lobe glomeruli and impaired social behavior in ants. Cell 170:727-735 - https://www.ncbi.nlm.nih.gov/pubmed/28802042
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Title: "Insect receptor gene prediction with GeMoMa - Benchmarking a novel annotation tool"
Rodrigo & Fares (2017) Intrinsic adaptive value and early fate of gene duplication revealed by a bottom-up approach Elife 7:e29739 - https://doi.org/10.7554/eLife.29739
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Steindel et al. (2017) Gradual neofunctionalization in the convergent evolution of trichomonad lactate and malate dehydrogenases. Protein Science 25:1319-31 - https://www.ncbi.nlm.nih.gov/pubmed/26889885
Title: "The genomics of nestmate recognition in a slavemaker ant and its ant host"
Title: "Methylation in hemimetabolous insects: A comparison of different species"
Lan et al. (2016) Coregulation of tandem duplicate genes slows evolution of subfunctionalization in mammals. Science 352:1009-1013 - https://www.ncbi.nlm.nih.gov/pubmed/27199432
Title: 'Evolution of new genes in primates'
Title: "Evolution-Inspired Protein Engineering and Design: Learning from the Evolutionary History of Enzymes on the example of Haloalkane Dehalogenases"
Title: "Molecular evolution of ionontropic receptors in Blattodea"
Title: "The genomics of nestmate recognitions of slavemaker ants and their hosts - Initial results for Temnothorax longispinosus and Cardiocondyla obscurior"
Kalyaanamoorthy et. al. (2017) ModelFinder: fast model selection for accurate phylogenetic estimates Nature methods - https://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.4285.html
Title: "Molecular evolution of Ionotropic Receptors in Blattodea"
Zhou & Zhang (2017) Gene Tree Discordance Does Not Explain Away the Temporal Decline of Convergence in Mammalian Protein Sequence Evolution. Mol. Biol. Evol. msx109 - https://academic.oup.com/mbe/article/doi/10.1093/molbev/msx109/3098657/Gene-Tree-Discordance-Does-Not-Explain-Away-the
Title: Understanding the mechanisms of de novo gene evolution using transcriptomics and ribosome profiling data
Title: "Expression and purification of possible mouse de novo genes"
Title: "Translational readthrough in Saccaromyces cerivisiae"
Chakrabortee et al. (2016) Intrinsically disordered proteins drive emergence and inheritance of biological traits. Cell 167:369-381.e12 - http://www.cell.com/cell/abstract/S0092-8674(16)31250-8
Onno et al. (2017) Widespread Genetic Incompatibilities between First-Step Mutations during Parallel Adaptation of Saccharomyces cerevisiae to a Common Environment. PLoS Biology 15:e1002591 - http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.1002591
Blevins et al. (2017) Hybrid incompatibility caused by an epiallele. PNAS - http://www.pnas.org/content/early/2017/03/06/1700368114.abstract
Topic: Osiris gene cluster
Prieto-Godino et al. (2016) Olfactory receptor pseudo-pseudogenes. Nature 539:93–97 - https://www.ncbi.nlm.nih.gov/pubmed/27776356
Title: Dynamics of Gene Families Implicated in the Evolution of Termite Eusociality
Hurley & Dunlap (2013) A fable of too much too fast. Nature 495
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Title: "A program for detection and location determination of conserved eucaryotic domains - a pilot study"
Title: "De Novo genes in the Drosophila clades"
New & Lehner (2015) Systems biology: Network evolution hinges on history. Nature 523:297-298 - http://www.ncbi.nlm.nih.gov/pubmed/26153857 *
Gumulya & Gillam (2017) Exploring the past and the future of protein evolution with ancestral sequence reconstruction: the 'retro' approach to protein engineering. Biochem J. 474, 1-19 - http://www.biochemj.org/content/474/1/1.long
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Steinberg & Ostermeier (2016) Shifting Fitness and Epistatic Landscapes Reflect Trade-offs along an Evolutionary Pathway. J Mol Biol 428:2730-2743 - https://www.ncbi.nlm.nih.gov/pubmed/27173379
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Title: "Insect genes & DomainWorld"
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Title: "Positive selection within proteins related to chemoperception in termites or
Searching for the needle in the haystack"
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Ahrens et al. (2016) The Nuanced Interplay of Intrinsic Disorder and Other Structural Properties Driving Protein Evolution. Mol Biol Evol 33:2248-2256 - http://mbe.oxfordjournals.org/content/33/9/2248.abstract
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Title: "Analysis of Gene Expression Dynamics during Murine Retinal Angiogenesis"
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Title: "Protein multifunctionality: Analysis of transcription factor binding"
Title: "Evolution of Enzyme Specificity in the Alkaline Phosphatase Superfamily"
Topic: "Neutral networks"
Title: "Dehalogenase Evolution"
Title: "Enabling Comparative Genomics within Blattodea"
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Title: "De Novo Gene Evolution: Methodological Challenges and Open Questions"
Title: "Curious case of Blattella gene count inflation - symptoms and remedies"
Title "Automated Improving of DomainANnotation (AIDAN)"
"Analysis and improvement of partial/split domains"
"Evolution of enzyme specificity in the alkaline phosphatase superfamily"
Title: "DomRates - a DomainWorld program"
"Evolutionary analyses of long non-coding RNAs in insects"
"Analysis and improvement of partial/split domains: Overview"
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Title: "Properties of putative bacterial <i>de novo</i> proteins"
Title: "The effect of selection pressure on secondary activities"
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The industrial melanism mutation in British peppered moths is a transposable element - van’t Hof et al. 2016 Nature - http://www.nature.com/nature/journal/v534/n7605/full/nature17951.html
Title: "Domain world"
Title: "Comparative Genomics to Investigate Longevity in Social Insects"
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Evolution of DNA Specificity in a Transcription Factor Family Produced a New Gene Regulatory Module
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N.B. This talk will be on Wednesday!
This talk will now take place in the lecture hall.