Sonika Tyagi
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tsonika.bsky.social
Sonika Tyagi
@tsonika.bsky.social
140 followers 250 following 73 posts
Academic @RMIT University
Affiliated @MonashUniv

#computationalbiology #digitalhealth #MachineLearning #AI #LLM #genomics #data4diversity #aiforsocialgood #equityDiversityInclusion
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Reposted by Sonika Tyagi
tyagilab.bsky.social
Our lab head, @tsonika.bsky.social, presented at the 2025 Victorian Affiliation of Research Nurses Inc. Conference on the applications of AI in clinical trials.
The session sparked a great exchange of ideas with delegates, highlighting the excitement and opportunities in this rapidly evolving field.
October 21, 2025 at 12:37 AM
tsonika.bsky.social
Preprint from the lab.
tyagilab.bsky.social AI in Digital Health & Bioinformatics Lab @tyagilab.bsky.social · 29d
Our latest paper presents EHR-QC 2.0, a major upgrade to our open-source pipeline for preparing and standardising biomedical & genomic EHR data for machine learning.

🔍 What’s new:

LLM-enabled clinical vocabulary mapping

Support for FHIR

A web-based interface

🔗 papers.ssrn.com/sol3/papers....
<span>An accessible pipeline for LLM-driven medical concept mapping, automated OMOP and FHIR conversion</span>
Background:Our previous work introduced the open-source EHR-QC pipeline. This pipeline implements extraction, transform and load (ETL), pre-processing and quali
papers.ssrn.com
October 15, 2025 at 1:37 AM
tsonika.bsky.social
@aashishbhandari.com
October 15, 2025 at 12:15 AM
tsonika.bsky.social
Our invited editorial in BMC Artificial Intelligence along with @naimavahab.bsky.social
October 14, 2025 at 9:45 PM
tsonika.bsky.social
New publication from the lab
tyagilab.bsky.social AI in Digital Health & Bioinformatics Lab @tyagilab.bsky.social · 29d
Our latest paper combines multi-omics integration with genome-scale NLP models trained on DNA to uncover how S. aureus regulates infection, metabolism, and antibiotic resistance.

This unique organism agnostic method offers a new lens for systems-level biology.

🔗 www.nature.com/articles/s41...
Understanding the regulatory grammar of sepsis-causing Staphylococcus aureus bacteria using contexualised DNA language models - Scientific Reports
Scientific Reports - Understanding the regulatory grammar of sepsis-causing Staphylococcus aureus bacteria using contexualised DNA language models
www.nature.com
October 14, 2025 at 9:13 PM
Reposted by Sonika Tyagi
scedmunds.bsky.social
Nice there’s another ML standards case study in this #IDW2025 “long-tail of supplemental data” session, Slava Tykhonov presenting on Croissant ML docs.google.com/presentation...
croissant-deem-slides
Croissant: A Metadata Format for ML-Ready Datasets June 9, 2024 8th Workshop on Data Management for End-to-End Machine Learning (DEEM) 2024 SIGMOD/PODS 2024 Mubashara Akhtar, Omar Benjelloun, Costanza...
docs.google.com
October 14, 2025 at 2:07 AM
tsonika.bsky.social
Our Digital Health and AI applications reading group is on this week. Join in.
tyagilab.bsky.social AI in Digital Health & Bioinformatics Lab @tyagilab.bsky.social · Oct 13
📢 Join us for the next Digital Health Reading Group!

We’ll be diving into fairness, bias, and ethics in AI for healthcare from the book - Fairness and Machine Learning: Limitations and Opportunities.

🗓️ Thu, 16 Oct 2025
🕧 12:30–1:30 pm
📍 Room 014.10.035A, RMIT University, Melbourne + online (Teams)
October 13, 2025 at 10:27 AM
Reposted by Sonika Tyagi
damianospina.com
The pre-print of our #SIGIRAP2025 paper titled "ISMIE: A Framework to Characterize Information Seeking in Modern Information Environments" is now available arxiv.org/abs/2510.07644

@shuoqisun.bsky.social @danulah.bsky.social @admscentre.org.au @rmitcomputing.bsky.social
ISMIE: A Framework to Characterize Information Seeking in Modern Information Environments
The modern information environment (MIE) is increasingly complex, shaped by a wide range of techniques designed to satisfy users' information needs. Information seeking (IS) models are effective mecha...
arxiv.org
October 10, 2025 at 5:56 AM
Reposted by Sonika Tyagi
stephenturner.us
My colleagues and I here at UVA are looking to hire a skilled #Rstats developer. You'll be working with me on the project. Here's the posting: jobs.virginia.edu/us/en/job/R0...
Epidemiologist / Research Data Scientist; Infectious Diseases and International Health in Charlottesville, Virginia, United States of America | Information Management, Services & Technology at Univers...
Apply for Epidemiologist / Research Data Scientist; Infectious Diseases and International Health job with University of Virginia in Charlottesville, Virginia, United States of America. Information Man...
jobs.virginia.edu
October 8, 2025 at 2:17 PM
Reposted by Sonika Tyagi
icthealth.nl
ChatGPT scores up to 97% on medical facts — yet fails to read symptoms. Experts like Ahmed Abdeen Hamed and Dr Andrew Thornton warn: AI can inform, not diagnose. The real challenge now? Using it responsibly in healthcare. #healthcare
AI performs well on facts, but fails when it comes to symptoms | ICT&health Global
An important explanation lies in the nature of the language ChatGPT uses. Even more worrying is that it does not indicate when it does not know something.
www.icthealth.org
October 8, 2025 at 9:28 AM
Reposted by Sonika Tyagi
ellem111.bsky.social
"Your best defense isn’t your eyes — it’s your brain. Keep practicing media and digital literacy..."

