Jovana Maksimovic
@jovmaksimovic.bsky.social
Senior Research Associate in Bioinformatics & Computational Biology in the Oshlack Lab @petermaccc.bsky.social Australia. Mum. Sci-fi nerd. Cat person. Really loves cheese. And dancing.
Reposted by Jovana Maksimovic
Our new preprint introduces ✨ICONIC✨: an R package making causal inference accessible for observational omics. It unifies genetic instruments (Mendelian randomization) and negative controls (proximal inference) for mediation analysis under unmeasured confounding. www.medrxiv.org/content/10.6...
ICONIC: An R Package for Integrating Instrumental Variable- and Negative-Control-Informed Causal Discovery and Diagnostics in Multiomic Studies
Unmeasured confounding threatens causal inference and replicability in observational multi-omic studies across variable environments. Genetic instrumental variables (Mendelian randomization) and negat...
www.medrxiv.org
August 31, 2026 at 9:55 PM
Our new preprint introduces ✨ICONIC✨: an R package making causal inference accessible for observational omics. It unifies genetic instruments (Mendelian randomization) and negative controls (proximal inference) for mediation analysis under unmeasured confounding. www.medrxiv.org/content/10.6...
Reposted by Jovana Maksimovic
Ever wanted to interrogate fusion gene expression at single-cell resolution?
Turns out, you can! 🧬
A fun collaboration with the Oshlack lab, spearheaded by Jovana Maksimovic, and a huge team effort!
Check out our preprint 👇 @jovmaksimovic.bsky.social @aliciao.bsky.social @10xgenomics.bsky.social
Turns out, you can! 🧬
A fun collaboration with the Oshlack lab, spearheaded by Jovana Maksimovic, and a huge team effort!
Check out our preprint 👇 @jovmaksimovic.bsky.social @aliciao.bsky.social @10xgenomics.bsky.social
Gene fusions drive ~16% of all cancers & 50-70% of childhood ALL. But standard scRNA-seq can't see them — the assays aren't built to capture fusion breakpoints. We built a way to fix that. @aliciao.bsky.social @sadras-t.bsky.social @petermaccc.bsky.social @onjcri.org.au @10xgenomics.bsky.social 🧵
Closing the fusion-detection gap in single-cell RNA-seq with a scalable, probe-based workflow https://www.biorxiv.org/content/10.64898/2026.08.26.747171v1
August 31, 2026 at 8:33 AM
Ever wanted to interrogate fusion gene expression at single-cell resolution?
Turns out, you can! 🧬
A fun collaboration with the Oshlack lab, spearheaded by Jovana Maksimovic, and a huge team effort!
Check out our preprint 👇 @jovmaksimovic.bsky.social @aliciao.bsky.social @10xgenomics.bsky.social
Turns out, you can! 🧬
A fun collaboration with the Oshlack lab, spearheaded by Jovana Maksimovic, and a huge team effort!
Check out our preprint 👇 @jovmaksimovic.bsky.social @aliciao.bsky.social @10xgenomics.bsky.social
Reposted by Jovana Maksimovic
Making visible what's always been true.
Underrepresented genders are part of this community — and always have been. Our new name RLadies+ makes that clearer than ever.
Join us → rladies.org
#RLadies #RStats
Underrepresented genders are part of this community — and always have been. Our new name RLadies+ makes that clearer than ever.
Join us → rladies.org
#RLadies #RStats
May 21, 2026 at 10:01 AM
Making visible what's always been true.
Underrepresented genders are part of this community — and always have been. Our new name RLadies+ makes that clearer than ever.
Join us → rladies.org
#RLadies #RStats
Underrepresented genders are part of this community — and always have been. Our new name RLadies+ makes that clearer than ever.
Join us → rladies.org
#RLadies #RStats
Reposted by Jovana Maksimovic
Finishing your PhD, or thinking of starting one? The Conesa Lab (I2SysBio, CSIC–UV, Valencia) hosts PhD students and postdocs on competitive personal fellowships: long-read transcriptomics, single-cell, multi-omics, ML for genomics. Calls close Sep 2026–Apr 2027. → [email protected]
August 30, 2026 at 3:41 PM
Finishing your PhD, or thinking of starting one? The Conesa Lab (I2SysBio, CSIC–UV, Valencia) hosts PhD students and postdocs on competitive personal fellowships: long-read transcriptomics, single-cell, multi-omics, ML for genomics. Calls close Sep 2026–Apr 2027. → [email protected]
Reposted by Jovana Maksimovic
One of the major pains of academia is having to click through labyrinths of webpages to submit papers.
