Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
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sabiagini.bsky.social
Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
@sabiagini.bsky.social
Human Population Geneticist ๐Ÿ’€๐Ÿงฌ #aDNA | Bioinformatician ๐Ÿ‘จโ€๐Ÿ’ป | Diversity&Inclusion in Academia ๐ŸŒˆ | Member of the SMBE IDEA Task Force @smbe-idea.bsky.social โœจ | Theater ๐ŸŽญ | he/him | ๐Ÿ—ฃ๏ธ๐Ÿ‡ฎ๐Ÿ‡น๐Ÿ‡ฌ๐Ÿ‡ง๐Ÿ‡ช๐Ÿ‡ธ๐Ÿณ๏ธโ€๐ŸŒˆ
Pinned
๐Ÿšจ Did you know that non-invasive prenatal screening (๐—ก๐—œ๐—ฃ๐—ฆ๐Ÿคฐ) data can be repurposed for large-scale genomics? ๐Ÿงฌ

Our new study shows how to turn low-coverage data into valuable insights, analyzing >32,000 genomes from Belgium. #genetics #imputation #NIPS #AcademicSky

genome.cshlp.org/content/35/9...
Genotype imputation from low-coverage data for medical and population genetic analyses
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
genome.cshlp.org
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
November is Native American Heritage Month - a time to elevate the histories, cultures, and contributions of Indigenous peoples.

#NativeAmericanHeritageMonth

On the SMBE IDEA Task Force we aim to support efforts to remove the barriers that have historically excluded many voices from science ๐Ÿ—ฃ๏ธ
November 5, 2025 at 11:14 AM
I'm truly confused ๐Ÿค”

I asked #ChatGPT to summarize a series of notes I had on a statistical interpretation. It then asked me if I wanted a visual summary of the topic (again, statistics, numbers, etc.). I said yes, just yes. This is what it created:

#AcademicSky #Bioinformatics
October 16, 2025 at 2:59 PM
Pro-level advice right there! ๐Ÿ†โœจ
October 15, 2025 at 2:00 PM
Can we all agree that clothes stay on the drying rack until someoneโ€™s coming over? ๐Ÿ‘•๐Ÿงบ
October 15, 2025 at 12:49 PM
That's suspicious, don't trust it. Surely it's a virus.
October 15, 2025 at 12:06 PM
๐Ÿ˜‘ I just canโ€™t today. My script kept crashing over and over, and in the end, it was just a damn indentation error. Falling into the same mistakes after all these years feels like a loop that can only be broken with swearing ๐Ÿคฌ #Bioinformatics #AcademicSky
October 15, 2025 at 10:03 AM
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
๐Ÿ’š Today is ๐™’๐™ค๐™ง๐™ก๐™™ ๐™ˆ๐™š๐™ฃ๐™ฉ๐™–๐™ก ๐™ƒ๐™š๐™–๐™ก๐™ฉ๐™ ๐˜ฟ๐™–๐™ฎ!

Letโ€™s take a moment to care for ourselves and each other ๐ŸŒฑ

The ๐—œ๐——๐—˜๐—” ๐—ง๐—ฎ๐˜€๐—ธ ๐—™๐—ผ๐—ฟ๐—ฐ๐—ฒ and @official-smbe.bsky.social support mental well-being in science ๐Ÿง โœจ

๐Ÿ’ฌ Share your favorite self-care tip below & letโ€™s support our community! #WorldMentalHealthDay #AcademicSky
October 10, 2025 at 10:00 AM
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
๐Ÿค In 2024, the ๐—ฆ๐— ๐—•๐—˜ ๐—ก๐—ผ๐—ป-๐—ฃ๐—ฎ๐—ฟ๐—ฎ๐—ฐ๐—ต๐˜‚๐˜๐—ฒ ๐—ฆ๐—ฐ๐—ถ๐—ฒ๐—ป๐—ฐ๐—ฒ ๐—™๐˜‚๐—ป๐—ฑ๐—ถ๐—ป๐—ด from @official-smbe.bsky.social went to Drs. Boris Armel Olou, Jean Legeay, Jean Evans Israel Codjia & Roรซl Dire Houdanon for their project strengthening African researchers in Molecular Biology & Bioinformatics.

โœจ Excited about the impact so far!
October 10, 2025 at 9:13 AM
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
๐Ÿค In 2024, the ๐—œ๐——๐—˜๐—” ๐—ด๐—ฟ๐—ฎ๐—ป๐˜ from @official-smbe.bsky.social went to Drs. Rori Rohlfs and Emilia Huerta-Sanchez for their podcast ScienceWise!

โœจ We are happy to have contributed to their project!