#discover
#MedSky
#MentalHealth
#AI

www.medscape.com/viewarticle/...
Deepfake Doctors: How AI Spreads Medical Disinformation
AI-generated doctors, some fabricated and some mimicking well-known physicians, sell sketchy products and bad medical advice on social media. Here’s how it works.
www.medscape.com
October 3, 2025 at 1:09 AM
Reposted by Sonika Tyagi
odsc.bsky.social
Discover how AI can help creators beat creative block, visualize ideas, and craft standout portfolios—without replacing human creativity. #DataScience #AI #ArtificialIntelligence opendatascience.com/the-ai-advan...
The AI Advantage: How Creators Can Use AI to Generate Portfolio Concepts
The creative industry is rapidly evolving, and a new co-pilot has entered the studio: artificial intelligence. Creators across fields—graphic designers, photographers, illustrators, writers—often face...
opendatascience.com
October 2, 2025 at 10:56 AM
Reposted by Sonika Tyagi
euanritchie.bsky.social
A solemn day as we pay our respects to Dr Jane Goodall and her extraordinary legacy. Vale, Jane, we promise to keep fighting for all that you loved and fought for too!

theconversation.com/only-if-we-h... With @drkyliesoanes.bsky.social, Marissa Parrott, @drvanessapirotta.bsky.social & Zara Bending.
‘Only if we help shall all be saved’: Jane Goodall showed we can all be part of the solution
Jane Goodall showed tremendous courage in charting her own course as a pioneering researcher – and working to spread hope wherever she went.
theconversation.com
October 2, 2025 at 6:24 AM
Reposted by Sonika Tyagi
naimavahab.bsky.social
A versatile machine learning pipeline to find co-regulatory modules (CRMs) in DNA.
Check it out and explore: doi.org/10.1016/j.co...

#Genomics #Epigenomics #MachineLearning #CardiacResearch #OpenScience

@tyagilab.bsky.social @tsonika.bsky.social
September 25, 2025 at 4:22 AM
Reposted by Sonika Tyagi
aashishbhandari.com
🩺 Missing medical data isn't just something to fill in or ignore!
EHRs often have missing values. Common fix? Imputation. But filling gaps can mislead predictions.
We explore ML approaches to handle missingness while preserving the original data distribution.
📜 www.researchsquare.com/article/rs-6...
Mind the Gaps: Guess Less, Predict More with Missing Medical Data
Healthcare data, generally available as electronic health records (EHR), provide a rich profile of an individual’s health and lifestyle. This data can be harnessed for predictive modelling using machi...
www.researchsquare.com
September 25, 2025 at 1:33 AM
tsonika.bsky.social
Congratulations to @yashpalr.bsky.social on his graduation!
@tyagilab.bsky.social
September 24, 2025 at 7:26 AM
Reposted by Sonika Tyagi
asharao.bsky.social
Sharenting is the name given to the action of parents sharing photos of their children online.
www.theguardian.com/technology/2...
Parents outraged as Meta uses photos of schoolgirls in ads targeting man
Exclusive: Instagram pictures of girls as young as 13 were posted to promote Threads site ‘as bait’, campaigner says
www.theguardian.com
September 20, 2025 at 10:25 AM
Reposted by Sonika Tyagi
foldi.bsky.social
Incredibly proud of @kxhuang.bsky.social for persisting with such a challenging dataset from her PhD! We found some intriguing genetic targets in a corticostriatal circuit that may be involved in the development of #anorexia nervosa 🤔 onlinelibrary.wiley.com/doi/10.1002/...
Toward a Genetic Signature of Resistance to Activity‐Based Anorexia in Striatal Projecting Cortical Neurons
Objective Converging evidence from neuroimaging studies and genome-wide association study (GWAS) suggests the involvement of prefrontal cortex (PFC) and striatum dysfunction in the pathophysiology o...
onlinelibrary.wiley.com
September 7, 2025 at 2:44 AM
Reposted by Sonika Tyagi
lornegenome.bsky.social
Earlybird registration & abstract submissions now open for the 𝟒𝟕𝐭𝐡 𝐋𝐨𝐫𝐧𝐞 𝐆𝐞𝐧𝐨𝐦𝐞 𝐂𝐨𝐧𝐟𝐞𝐫𝐞𝐧𝐜𝐞, 𝟏𝟓-𝟏𝟖𝐭𝐡 𝐅𝐞𝐛 𝟐𝟎𝟐𝟔: https://www.lornegenome.org/registrations (deadline 7th Nov 2025)