Now, thanks to Joe Rich (and AI), problem solved!
His tool is called PaperPush and is available at github.com/pachterlab/p...
It's super easy to use!
1/🧵
Now, thanks to Joe Rich (and AI), problem solved!
His tool is called PaperPush and is available at github.com/pachterlab/p...
It's super easy to use!
1/🧵
GitHub - pachterlab/paperpush
Contribute to pachterlab/paperpush development by creating an account on GitHub.
github.com
July 30, 2026 at 1:50 PM
One of the major pains of academia is having to click through labyrinths of webpages to submit papers.
Now, thanks to Joe Rich (and AI), problem solved!
His tool is called PaperPush and is available at github.com/pachterlab/p...
It's super easy to use!
1/🧵
Now, thanks to Joe Rich (and AI), problem solved!
His tool is called PaperPush and is available at github.com/pachterlab/p...
It's super easy to use!
1/🧵
💯 this!!!
My problem is journals still pushing "print" limitations on online only publishing and charging me for it.
Having to put things in the Sups because it doesn't fit in their limits.
I always found the most interesting things in the Sups as they always contained the cool technical stuff.
Having to put things in the Sups because it doesn't fit in their limits.
I always found the most interesting things in the Sups as they always contained the cool technical stuff.
August 31, 2026 at 2:09 AM
💯 this!!!
Gene fusions drive ~16% of all cancers & 50-70% of childhood ALL. But standard scRNA-seq can't see them — the assays aren't built to capture fusion breakpoints. We built a way to fix that. @aliciao.bsky.social @sadras-t.bsky.social @petermaccc.bsky.social @onjcri.org.au @10xgenomics.bsky.social 🧵
Closing the fusion-detection gap in single-cell RNA-seq with a scalable, probe-based workflow https://www.biorxiv.org/content/10.64898/2026.08.26.747171v1
August 31, 2026 at 1:40 AM
Gene fusions drive ~16% of all cancers & 50-70% of childhood ALL. But standard scRNA-seq can't see them — the assays aren't built to capture fusion breakpoints. We built a way to fix that. @aliciao.bsky.social @sadras-t.bsky.social @petermaccc.bsky.social @onjcri.org.au @10xgenomics.bsky.social 🧵
Reposted by Jovana Maksimovic
World-leading Aussie science fighting #AntimicrobialResistance!
PhD student George Bouras added 17M bacterial protein predictions to the #AlphaFold database.
This was made possible by a partnership between BioCommons & @pawseycentre.bsky.social to containerise #ColabFold on Setonix.
Read more 🔗
PhD student George Bouras added 17M bacterial protein predictions to the #AlphaFold database.
This was made possible by a partnership between BioCommons & @pawseycentre.bsky.social to containerise #ColabFold on Setonix.
Read more 🔗
World-leading Australian science: 17M protein structures added to the AlphaFold Database to accelerate the fight against antimicrobial resistance — Australian BioCommons
Australian researcher, George Bouras, has recently contributed an extraordinary 17 million protein predictions to the AlphaFold Protein Structure Database. This work was possible thanks to the availability of the ColabFold tool on Setonix AMD, the result of collaboration between BioCommons and the P
www.biocommons.org.au
June 4, 2026 at 11:56 PM
World-leading Aussie science fighting #AntimicrobialResistance!
PhD student George Bouras added 17M bacterial protein predictions to the #AlphaFold database.
This was made possible by a partnership between BioCommons & @pawseycentre.bsky.social to containerise #ColabFold on Setonix.
Read more 🔗
PhD student George Bouras added 17M bacterial protein predictions to the #AlphaFold database.
This was made possible by a partnership between BioCommons & @pawseycentre.bsky.social to containerise #ColabFold on Setonix.