๐ŸŽ™๏ธ @sciencewisepod.bsky.social
October 9, 2025 at 11:59 AM
๐Ÿ”ฅ Time's ticking! Share your vision for inclusion & equity in science!

โฐ Deadline: ๐—ข๐—ฐ๐˜ ๐Ÿญ๐Ÿฌ

@official-smbe.bsky.social
@smbe-idea.bsky.social
#AcademicSky
โณ Don't miss out! Submit your proposals by ๐—ข๐—ฐ๐˜ ๐Ÿญ๐Ÿฌ and help shape a more inclusive science community!

@official-smbe.bsky.social #AcademicSky
October 3, 2025 at 4:32 PM
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
โ—REMINDER - the call for proposals for SMBE IDEA initiatives for 2025/2026 will close soon - apply by October 10th

Categories:

๐Ÿ’ก IDEA ($25k)
๐Ÿช‚ Non-Parachute Science ($10k)
๐Ÿ—ฃ๏ธ Outreach ($10k)

More info
smbe.org/idea-initiatives
@smbe-idea.bsky.social
๐Ÿ“ข Call for proposals - SMBE IDEA 2026

@smbe-idea.bsky.social invites all SMBE members to propose initiatives for 2025/2026 to reduce inequities in our field.

Categories:

๐Ÿ’ก IDEA ($25k)
๐Ÿช‚ Non-Parachute Science ($10k)
๐Ÿ—ฃ๏ธ Outreach ($10k)

Deadline: Oct. 10 2025

More info: smbe.org/idea-initiatives
October 1, 2025 at 4:18 PM
๐Ÿ”ฅ Don't miss the opportunity! Submit your proposal ๐™‰๐™Š๐™’! ๐ŸŒˆ

#AcademicSky #IDEA #SMBE2026
@official-smbe.bsky.social
September 30, 2025 at 2:55 PM
Moving to another country for a few months. #academiclife #academicsky

Excited but also:
a woman in a suit says everything hurts and i 'm dying .
ALT: a woman in a suit says everything hurts and i 'm dying .
media.tenor.com
September 30, 2025 at 9:20 AM
thanks ๐Ÿฉทโœจ
September 17, 2025 at 5:59 PM
โœจ In my latest paper, I used ๐™ฅ๐™ง๐™š๐™œ๐™ฃ๐™–๐™ฃ๐™ฉ ๐™ฅ๐™š๐™ค๐™ฅ๐™ก๐™š instead of โ€œpregnant women", because pregnancy is not exclusive to those who identify as women ๐Ÿคฐ

๐Ÿ“ข Using inclusive language is part of our responsibility as scientists to fight erasure of transgender and nonbinary people ๐Ÿณ๏ธโ€โšง๏ธ #AcademicSky #QueerInSTEM
๐Ÿšจ Did you know that non-invasive prenatal screening (๐—ก๐—œ๐—ฃ๐—ฆ๐Ÿคฐ) data can be repurposed for large-scale genomics? ๐Ÿงฌ

Our new study shows how to turn low-coverage data into valuable insights, analyzing >32,000 genomes from Belgium. #genetics #imputation #NIPS #AcademicSky

genome.cshlp.org/content/35/9...
Genotype imputation from low-coverage data for medical and population genetic analyses
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
genome.cshlp.org
September 16, 2025 at 11:05 PM
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
๐ŸŒโœจ SMBE IDEA 2026 โ€“ Call for Proposals!

We support initiatives that tackle inequities in evolutionary biology.

Funding available:
๐Ÿ’ก IDEA ($25k)
๐Ÿช‚ Non-Parachute Science ($10k)
๐Ÿ—ฃ๏ธ Outreach ($10k)

๐Ÿ“… Deadline: Oct 10, 2025
๐Ÿ”— docs.google.com/forms/d/1we2...
IDEA Initiatives
SMBE, through the IDEA (Inclusion, Diversity, Equity, and Access) Task Force, aims to address systemic racism, sexism, colonialism, and other exclusion in our society. SMBE DIVERSITY STATEMENT Our goa...
smbe.org
September 10, 2025 at 9:35 PM
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
Genotype imputation from low-coverage data for medical and population genetic analyses genome.cshlp.org/content/35/9... ๐Ÿงฌ๐Ÿ–ฅ๏ธ๐Ÿงช github.com/SABiagini/GDI
September 3, 2025 at 3:55 PM
Reposted by Simone Andrea Biagini ๐Ÿณ๏ธโ€๐ŸŒˆ
๐Ÿงฌ Now published in Bioinformatics Advances: "DNPcall: A new pipeline for accurate double nucleotide polymorphism calling"

Read the full paper here: https://doi.org/10.1093/bioadv/vbaf209ย 

Authors include: @eugeniadat.bsky.social
September 9, 2025 at 9:02 AM
Neanderthals lived ~350,000 years without governments, capitalism, or wrecking ecosystems.