Speakers: https://www.lornegenome.org/speakers

We look forward to seeing you there!
Speakers — Lorne Genome
No description found
www.lornegenome.org
September 3, 2025 at 10:00 PM
tsonika.bsky.social
Kudos to Naima Vahab for presenting her PhD research at "Storytelling for Impactful Research (STIR) Competition " at RMIT STEM College. What an amazing opportunity for polishing your #scicomm skills and knowledge sharing across STEM disciplines.

@tyagilab.bsky.social @rmitcomputing.bsky.social
September 3, 2025 at 11:10 PM
Reposted by Sonika Tyagi
bioinfoadv.bsky.social
🧠 Just out in Bioinformatics Advances: “Predicting gene expression using millions of yeast promoters reveals cis-regulatory logic”  

Explore the paper here: https://doi.org/10.1093/bioadv/vbaf130

Authors include: @susbo.bsky.social
June 13, 2025 at 10:02 AM
Reposted by Sonika Tyagi
tmel1219.bsky.social
#ProudBlue #Voices4Victory

Science Matters!

Scientists have found protein fragments from the Covid-19 virus hidden inside tiny cellular packages in the blood of long-covid patients, offering the first potential measurable biomarker for the condition.

www.sciencedaily.com/releases/202...
Scientists detect virus traces in blood that may unlock long COVID’s mystery
Scientists have found protein fragments from the COVID-19 virus hidden inside tiny cellular packages in the blood of long COVID patients, offering the first potential measurable biomarker for the cond...
www.sciencedaily.com
August 13, 2025 at 5:42 PM
Reposted by Sonika Tyagi
dlingenfelter.bsky.social
SARS-CoV-2 causes systemic vascular damage via viral proteins and immune dysregulation, driving acute organ failure and Long COVID.

Vaccination reduces these risks significantly.
davidlingenfelter.substack.com/p/the-vascul...
🧬 FOR IMMEDIATE RELEASE SARS-CoV-2 Confirmed as a Vascular Pathogen: New Report Details Mechanisms Behind Acute and Long-Term Damage August 18, 2025 — El Cerrito, CA - A newly revised scientific report by David Lingenfelter, PhD, synthesizes global consensus and cutting-edge research to confirm that SARS-CoV-2 is not merely a respiratory virus—it is a systemic vascular pathogen. The report, originally generated via Google’s Gemini AI and refined through critique and reanalysis, offers a comprehensive account of the virus’s multifaceted assault on the vascular system. 🔍 Key Findings: • Endothelial Dysfunction as Central Pathology: SARS-CoV-2 disrupts vascular homeostasis via Spike protein–ACE2 interactions, Nucleocapsid protein–TLR2 signaling, and immune-mediated inflammation. • Microvascular Injury Drives Organ Failure: COVID-19-associated coagulopathy (CAC), microthrombosis, and vasculitis contribute to acute morbidity and mortality. • Long COVID Linked to Persistent Vascular Damage: Chronic endotheliopathy, fibrinaloid microclots, and senescent “zombie cells” underlie post-acute sequelae. • Vaccination Reduces Vascular Risk: Comparative data show significantly lower rates of cardiac complications post-vaccination versus post-infection. 🧠 Implications for Clinical Practice and Public Health: • COVID-19 should be classified as a systemic vascular disease. • Diagnostic protocols must incorporate endothelial biomarkers and advanced imaging. • Therapeutic strategies should target inflammation, thrombosis, and senescence. • Long-term surveillance is needed to assess cardiovascular risk in survivors. 📚 Future Directions: The report calls for randomized trials of senolytics, microclot-targeting therapies, and personalized vascular risk profiling. It also urges public health systems to prioritize vascular health as a pandemic preparedness measure. 🔗 Full report available on https://davidlingenfelter.substack.com/p/the-vascular-pathophysiology-of-sars-b2d
August 18, 2025 at 10:57 PM
Reposted by Sonika Tyagi
bhanlon15.bsky.social
SciTech Daily: 'Scientists Detect “Ghost” Proteins That Could Explain Long COVID'

'Scientists have uncovered viral protein fragments lingering in the blood of long COVID patients, potentially offering the first measurable biomarker for the condition.'

scitechdaily.com/scientists-d...
Scientists Detect “Ghost” Proteins That Could Explain Long COVID
Researchers discovered viral fragments in blood samples from long COVID patients, hinting at a possible biomarker. The findings suggest the virus may linger in hidden reservoirs, fueling ongoing sympt...
scitechdaily.com
August 20, 2025 at 2:12 PM