Read more 🔗
Enjoying some sunshine ☀️ and science 🧪🧬 in Brisbane at the @cancerbioinfoau.bsky.social conference! Come and say hi at poster 27 - especially if you want to know how to easily detect fusion transcripts in single cells! #CBA2026
June 5, 2026 at 12:12 AM
Enjoying some sunshine ☀️ and science 🧪🧬 in Brisbane at the @cancerbioinfoau.bsky.social conference! Come and say hi at poster 27 - especially if you want to know how to easily detect fusion transcripts in single cells! #CBA2026
Reposted by Jovana Maksimovic
Been years since I commuted to work. Off to the @cancerbioinfoau.bsky.social conference today in Brisbane. Still working out what #ConferneceSwag we will have #illumina #bioinformatics #DRAGEN
June 4, 2026 at 8:35 PM
Been years since I commuted to work. Off to the @cancerbioinfoau.bsky.social conference today in Brisbane. Still working out what #ConferneceSwag we will have #illumina #bioinformatics #DRAGEN
Reposted by Jovana Maksimovic
📢 MIG Seminar: From Single Cells to Clinical Insights: Spatial Multi-Omics and the Future of Precision Oncology
🗓️ Fri, May 29 | ⏰ 12 - 1 pm AEST
📍 Agar Theatre (G003), Biosciences 4 (147)
🎙️ Associate Professor Arutha Kulasinghe, University of Queensland
🧍♂️In-person only
#Immunotherapy #Biomarkers
🗓️ Fri, May 29 | ⏰ 12 - 1 pm AEST
📍 Agar Theatre (G003), Biosciences 4 (147)
🎙️ Associate Professor Arutha Kulasinghe, University of Queensland
🧍♂️In-person only
#Immunotherapy #Biomarkers
MIG Seminar: Associate Professor Arutha Kulasinghe, University of Queensland
Title: From Single Cells to Clinical Insights: Spatial Multi-Omics and the Future of Precision Oncology Abstract Resistance to immunot...
events.unimelb.edu.au
May 12, 2026 at 7:30 AM
📢 MIG Seminar: From Single Cells to Clinical Insights: Spatial Multi-Omics and the Future of Precision Oncology
🗓️ Fri, May 29 | ⏰ 12 - 1 pm AEST
📍 Agar Theatre (G003), Biosciences 4 (147)
🎙️ Associate Professor Arutha Kulasinghe, University of Queensland
🧍♂️In-person only
#Immunotherapy #Biomarkers
🗓️ Fri, May 29 | ⏰ 12 - 1 pm AEST
📍 Agar Theatre (G003), Biosciences 4 (147)
🎙️ Associate Professor Arutha Kulasinghe, University of Queensland
🧍♂️In-person only
#Immunotherapy #Biomarkers
Reposted by Jovana Maksimovic
📢 MIG Workshop: Multivariate analysis for omics data
🗓️ Thur, Jun 4 | ⏰ 9:30 am - 12:00 pm AEDT
📍 Online Event
🎙️ Prof. Kim-Anh Lê Cao
💰 Booking fee fully refunded
#MultiOmics #DataIntegration #mixOmics #R
🗓️ Thur, Jun 4 | ⏰ 9:30 am - 12:00 pm AEDT
📍 Online Event
🎙️ Prof. Kim-Anh Lê Cao
💰 Booking fee fully refunded
#MultiOmics #DataIntegration #mixOmics #R
MIG Workshop: Multivariate analysis for omics data
About the Event Technological improvements have allowed for the collection of data from different molecular compartments (e.g. gene expression,...
events.unimelb.edu.au
May 12, 2026 at 7:35 AM
📢 MIG Workshop: Multivariate analysis for omics data
🗓️ Thur, Jun 4 | ⏰ 9:30 am - 12:00 pm AEDT
📍 Online Event
🎙️ Prof. Kim-Anh Lê Cao
💰 Booking fee fully refunded
#MultiOmics #DataIntegration #mixOmics #R
🗓️ Thur, Jun 4 | ⏰ 9:30 am - 12:00 pm AEDT
📍 Online Event
🎙️ Prof. Kim-Anh Lê Cao
💰 Booking fee fully refunded
#MultiOmics #DataIntegration #mixOmics #R
Reposted by Jovana Maksimovic
Pipeline release! nf-core/raredisease v3.0.0 - 3.0.0 - Mario!
Please see the changelog: https://github.com/nf-core/raredisease/releases/tag/3.0.0
Please see the changelog: https://github.com/nf-core/raredisease/releases/tag/3.0.0
Release 3.0.0 - Mario · nf-core/raredisease
What's Changed
nf-test for subworkflows - I by @ramprasadn in #695
Important! Template update for nf-core/tools v3.3.2 by @nf-core-bot in #712
Resolve inconsistencies in schema JSON definitions by...
github.com
May 11, 2026 at 10:35 PM
Pipeline release! nf-core/raredisease v3.0.0 - 3.0.0 - Mario!