We Homo sapiens, in just 300,000 years (and especially the last 200), have trashed the planet.

Just saying.
September 8, 2025 at 9:45 AM
Anything to promote my new paper (and yes that includes this photo). I put six years of my mental health into this one ๐Ÿ˜…๐Ÿงฌ๐Ÿ”ฅ

๐Ÿ“ Go read it! โฌ‡๏ธ

๐Ÿ”— genome.cshlp.org/content/35/9...

#AcademicSky
September 4, 2025 at 6:50 PM
๐Ÿšจ My new paper is out in the latest issue of @genomeresearch.bsky.social! ๐Ÿงฌ

๐Ÿงต Check out my thread from yesterday for the details โฌ‡๏ธ

๐Ÿ‘จโ€๐Ÿ’ป Open source codes also available on my #GitHub page!

#AcademicSky
๐Ÿšจ Did you know that non-invasive prenatal screening (๐—ก๐—œ๐—ฃ๐—ฆ๐Ÿคฐ) data can be repurposed for large-scale genomics? ๐Ÿงฌ

Our new study shows how to turn low-coverage data into valuable insights, analyzing >32,000 genomes from Belgium. #genetics #imputation #NIPS #AcademicSky

genome.cshlp.org/content/35/9...
Genotype imputation from low-coverage data for medical and population genetic analyses
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
genome.cshlp.org
September 4, 2025 at 6:31 PM
Also, check out our ๐—š๐—ถ๐˜๐—›๐˜‚๐—ฏ for all tools from this study ๐Ÿ‘จโ€๐Ÿ’ป ๐—™๐˜‚๐—น๐—น๐˜† ๐—ผ๐—ฝ๐—ฒ๐—ป ๐˜€๐—ผ๐˜‚๐—ฟ๐—ฐ๐—ฒ:

โ€ข ๐—š๐——๐—œ ๐—ณ๐—ถ๐—น๐˜๐—ฒ๐—ฟ: github.com/SABiagini/GDI

โ€ข ๐—ฃ๐—ผ๐˜€๐˜-๐—ถ๐—บ๐—ฝ๐˜‚๐˜๐—ฎ๐˜๐—ถ๐—ผ๐—ป ๐˜€๐˜๐—ฎ๐˜๐˜€: github.com/SABiagini/Po...

A useful resource for low-coverage genomic data! #bioinformatics #AcademicSky #GitHub #OpenSource #Genetics #imputation #popgen
GitHub - SABiagini/GDI
Contribute to SABiagini/GDI development by creating an account on GitHub.
github.com
September 3, 2025 at 10:35 PM
In short, NIPS data are a goldmine for genomics but need tailored strategies. There is no one-size-fits-all filter.

Curious to learn more? ๐Ÿ”ฌ The full paper compares QUILT and GLIMPSE2, shows the impact of fetal fraction and coverage, the GDI filter development and validation, and more! โœจ
September 3, 2025 at 10:35 PM
When applied to ๐—ฝ๐—ผ๐—น๐˜†๐—ด๐—ฒ๐—ป๐—ถ๐—ฐ ๐˜€๐—ฐ๐—ผ๐—ฟ๐—ฒ๐˜€ (PGS) for height, GDI was less effective. GDI-filtered data explained 14% of the variance, while the best-performing approach (PGSHapMap) explained 23.7% using a smaller set of common variants.
September 3, 2025 at 10:35 PM
โœ… ๐—”๐—ณ๐˜๐—ฒ๐—ฟ ๐—ฎ๐—ฝ๐—ฝ๐—น๐˜†๐—ถ๐—ป๐—ด ๐—š๐——๐—œ, ๐˜๐—ต๐—ฒ ๐—ฏ๐—ฎ๐˜๐—ฐ๐—ต ๐—ฒ๐—ณ๐—ณ๐—ฒ๐—ฐ๐˜ ๐—ฑ๐—ถ๐˜€๐—ฎ๐—ฝ๐—ฝ๐—ฒ๐—ฎ๐—ฟ๐˜€! โœจ

PCA/UMAP of >27,000 Belgian samples.

๐Ÿ‡ช๐Ÿ‡บ 89.17% European ancestry

๐ŸŒ๐ŸŒ 10.83% African/Asian ancestries

๐Ÿ‡ง๐Ÿ‡ช A snapshot of Belgiumโ€™s current diversity!
September 3, 2025 at 10:35 PM