@MilesDaRoberts

he/him | MSU Genomics PhD candidate | Council of Graduate Students | Currently brainstorming a new term to end with "omics"

 Michigan State
milesroberts-123.github.io
Joined February 2022
  • Tweets103
  • Following503
  • Followers250
4Media
Super exited to share the second chapter of my dissertation with the world! TLDR; when we revisit Lewontin’s Paradox of Variation in plants with k-mers cool things happen (1/19) 🧵👀
bioRxiv Evobio@biorxiv_evobio20 May 2024
Previously unmeasured genetic diversity explains part of Lewontin's paradox in a k-mer-based meta-analysis of 112 plant species biorxiv.org/cgi/content/shor… #biorxiv_evobio
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Nucleotide diversity 🧬 and k-mer-based metrics of genetic diversity across 112 plant 🌱 species, amounting to over 205 terabases of DNA sequencing data from 27,488 individuals academic.oup.com/evlett/adva… #biodiversity #genomics

k-mer-based diversity scales with population size proxies more than nucleotide diversity in a...

Abstract. A key prediction of neutral theory is that the level of genetic diversity in a population should scale with population size. However, as was note

academic.oup.com
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Miles Roberts retweeted
Dan Schrider@SamurSciCop4 Nov 2024
Our paper on using inferred tree sequences for accurate pop gen inference (by training neural nets on tree seqs *inferred* from simulated data) is now published in MBE: academic.oup.com/mbe/advance… Orig rambling thread on preprint below:
Dan Schrider@SamurSciCop22 Feb 2024
Thread about a new preprint from the lab, led by Logan Whitehouse and Dylan Ray, about tree-sequences. The teaser tagline: why use tree sequences for evolutionary inference when you can directly examine population genetic alignments? biorxiv.org/content/10.1101/…

Tree sequences as a general-purpose tool for population genetic inference

As population genetics data increases in size new methods have been developed to store genetic information in efficient ways, such as tree sequences. These data structures are computationally and...

biorxiv.org
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I'm recruiting students / postdocs to join my new lab at the University of Rochester for Fall 2025 onwards! If you're interested in phylogenetic comparative methods, genome evolution, and/or computational biology, please get in touch! More info: mhibbins.github.io/

Hibbins Lab

mhibbins.github.io
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Kara Dobson@karacdobson4 Oct 2024
Breaking my social media hiatus to promote mine and @moriahyoung's new paper!! We look at how warming & herbivory interact to affect multiple plant traits, and we point to the need for more long-term studies that include abiotic and biotic stressors 🌱 esajournals.onlinelibrary.wi…

Plant community responses to the individual and interactive effects of warming and herbivory across...

Anthropogenic climate warming affects plant communities by changing community structure and function. Studies on climate warming have primarily focused on individual effects of warming, but the...

esajournals.onlinelibrary.wiley.com
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Miles Roberts retweeted
Polly Hsu Lab@PollyHsuLab21 Sep 2024
My lab has 2 postdoc positions funded by #NIH and #NSF to study novel ORFs and translational regulation in Arabidopsis and crops. Please retweet. jobs.plantae.org/jobs/205060…
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Check out our new preprint! We show genetic loci assoc. w/adaptation to rust pops, and rethink reciprocal transplants for studying parasite local adaptation. Local adaptation of both plant and pathogen: an arms-race compromise in switchgass rust biorxiv.org/content/10.1101/…

Local adaptation of both plant and pathogen: an arms-race compromise in switchgrass rust

### Competing Interest Statement The authors have declared no competing interest.

biorxiv.org
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🌱 Happy to share one more paper from my time @SchnableLab with the dream collaborative team @szintri & @Rebecca_Roston! Rhythmicity in lipid responses to chilling stress in panicoid grasses & Arabidopsis is now online @JXBot academic.oup.com/jxb/advance… #Plant #StressResilience
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So cool!!! Towards an unbiased characterization of genetic polymorphism biorxiv.org/content/10.1101/…

Towards an unbiased characterization of genetic polymorphism

Our view of genetic polymorphism is shaped by methods that provide a limited and reference-biased picture. Long-read sequencing technologies, which are starting to provide nearly complete genome...

biorxiv.org
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People. There is software to calculate π correctly (including invariant sites). github.com/ksamuk/pixy github.com/RILAB/mop If you insist on using vcftools, please consider this equally accurate but substantial speedup I found online:
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I feel like this thread is getting long, so I'm gonna stop here, but there are lots of details in the preprint. I welcome any feedback people have on this work. I am super excited to have this project released out into the world!😁(18/19)
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If this work interests you, I am looking for post-doctoral opportunities. I'm looking to graduate Spring 2025 and I'm happy to collaborate on writing a postdoctoral fellowship application. You can read the first chapter of my dissertation here: (19/19) doi.org/10.1093/genetics/iya…

Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity...

Abstract. Differential gene expression between environments often underlies phenotypic plasticity. However, environment-specific expression patterns are hy

academic.oup.com
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