The Pollock laboratory at the University of Colorado School of Medicine

thelab
 

New updates on schistosome research! Schistosome Genomics.


Preprint (final in review) on Schistosoma japonicom population genomics with Jonathan Shortt, Laura Timm et al. "Population genomic analyses..."
Paper on schistosome shotgun sequencing with Zachary Kokolakis et al., provisionally accepted in PLOS Neglected Tropical Diseases "Patterns of relatedness and genetic diversity infferred from whole genome sequencing of archival blood fluke miracidia (Schistosoma japonicum)"
Paper on organ-specific propensity for gene expression evolution with Kenji Fukushima "Amalgamated cross-species transcriptomes..."
Paper about SARS-CoV-2, CpG deficiency and dogs with Todd Castoe et al "Viral Cpg deficiency provides no evidence..."
Paper on finding older simple sequence repeats (microsatellites) with Jonathan Shortt et al. "Finding and extending ancient simple sequence repeat..."
Paper on PRDM9 and gene conversion in gorillas with Aaron Wacholder "PRDM9 and an epidemic of gene conversion..."
A cool coevolution story on Biliverdin molecular dynamics with Paukovich, Eisenmesser et al "Biliverdin reductase B dynamics..."
Research topics include: Protein sequence, structure, and functional evolution; Evolutionary genomics; Adaptive coevolution and ancestral reconstruction; Evolution of mitochondrial genomes; Evolutionary theory; Testing evolutionary predictions through mutagenesis and directed evolution.

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Course

The Genomics course was taught through Spring 2016. A course in Advanced Scientific Programming taught Spring 2017. Evolutionary Genomics taught Fall 2016-2020 and ongoing. Lectures in Computational Biology core.

Blogging

See our guest blog post on "Adaptation and Convergence in Regulatory Systems" at phylogenomics blog "This Tree of Life"

Meeting

The third SMBE Satellite meeting/workshop on Mechanisms of Protein Evolution (MPEIII:Origins) was held in Denver, November 8-10, 2015. Organizers: David Pollock, Richard Goldstein, and Belinda Chang.


The fourth meeting on Mechanisms of Protein Evolution was planned for 2020 but is postponed indefinitely because of covid

Jobs

We are always looking for multiple talented evolutionary biologists with a mixture of training in evolutionary, mathematical, computational, and molecular laboratory techniques. please contact David Pollock well in advance to arrange funding.

Changes

Laura Timm is leaving for a nice job in early 2021! Congratulations!

The last version of PLEX (0.95) is up, along with a new extended user manual.

Uploaded Saturate code, but use at your own risk. Please let me know if you get it to work.

We've aborted the laboratory blog. May try again when we move to a better web service or move onto www.proteinevolution.org.

Programs

Updating programs: PLEX, PCLOUDS, CodeMLAncestral, TFCoEvolve, SULDEX

Other

"I would describe...how passionately, how incandescently, how incestuously...art and science meet in an insect" Nabokov (now vindicated)

The Genome 10K project is moving forward, a project to assemble a collection of DNA sequences representing the genomes of 10,000 vertebrate species. Working towards integrating our work on snake and mammalian genomics.

Snake Genomics web site snake

 

Older news

Further Information

Consortium for Comparative Genomics

NLM Training Grant postdoctoral fellowships are available yearly on a competitive basis to US citizens and naturalized people. See Computational Bioscience Program for more information.

A page containing information or links to all Pollock laboratory Programs for distribution

EGenBio at LSU is down for the duration.

As part of our NLM Training Grant, Short Term Trainee Program (STTP) fellowships are available

The wheel is turning, and you can't slow down

David Pollock David Pollock Todd Castoe

Wanjun Gu

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