
Director: @HPCBio Member: @OBF_News More active here: BSky: @cjfields.bsky.social Masto: @cjfields@genomic.social Genomics: #metagenomics #microbiome
In the Blue Sky on a Mastodon
Joined April 2008
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Chris Fields, @cjfields.bsky.social retweeted
Thanks to Professor Nicola Mulder, (@Nicky_Mulder) interim lead of the ABI and a key driver of bioinformatics advancement at the University of Cape Town and in Africa for enthusiastically representing us at the @GA4GH plenary meeting.
#Bioinformatics #WomenInSTEM
#ga4ghconnect
The @AfrBioInstitute (ABI) poster was presented at the GA4GH 13th plenary in Uppsala this week. It was good to see more interest in GA4GH from African scientists.
Chris Fields, @cjfields.bsky.social retweeted
FlyBase funding
thetransmitter.org/community…
Chris Fields, @cjfields.bsky.social retweeted
Replying to @Nicky_Mulder
@Nicky_Mulder taking part of the exciting panel discussion at the 4th ISCB African Council Student Symposium 2025.
Theme: Building a sustainable bioinformatics community in Africa
@iscb_afscs @asbcb1
#AfSCS2025 #ISCB #ISCBSC #ASBCB
Chris Fields, @cjfields.bsky.social retweeted
Our NIH grant to discover coronavirus antiviral meds was terminated today.
With this grant, we had developed a better SARSCoV2 inhibitor than Paxlovid, and we recently discovered an improved drug that looks better than Pfizer's own second-generation inhibitor.
Chris Fields, @cjfields.bsky.social retweeted
I am eager to look into this model, but having only skimmed the paper, here are two thoughts:
1. I don't believe any claim of computational design unless you synthesize the DNA, put it in a real cell, and show that the design functions as expected.
vittorio@IterIntellectus19 Feb 2025South Africa
South AfricaConnected via United States App StoreAccount-level information, not a live location or per-post device.
Replying to @IterIntellectus
Evo-2 has demonstrated practical generation abilities, creating synthetic yeast chromosomes, mitochondrial genomes, and minimal bacterial genomes.
this is computational design in action.
6/
Chris Fields, @cjfields.bsky.social retweeted
JD Vance is saying the quiet part out loud: the Trump administration intends to break the law.
America is a nation of laws. The courts make sure we follow the laws.
The VP doesn’t control the courts, and the President cannot ignore the Constitution.
No one is above the law.
Chris Fields, @cjfields.bsky.social retweeted
Why slashing NIH indirect costs is devastating news for all of us.
Chris Fields, @cjfields.bsky.social retweeted
In response to the federal directive issued on Feb. 7, 2025 to change the Facilities and Administration rate for all existing and ongoing new @NIH research awards, UW–Madison has issued the following statement.
news.wisc.edu/uw-madison-res…
Chris Fields, @cjfields.bsky.social retweeted
that's how that is done! Sequence of the Ebola Sudan outbreak virus, analysed and shared immediately. virological.org/t/near-real-… @AfricaCDC
Chris Fields, @cjfields.bsky.social retweeted
Life expectancy.
Tomi Lahren@TomiLahren2 Feb 2025United States
United StatesConnected via United States App StoreAccount-level information, not a live location or per-post device.
Can you think of a Canadian product that’s better than an American one?
Honestly curious.
Chris Fields, @cjfields.bsky.social retweeted
⚠️Do you wonder why you haven’t heard much about this massive TB outbreak recently? Cuz the CDC can’t hold any press conferences or issue public statements of any kind.
➡️Most of the world 🌎 has been vaccinated against TB… but the US has not, which is now extra vulnerable.
Chris Fields, @cjfields.bsky.social retweeted
“An ongoing tuberculosis outbreak in Kansas has become the largest in recorded history in the United States” cjonline.com/story/news/poli…
Chris Fields, @cjfields.bsky.social retweeted
This paper has been a long time coming: We looked at the genomes of historical bacterial samples over a century to look for trends of antibiotic resistance genes, finding multiple instances of them in infections before the age of antibiotics...
Chris Fields, @cjfields.bsky.social retweeted
New year, new assemblies!
I'm excited to announce Autocycler, my new tool for consensus assembly of long-read bacterial genomes!
It's the successor to Trycycler, designed to be faster and less reliant on user intervention.
Check it out: github.com/rrwick/Autocycler…
(1/5)
Chris Fields, @cjfields.bsky.social retweeted
Core facilities are truly one of the most undervalued assets in an academic institution. They are often treated as also rans, staffed by non tenured faculty with little leeway, and given an exceedingly short runway to become profitable.
In an age of shrinking lab sizes and astronomical maintenance contracts, cores will increasingly become the engines that fuel research. Institutions have to invest in core facilities in order to spur innovation and efficiency, and expect some will be a “loss leader” on revenues, with intangible returns on research productivity.
For those on the job market, getting to know the institutional core facilities and directors should be an indispensable part of the recruitment process. Talk one to one with some of the core directors. How institutions approach core facilities is a huge “tell” on institutional research ethos.
Chris Fields, @cjfields.bsky.social retweeted
Four winners of the African Biodiversity Fellowship for Emerging Genomics Leaders 2024 have just concluded their Fellowship at the @IGBIllinois, United States. This leadership Fellowship is a partnership between @IGBIllinois @UofIllinois and @DAISEA_AfricaBP
Chris Fields, @cjfields.bsky.social retweeted
New method speeds up genome alignment of complete and near-complete genome assemblies in minimap2. Can also be useful for faster read mapping
Github: github.com/at-cg/mm2-plus
DOI: doi.org/10.1101/2024.11.25.6…
Led by @GhanshyamChand5, collab with @sanchit_misra @wasim_galaxy @intel
Chris Fields, @cjfields.bsky.social retweeted
Hifiasm 0.21.0 has been released. It now has a beta module for direct assembly of ONT R10 simplex reads. Initial tests with regular simplex reads show very promising results! github.com/chhylp123/hifiasm…
Chris Fields, @cjfields.bsky.social retweeted
If you plan to attend the ABI stakeholder meeting in January in-person or online please register here: redcap.h3abionet.org/redcap/… -the deadline is 30th November.

































