#AGTA24 is my first @agtaGenomics meeting since #AGTA18
I'm stunned by the amount of presentations that include @nanopore sequencing; from 2-3 talks back then to seemingly every other presentation now

Last announcement in #agta18 : Melbourne will host #agta19 !

GT: while genomes, not 16s, essential to identify new metabolic pathways in parmafrost microbial communities, such as methane consumption and production #agta18

Genome-centric view of carbon processing in thawing perma... Analysis of more than 1,500 microbial genomes sheds light...

Here is Gene Tyson's Nature paper being presented at #agta18

www.nature.com/articles/s41586-018-0338...

Last speaker of #agta18, Gene Tyson from @UQscience talking about microbial dynamics in thawing permafrost.
Check out his lab's suite of metagenomic bioinformatics tools:
http://www.ecogenomic.org/software

Now @_sam_forster_ is talking about exploring the link between gut microbiota and health. "Nowadays, it seems like gut microbes are linked to every possible disease" #agta18

Nice final slide by @AliciaBByrne #agta18

Next up, @AliciaBByrne looking at microbial protagonists in perinatal death #agta18

The dynamics of molecular evolution over 60,000 generatio... Using data from sixty thousand generations of the E. coli...

Michael's Nature paper describing the work presented at #agta18: https://www.nature.com/articles/nature24287

Michael McDonald from @MonashUni presenting some experimental evolution using microbes. WGS time series of 60k generations of E.coli grown in vitro! #agta18

James Paterson from @Flinders talking about the efffect of aquifer contaminantion on bacterial-viral interactions using 16s PCR on a MiSeq and flow cytometry #agta18

Invasive algeas alter local microbiome, opportunistic expansion after an El Nino event caused Sargassum-associated microbes to colonize the area, suspected of preventing kelp re-establishment #agta18

How does climate change impact kelp forrest microbiomes?
Comparing water column and kelp microbiomes. Temperature and co2 alter microbiomes, tenoerature alone causes kelp to decay, but co2 causes kelp to grow #agta18

Time for metagenomics at #agta18. Prof Elizabeth Dinsdale from @SDSU opening the session with some Californian kelp forest. Giant kelp grows 6m a day (!!). Intricate ecosystem: hunting otters caused urchins to thrive and kelp to disappear. What about the microbes?

Michael Roach from the Australian Wine Research Institute talking about the Chardonnay genome.
54 (!!) pacbio RS-II SMRT cells used for assembly. Assembly reveals large stretches of homozygosity, probably due to extensive artificial selection #agta18

@porridgepusher is looking for PhD students that want to work with 'sticky things', i.e. Psyllium mutants #agta18

RB: Polysaccharide mucilage production in Psyllium #agta18

Prof Rachel Burton, head of plant science at University of Adelaide, sequencing and de novo assembly of Psyllium genome, using @PacBio and RNAseq. Another tricky plant to get HMW from #agta18

STR detection is problematic for larger alleles. And I thought methylation bioinformatics tools had the best names #hipSTR #lobSTR #agta18 @hdashnow

STRetch: detecting and discovering pathogenic short tande... Short tandem repeat (STR) expansions have been identified...

Now at #agta18 it's @hdashnow from @MCRI_for_kids talking about #Stretch.ing pathogenic short tandem repeat detection from short read data. See her paper with @AliciaOshlack here: genomebiology.biomedcentral.com/articles/10.1186/s13059-...

Watch out Michael, we're coming for ya! #agta18

Here is the bioinformatics work mentioned by Taru #agta18
https://www.ncbi.nlm.nih.gov/pubmed/25819081/

Landscape of X chromosome inactivation across human tissu... Multiple transcriptome approaches, including single-cell ...

Lovely slides by Taru Tukiainen from @FIMM_UH 🇫🇮
Combining methylation amd RNA seq to deeply characterise X Chromosome Inactivation. 20% of genes escape XCI, why? #agta18

https://www.nature.com/articles/nature24265

Me with the @illumina #Dragen #FPGA: 30m to call variants from a 30x human genome #agta18

#agta18 Chairperson asks first question to @sunnyz_wu: "How far along your PhD are you?"
-"2nd year"
-"You know that you can leave some science for others to do, right?"
Impressive tour de force 👏👏

.@sunnyz_wu now talking about how he is exploring tumour microenvironments using single cell sequencing #agta18

.@sunnyz_wu from @dralexswarbrick lab at @GarvanInstitute @kinghorncancer presenting data from 120,000 tumour cells, @10xgenomics captured, sequenced with @illumina NextSeq500, coloured by patient #agta18

Nic Waddell from @QIMRBerghofer on familial breast cancer genomics #agta18
190 Aussie cancer patients getting recruited for while genome sequencing as an #AGHA flagship

#agta18 lightning poster talk time. Try summarising a PhD in less than 60s. Good job!

KW: @TempusLabs using pathologists to classify histology slides, feeds into deep learning training models, then apply models to new samples. Similar strategy for high-res imaging and clinical transcriptomics data #ai #deeplearning #precisionmedicine #agta18