Bede Constantinides

Moved to Bluesky :

[Bede Constantinides @beconsta]

Preprint: How best to remove human reads from microbial FASTQs? Our tool Hostile removed >99.6% of human reads while retaining >99.997% and 100% of simulated reads in bacterial and mycobacterial metagenomes
https://t.co/3GNzCSzGoT

[Bede Constantinides @beconsta]

@microbiome_cosi Hello, are you able to point me to a working download URL for the CAMI 2 "Multisample Benchmark Dataset of Human Microbiome Project"? This page currently returns an error: https://t.co/0GQjNNVuun Thanks!

[Microbiology Society @MicrobioSoc]

Check out our latest blog from Dr. Inês Mendes and Dr. Bryan A. Wee, members of the Public Health Alliance for Genomic Epidemiology @pha4ge . They show how ‘bad data’ can be made more valuable by tagging them with information about their potential issues. https://t.co/vS7G8FZGJO

[Tuuli Lappalainen @tuuliel]

Air purifiers in Finnish daycare reduced children's illnesses by 18% in a carefully controlled study. This implies huge potential for better public health and cost savings from sick leaves, with a simple intervention against airborne infections.
https://t.co/7F3KfB9Whw

[Zamin Iqbal @ZaminIqbal]

Great pleasure to work with @shenwei356 on a new indexing and alignment scheme, called LexicMap:
https://t.co/ImtrRm0x9n
We have been working on uniformly reassembling, QC-ing and annotating all bacterial (+ now archaeal) data, & wanted to be able to do full alignment to it....

[Robert Aboukhalil @RobAboukhalil]

I find it really interesting that biotechs & institutes often build their own bioinformatics workflow managers:

- Insitro: Redun
- GRAIL: Reflow
- 10X Genomics: Martian
- Invitae: in-house engine
- CZI: Swipe
- Broad: Cromwell
- UCSC: Toil

What does the future look like?

[Bede Constantinides @beconsta]

@AndrewxMontague @BadlyParkedOx Another way of looking at this is that the difference between the parking fee and fixed penalty (£40 if paid in the first 14 days?) should increase. A lot.

[Theo Sanderson @theosanderson]

Incredibly excited for the launch of Pathoplexus, which I've spent quite a bit of time helping with over the past year. New, open-source, infrastructure for sharing viral sequence data!

[Pathoplexus @pathoplexus]

📢 We're excited to introduce Pathoplexus, a specialized sequence database for human viral pathogens! 🌍 🧬
Launching with 4 viruses, https://t.co/4wGez2nTCr combines modern open-source software with transparent governance to improve global pathogen sequence sharing.

1/14

[Bede Constantinides @beconsta]

@ScouseMicrobe Congrats! Hear so many good things about this course

[Bede Constantinides @beconsta]

@AOUBIO @nanopore @Udahemuka1 @1986Bom @MarionKoopmans Hi Anton, excellent news. Matthijs has shared a BED file for this scheme, which I have adapted and made available here in the @pha4ge primer-schemes repository: https://t.co/pBQvgWvzpO

[Lucy Taylor @LucyT_journo]

Kicking off a new series of #TheLifeScientific today, @jimalkhalili talks to Microsoft founder @BillGates about science-driven philanthropy, the power of vaccines and having a sense of humour about conspiracy theories… from 9am @BBCRadio4 or @BBCSounds: https://t.co/INMcPKDnKt

[Bede Constantinides @beconsta]

@simoninthelakes @sam_bidwell It is either sloppy journalism or more likely intentional deception given that @sam_bidwell works for a notorious dark money funded, pro-eugenics, Trussite think tank (@ASI), in between stirring up hate with his Telegraph columns.

[Bede Constantinides @beconsta]

@simoninthelakes @sam_bidwell Which is true yet denied by Sam's first tweet. Clearly more doctors must be trained – this is a banal observation with cross party support for years already. However the Tories didn't actually want to pay for it, whereas this gov might.
https://t.co/gvNY5qpJOT

[Bede Constantinides @beconsta]

@Richard07679148 @sam_bidwell I did read this. Given relatively low pay and poor working conditions in the NHS, recruiting overseas doctors without the prospect of UK settlement (a big carrot) would be a lot more challenging.

[Bede Constantinides @beconsta]

@NAccount86386 @sam_bidwell This assumes that HCWs would still want to come to the UK without the prospect of settlement. Many UK doctors already leave for better pay and working conditions abroad.

[Bede Constantinides @beconsta]

@GrumpyOldMan23 @sam_bidwell https://t.co/QIIuD9X9Fo

[Bede Constantinides @beconsta]

@Mat_Oglesby @sam_bidwell Not at all. Sam's first tweet is demonstrably false and misleads the majority who read no further. Almost everybody agrees that we should train more doctors – it is stating the bleeding obvious. The question is how we create political appetite for such long term investment.

[Bede Constantinides @beconsta]

@Richard07679148 @sam_bidwell https://t.co/QIIuD9X9Fo

[Bede Constantinides @beconsta]

@Mat_Oglesby @sam_bidwell Not at all. Sam's first tweet is demonstrably false and misleads the majority who read no further. Almost everybody agrees that we should train more doctors – it is stating the bleeding obvious. The question is how we create political appetite for such long term investment.

[Bede Constantinides @beconsta]

@Mat_Oglesby @sam_bidwell Not at all. Sam's first tweet is demonstrably false and misleads the majority who read no further. Almost everybody agrees that we should train more doctors – it is stating the bleeding obvious. The question is how we create political appetite for such long term investment.

[Bede Constantinides @beconsta]

@Angie_Marie_1 @sam_bidwell The system has finite capacity to train new HCWs, making caps practically necessary. But these should be increased sustainably year on year.

[Bede Constantinides @beconsta]

@TeaNoSugar1987 @YRespectfullyK @sam_bidwell Of course – Sam's first tweet is demonstrably false and misleads the majority who read no further. Almost everybody agrees that we should train more doctors – it is stating the obvious. The question is how we create political appetite for such long term investment.