Please see the changelog: https://github.com/nf-core/raredisease/releases/tag/3.0.0
Please see the changelog: https://github.com/nf-core/raredisease/releases/tag/3.0.0
Reposted by Jovana Maksimovic
Today, on #InternationalNursesDay, we celebrate the extraordinary nurses at Peter Mac and beyond.
Our #nurses provide some of the most specialised cancer care in the world - constantly pushing the boundaries of what exceptional cancer care looks like.
Our #nurses provide some of the most specialised cancer care in the world - constantly pushing the boundaries of what exceptional cancer care looks like.
May 11, 2026 at 11:39 PM
Today, on #InternationalNursesDay, we celebrate the extraordinary nurses at Peter Mac and beyond.
Our #nurses provide some of the most specialised cancer care in the world - constantly pushing the boundaries of what exceptional cancer care looks like.
Our #nurses provide some of the most specialised cancer care in the world - constantly pushing the boundaries of what exceptional cancer care looks like.
Reposted by Jovana Maksimovic
We have colleagues who put their blood, sweat and tears into detailed proposals for this funding scheme, only to find out they will all go in the bin. We still have no clarity on what ARC funding schemes are going to look like next year either. www.abc.net.au/listen/progr...
May 10, 2026 at 1:55 AM
We have colleagues who put their blood, sweat and tears into detailed proposals for this funding scheme, only to find out they will all go in the bin. We still have no clarity on what ARC funding schemes are going to look like next year either. www.abc.net.au/listen/progr...
Reposted by Jovana Maksimovic
The high-speed logistics of a lung cancer cell.
Watch GFP-Rab25 (Gold) move cargo through the internal recycling pathway of A549 cells.
Static maps are great, but time-lapse shows the real traffic.
Want your science/tech to be highlighted? DM me at Viroscope!
Watch GFP-Rab25 (Gold) move cargo through the internal recycling pathway of A549 cells.
Static maps are great, but time-lapse shows the real traffic.
Want your science/tech to be highlighted? DM me at Viroscope!
April 28, 2026 at 9:10 AM
The high-speed logistics of a lung cancer cell.
Watch GFP-Rab25 (Gold) move cargo through the internal recycling pathway of A549 cells.
Static maps are great, but time-lapse shows the real traffic.
Want your science/tech to be highlighted? DM me at Viroscope!
Watch GFP-Rab25 (Gold) move cargo through the internal recycling pathway of A549 cells.
Static maps are great, but time-lapse shows the real traffic.
Want your science/tech to be highlighted? DM me at Viroscope!
Reposted by Jovana Maksimovic
SpatialBench: Comparative cross-platform benchmarking of high-resolution spatial transcriptomics using matched mouse lymphoid tissue #SingleCell 🧪🧬🖥️
https://www.biorxiv.org/content/10.64898/2026.04.29.721531v1
https://www.biorxiv.org/content/10.64898/2026.04.29.721531v1
May 2, 2026 at 7:00 AM
SpatialBench: Comparative cross-platform benchmarking of high-resolution spatial transcriptomics using matched mouse lymphoid tissue #SingleCell 🧪🧬🖥️
https://www.biorxiv.org/content/10.64898/2026.04.29.721531v1
https://www.biorxiv.org/content/10.64898/2026.04.29.721531v1
Reposted by Jovana Maksimovic
roxygen2 8.0.0 out now: opensource.posit.co/blog/2026-05... ! So many goodies in this release including S7 support, tons of R6 improvement, a new config style, fewer dependencies, and so so many bug fixes #rstats
roxygen2 8.0.0
roxygen2 8.0.0 is now on CRAN, with first-class support for S7, a bunch of R6 improvements, a new configuration style, and a slimmer dependency footprint.
