Mara Lohde

PhD student, nanopore sequencing, nextflow, bioinformatics, outbreak analysis

[Clive G. Brown @The__Taybor]

You can make the same case for economics and many other subjects.

‘Teach all students climate change’

https://t.co/1C8KR2xgJJ

[Mike_Mqt @mult1fractal]

#riseandshine
#NanoporeConf
@gcloudChris
@maralohde
Ready for new knowledge

[Christian Brandt @gcloudChris]

Our case report highlights how rapid @nanopore sequencing helps us out in our Hospital @UKJ_Jena when encountering inconclusive VITEK results. We only needed 7.5 h from the isolate to sequence results using standard kits and sequencing protocols.
https://t.co/eDc6HAR3mO

[Christian Brandt @gcloudChris]

Our research with @nanopore 's adaptive sampling has been published (https://t.co/yCIJSgX44S). 'Human host depletion' in clinical metagenomes resulted in increased total sequencing depth, thus higher taxonomic profiling sensitivity while preserving the microbial composition.

[Mara Lohde @maralohde]

@hin175 @nanopore Thanks! I run it on GridION.

[Mara Lohde @maralohde]

First @Nanopore run with new Q20+ chemistry, R.10.4 flowcell, and ten bacteria isolates from patients had a high throughput (18 Gb)! Looks pretty good. I wonder if one could stop the pore drop after the two days.

[Mara Lohde @maralohde]

@tendersombrero @nanopore I used native DNA with a N50 read length of 14.22 kb.

[Mara Lohde @maralohde]

@Wollenbergus @SamLipworth @ION_BRU @nanopore @DNASense Nice work! I would love to test this. I'm curious if you are willing to share the protocol with me also. You can contact me via [email protected]

[Oxford Nanopore @nanopore]

Relatively low microbial DNA to human host DNA ratio can compromise the resolution of microbiome metagenomic analysis. Marquet & team demonstrate how adaptive sampling can enrich low microbial material, increasing sequencing depth for metagenomic samples: https://t.co/Z56gfkbkKu