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  1. proslijedio/la je Tweet
    2. velj

    I thought it could be helpful to have a thread on ANOVA in R. As a statistical consultant, this is the most frequent FAQ I get from clients - how to run a linear model on their data, conduct hypothesis tests, extract predicted means and perform contrasts.

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  2. proslijedio/la je Tweet

    . from the U of MN gives us a briefing on his checkoff-funded research to improve detection of brown stem rot and sudden death syndrome using high-throughout phenotyping.

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  3. proslijedio/la je Tweet
    23. sij

    Thank you to board member Kenneth Hartman for making the drive up from to attend the MCGA Annual Meeting with fellow Corn Board members, and Tom Haag. Always a great opportunity to unite grower leaders from across the nation.

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  4. proslijedio/la je Tweet
    17. sij

    Just interviewed and on their SV review paper (for my blog) but we covered so much more ground incl. history of SV, tool dev, postdoc, population scaling...AHHHH why do I have more meetings today I just want to write NOW 😭

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  5. proslijedio/la je Tweet
    16. sij

    New Fungal Biologist/Plant Pathologist position in the Dept. of Plant Pathology at the University of Minnesota has just been posted: - This is an exciting new position to study soil-borne fungal plant pathogens in an extraordinary department!

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  6. proslijedio/la je Tweet
    16. sij

    Pretty amazing result from the Dawe Lab and we enjoyed collaborating...telomere to telomere with no gaps for two chromosomes and 7/10 functional centromeres traversed without gaps. We also now know the structure of the Ab10 haplotype.

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  7. proslijedio/la je Tweet
    16. sij

    Merging two independent assemblies (one from PacBio and another Nanopore), guided by Bionano maps, yielded a dramatically improved assembly of an inbred carrying maize Abnormal chromosome 10. The contig N50 is 162 Mb, with two fully gapless chromosomes.

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  8. proslijedio/la je Tweet
    15. sij
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  9. proslijedio/la je Tweet
    14. sij

    Final message from Kevin Fengler on tackling large plant genomes: don’t be afraid, HiFi has your back.

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  10. proslijedio/la je Tweet
    14. sij

    30x of long reads with N50 > 20kb is enough to capture the gene and TE space! More and longer reads are needed for telomeres, centromeres, and knobs.

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  11. proslijedio/la je Tweet
    14. sij

    Shout out to lab mate for a great talk on benchmarking assembly methods: how much data do you really need to get quality gene/repeat space assembly?

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  12. proslijedio/la je Tweet
    14. sij

    session: Doreen Ware on , one reference genome is not enough! Assembly has become lot easier over time, but annotation is still very hard. Evidence-based annotations released for NAMs have gone extensive vetting and is still a work in progress.

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  13. proslijedio/la je Tweet
    14. sij

    Samantha Snodgrass tests the complementation in maize heterosis with focus on PAV, SNPs, and regulatory elements. Tropical x tropical hybrids had higher heterosis than tropical x temperate, which is odd due to the lack of a complementary daylight insensitivity allele.

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  14. proslijedio/la je Tweet
    14. sij

    I don't think Yongfu's sorghum pangenome assemblies/analysis are published yet, but references his recent Molecular Plant paper on how to employ pangenome data for plant breeding/improvement.

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  15. proslijedio/la je Tweet
    14. sij

    Yongfu Tao: independent genome assemblies for 13 sorghum lines, including wild relative. Divides pan-genome into core (always present), cloud (observed only once), and shell (everything else) for downstream analyses. Smart classification scheme!

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  16. proslijedio/la je Tweet
    14. sij

    session: talks about ways to uncover novel variation in maize. provide tremendous diversity within maize lineage, but additional variation can be harnessed from diverse species of Andropogoneae () clade, for crop improvement!

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  17. proslijedio/la je Tweet
    14. sij

    Ok, Kevin Fengler in the session has me convinced to make the switch to HiFi data for future assemblies. More accurate than corrected CLR data and read length has really improved!

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  18. proslijedio/la je Tweet
    11. sij

    Kelly Dawe now speaking about chromosome level assemblies of 25 maize lines (all at once with the same tech and code). Comparative genomics approaches and questions we’d normally use BETWEEN species. Maize session at

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  19. proslijedio/la je Tweet
    11. sij

    session presenting high-quality study! He talked about evidence-based gene prediction, genome fractionation, pangenome analyses, SV analyses, GWAS using SV’s and more! And bonus, Ab10 genome as well! All genomes public at !

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