opensource.posit.co
May 1, 2026 at 8:35 PM
roxygen2 8.0.0 out now: opensource.posit.co/blog/2026-05... ! So many goodies in this release including S7 support, tons of R6 improvement, a new config style, fewer dependencies, and so so many bug fixes #rstats
Reposted by Jovana Maksimovic
🚀 We’re excited to share the release of Bioconductor 3.23, featuring:
✅2418 software packages (94 new)
✅437 experiment data packages (5 new)
✅928 annotation packages
✅8 books (2 new)
✅28 workflows
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
✅2418 software packages (94 new)
✅437 experiment data packages (5 new)
✅928 annotation packages
✅8 books (2 new)
✅28 workflows
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
April 30, 2026 at 10:00 AM
🚀 We’re excited to share the release of Bioconductor 3.23, featuring:
✅2418 software packages (94 new)
✅437 experiment data packages (5 new)
✅928 annotation packages
✅8 books (2 new)
✅28 workflows
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
✅2418 software packages (94 new)
✅437 experiment data packages (5 new)
✅928 annotation packages
✅8 books (2 new)
✅28 workflows
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
🤯🤯🤯
Excited to announce our new study (w/ @maxkrummel.bsky.social) published today @nature.com: Macrophages “hold our living identities” by taking tiny bites from living cells and presenting this information to CD8 T cells.
www.nature.com/articles/s41...
#immunology #cellbiology @immunox.bsky.social
www.nature.com/articles/s41...
#immunology #cellbiology @immunox.bsky.social
Submicrometre sampling of living cells by macrophages - Nature
Macrophages can sample antigens from living cells through a trogocytosis-like mechanism that routes ingested material away from degradation, a finding that delineates a previously unknown pathway...
www.nature.com
April 30, 2026 at 7:58 AM
🤯🤯🤯
Reposted by Jovana Maksimovic
We're looking for a postdoctoral fellow to work at the intersection of ecology and data science 🧪
www.tepunahamatatini.ac.nz/posts/postdo...
#movingtonewzealand #movingtonz
www.tepunahamatatini.ac.nz/posts/postdo...
#movingtonewzealand #movingtonz
Postdoctoral fellowship in ecology and data science
Join the Centre for Sustainability Research at the University of Otago as a postdoctoral research fellow in ecology and data science.
www.tepunahamatatini.ac.nz
April 29, 2026 at 8:30 PM
We're looking for a postdoctoral fellow to work at the intersection of ecology and data science 🧪
www.tepunahamatatini.ac.nz/posts/postdo...
#movingtonewzealand #movingtonz
www.tepunahamatatini.ac.nz/posts/postdo...
#movingtonewzealand #movingtonz
Reposted by Jovana Maksimovic
We are recruiting a PI in biomedical data science at @bakerresearchau.bsky.social in Melbourne!
A fantastic opportunity and do get in touch if any q's! www.seek.com.au/job/91619982...
A fantastic opportunity and do get in touch if any q's! www.seek.com.au/job/91619982...
Laboratory Head in Biomedical Data Science Job in Melbourne VIC - SEEK
Lead a biomedical data science lab, secure funding, publish research and collaborate globally to drive impactful cardiometabolic outcomes.
www.seek.com.au
April 20, 2026 at 9:34 AM
We are recruiting a PI in biomedical data science at @bakerresearchau.bsky.social in Melbourne!
A fantastic opportunity and do get in touch if any q's! www.seek.com.au/job/91619982...
A fantastic opportunity and do get in touch if any q's! www.seek.com.au/job/91619982...
Reposted by Jovana Maksimovic
🚀 After BioC2026 in Seattle, we’ll host a Bioconductor hackathon for the two days following the conference. This is a great opportunity to collaborate, build, and contribute to open-source bioinformatics projects.
📅 13–14 Aug 2026
Find more info here: bit.ly/4sHMe5m
Apply here: bit.ly/4cuQQpr
📅 13–14 Aug 2026
Find more info here: bit.ly/4sHMe5m
Apply here: bit.ly/4cuQQpr
BiocNA2026 Hackathon Participation
A Bioconductor-themed hackathon is going to held in the two days after Bioc North America (August 13th and 14th). If you are interested in attending, please supply some brief information about your…
bit.ly
April 20, 2026 at 10:00 AM
🚀 After BioC2026 in Seattle, we’ll host a Bioconductor hackathon for the two days following the conference. This is a great opportunity to collaborate, build, and contribute to open-source bioinformatics projects.
📅 13–14 Aug 2026
Find more info here: bit.ly/4sHMe5m
Apply here: bit.ly/4cuQQpr
📅 13–14 Aug 2026
Find more info here: bit.ly/4sHMe5m
Apply here: bit.ly/4cuQQpr
Reposted by Jovana Maksimovic
Blog post on "The AI Rewrite Dilemma": lh3.github.io/2026/04/17/t...
The AI Rewrite Dilemma
lh3.github.io
April 17, 2026 at 8:56 PM
Blog post on "The AI Rewrite Dilemma": lh3.github.io/2026/04/17/t...