#sfaf2018: Become Trend on twitter at (2018-05-23 22:09)


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Popular tweets tagged with #sfaf2018:
#sfaf2018 Zev Kronenberg @zevkronenberg๐Ÿ”Meow wolf! #SFAF2018
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Sandra Porter @digitalbio๐Ÿ”Dr. Jeanne Fair - Vulture populations around the world are decreasing drastically.

Half of California condors die twitter.com from lead toxicity


Sandra Porter @digitalbio๐Ÿ”JF - vultures have 500 OTUs on their face. Lots of bacteria from carcasses. #SFAF2018
#sfaf2018 Ivan Liachko @ivanliachko๐Ÿ” Meow wolf! #SFAF2018
Shaun Jackman @sjackman๐Ÿ”Slides for my presentation of FALCON-Phase at are up! Download here: pb-falcon.readthedocs.io
Todd Smith @finchtalk๐Ÿ”AL CAB also works on immunoinformatics, tools for error correction, and many other tools. And a bunch of cousersa, twitter.com open edu platform and spartek(?)
Todd Smith @finchtalk๐Ÿ”AL discusses software for antibiotic discovery, uses metabologenomics, combine sequences and proteomics. Shows a pa twitter.com per with a colleague from way way back in grad school, Brad Moore, how cool
Todd Smith @finchtalk๐Ÿ”Alla Lapidus, St. Petersburg State University, on the center for algorithmic biotechnology - starts with how SPAdes twitter.com citations continue to grow. Also have QUAST for assessing assemblies
Brandi Cantarel @bcantarel๐Ÿ”A very informative talk about the cause of errors in nanopore sequencing and how they can be corrected! Methylation i twitter.com s a wildcard...
Sarah Kingan @drsarahdoom๐Ÿ”Slides for my presentation of FALCON-Phase at #SFAF2018 are up! Download here: pb-falcon.readthedocs.io @zevkronenberg @PacBio @PhaseGenomics
Todd Smith @finchtalk๐Ÿ”SL then moves in to issues with indexing and short read assemblies.

IMO the realty here, many would argue, that doi twitter.com ng short read assemblies, with cost being the sole driver, is you get what you pay for. Theyโ€™re still inaccurate and will be weak references.


Todd Smith @finchtalk๐Ÿ”SL #sfaf2018 dual indexing reduces the issues dramatically, dual unique indexing reduces issues as the square of the contamination.
Todd Smith @finchtalk๐Ÿ”SL hopping is not the issue alone, tech issues with kits, oligo issues with purity, sample issues with contamination twitter.com , as we get deeper and deeper resolutions we see more issues. Today they can easily run at 5%
Todd Smith @finchtalk๐Ÿ”SL read length has remained flat, but throughout has increased massively, which is driving the need to also increase twitter.com multiplexing. If you want $9/Gb you need to fill your lanes. While indexing is powerful, it has its caveats, index hopping, misalignments ...
Todd Smith @finchtalk๐Ÿ”Shawn Levy, Hudson Alpha, on indexes and sequencing and some of the challenges that lurk under the hood Now doing 70 twitter.com ,000 genomes per year. Thatโ€™s 1500-2000 genomes per month, with a similar number of RNA-Seqs
Sandra Porter @digitalbio๐Ÿ”EP great presentation and story on unraveling the genetic architecture of Mendelian diseases in general, and the eye in particular because eye tissue is particularly amenable to gene therapy.
Todd Smith @finchtalk๐Ÿ”EP great presentation and story on unraveling the genetic architecture of Mendelian diseases in general, and the ey twitter.com e in particular because eye tissue is particularly amenable to gene therapy.
Todd Smith @finchtalk๐Ÿ”EP describes how they hit the wall when they needed to get better tissue sources for RNA-Seq; cannot biopsy the eye. twitter.com iPSC organiods, however, can be develope that closely approximate eye tissue.
Todd Smith @finchtalk๐Ÿ”EP turns to need for good functional tests for vision to test vision interfering disease genes. Zebra fish provide a twitter.com model system for study. Why needed? 31% of the disease associated variants are non-coding.
Todd Smith @finchtalk๐Ÿ”EP RPE65 gene therapy trial had a novel endpoint, which was to measure how well patients perform on a maze in differ twitter.com ent light conditions. The RPE65 mutation results in blindness, but the progression begins with night blindness.
Todd Smith @finchtalk๐Ÿ”EP #sfaf2018 showing how gene therapies can be introduced, just inject in the eye. Always love seeing a schematic of a needle in the eye.
Todd Smith @finchtalk๐Ÿ”Day 3 kicks off with Eric Pierce from Mass. Eye and Ear Infirmary on genetic causes of inherited retinal degenerati twitter.com ons - theyโ€™re a big deal, 1:1000-1:3500 incidence of blindness, 260 genes thus far, and gene-based treatments are promising.
Todd Smith @finchtalk๐Ÿ” is doing really incredible things with a MinION! Rapid human ID without PCR, in minutes, via "MinION sketching".

Dave @DaveYarmosh๐Ÿ”#SFAF2018 Talking later today - 2:20 or so
John R. McQuiston @McZje8๐Ÿ” Christopher Gulvik from CDC on MicrobeNet #sfaf2018 - CDCs reference library of microbes involved in human health
Emily Hatas @EmilyHatas๐Ÿ”Kevin Fengler on assembles in crop genomes - going beyond platinum - global is the new targeted. Whole genome is becoming the fastest starting point. Pan genomes are the new reality.
Bryce Olson @bryceolson๐Ÿ” My conclusion from Mardisโ€™ talk - all cancer genomes should be sequenced #SFAF2018
Duncan MacCannell @dmaccannell๐Ÿ”Torn between #SFAF2018 and #nanoporeconf FOMO.
Taco Jesse @TJesse62๐Ÿ” KF: Using and seeing things we have never seen before. Maize chromosomes into single scaffolds.
MB @MarkBorodkin๐Ÿ” KF: reveals the messy reality of plant genomes. Thought they had inbred homozygous lines. Turns out more heterozygosity is present and elucidated through these two technologies
Shawn Sullivan @shawntsullivan๐Ÿ”Sarah Kingan, PacBio, on falcon-phase an integration of Hi-C data from with PacBio data. Solves the problem of diploid genomes with pockets of heterozygosity to get to phased haplotypes instead of collapsed contigs
Shawn Sullivan @shawntsullivan๐Ÿ” Falcon Phase tool is open sourced and offered as a service through using data
ใ‚„ใพใใกใ ใ„ใ™ใ‘ @yamagu09๐Ÿ” #SFAF2018 ST: 10Plex Microbial genomes ~$120 USD 52% decrease in cost.
16 plex under $100 per microbe. @PacBio
ใ‚„ใพใใกใ ใ„ใ™ใ‘ @yamagu09๐Ÿ” #SFAF2018 ST: Microbial Multiplexing for @PacBio is now available for the Sequel system.
Joe Russell @waywardsyintist๐Ÿ” is doing really incredible things with a MinION! Rapid human ID without PCR, in minutes, via "MinION sketching". twitter.com

Genomics Edtech @DNAed_tech๐Ÿ”The greatest ape, will be presenting his postdoc work on great ape with at 10:50.
Andy Larrea @AndyLarrea๐Ÿ” Falcon Phase can be ran on your laptop. plus HiC is all you need to produce phased gapless assemblies.
Dominika Borek @dmborek๐Ÿ”NG discusses terpenes, and cellulases in butterflies - reminds me that insects are an important source of natural products, and commercial enzymes. And to think folks like pick on butterfly collectors.
Dominika Borek @dmborek๐Ÿ”NG points out the strengths and limitation of COI based barcoding - 674 bases simply cannot discriminate species at levels like genome sequences. Also, the old time taxonomists were pretty good.
Dominika Borek @dmborek๐Ÿ”Nick Grisham on butterflies - nice history and future of science, from descriptive, to molecular to how molecules work, to how do molecules work to make cells, to how do molecules work to make organisms. Current approach, catch it, crunch it, and put it in a sequencer.
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Dominika Borek @dmborek๐Ÿ”From cancer to speciation, Jing Zhang from UT Southwestern shares the wows and woes of speciation genomics in butterflies - used genomic analysis to settle the debate that a new species can arise via hybridization
Matthew Seetin @mseetin๐Ÿ” Falcon unzip phase blocks are small. Haplotype switching is problematic. HiC has long range phase info.
Matthew Seetin @mseetin๐Ÿ” #SFAF2018 ST: @PacBio seeing QV 40 at 25 fold coverage. QV 50 at 50X. Unbiased error and High consensus accuracy.
Matthew Seetin @mseetin๐Ÿ” #SFAF2018 @drsarahdoom Falcon Phase outputting chromsome scale phased diploid assembly. @PacBio
Kevin Libuit @kevinlibuit๐Ÿ”Was looking forward to hearing about Shovill at #SFAF2018. Hope everything is alright with @torstenseemann
Todd Smith @finchtalk๐Ÿ”Joann Mudge, NCGR, on eukaryotic pangenomics, shares tools on working with genomes in pangenomic space - big problem twitter.com in pangenomics is searching / analyzing the data as a whole rather than a collection of individuals
Amaryllis Nucleics @AmaryllisNuc๐Ÿ”Stop by our poster (#185) or find at to learn more about our breath capture chemistry and how it stacks up agains twitter.com t (spoiler: we win!)
Matthew Seetin @mseetin๐Ÿ” RW: results sequenced well. Need to shear DNA down to 8kb-10Kb to get optimal MinION loading. Longer reads are attainable at a cost of number of reads.
Matthew Seetin @mseetin๐Ÿ” KF: Illumina polishing causing resolved issues in and assemblies to be removed. Be wary of too much short read polishing.
Shawn Sullivan @shawntsullivan๐Ÿ” #SFAF2018: @drsarahdoom presenting on Falcon Phase for @PacBio sequencing.

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