Benedetto Polimeni

Researcher at Centre for Genomic Science, Italian Institute of Technology
Bioinformatics | Genomics | RNA

[Benedetto Polimeni @be_poli]

Thrilled to see my first paper as main author published! This idea began years ago and evolved throughout my PhD journey. I'm deeply grateful to everyone involved and who supported me along the way!

[Beatrice Bodega @beatricebodega]

💥✨ How can you quantify the expression of Transposable Elements in #scRNAseq data???
1/3 Have a look to our newly published work on @NAR_Open, where we developed IRescue—a powerful package for quantifying of #transposons expression in #scRNAseq data.
https://t.co/gKgbgSqkP4

[Ivano Legnini @ILegnini]

🐣 So happy! With @francesconica13 and many others we’ve put together a network of >20 labs in Milan working on various flavors of RNA biology. Looking forward to a year of stellar talks by students and postdocs, new ideas, collaborations and much more @RNASociety @lexogen

[Beatrice Bodega @beatricebodega]

🔥⚡️Excited to share the publication of our latest study, where we have uncovered the molecular mechanisms that govern the reactivity of quiescent T cells in early human life. https://t.co/mMyuwZpQ7Y

[Human Cell Atlas @humancellatlas]

Thank you very much to everyone who has attended the #HCA2024GM meeting. It’s been wonderful to connect with everyone and we really hope you’ve enjoyed it.

[Heng Li @lh3lh3]

Published in 2009, bwa-aln is one of the oldest short-read aligners. It remains a popular choice for aligning ancient DNA reads. The following blog post explains the algorithmic reasons. https://t.co/dhFrUtO0iE

[Benedetto Polimeni @be_poli]

@castaldi_davide @gtesta72 @Knoblich_lab @krenn_veronica @naturemethods Congrats Davide!!

[Federica Marasca @FedericaMarasca]

Glad to share this powerful and cool algorithm to quantify transposons in single cell RNA-seq data! Honoured to be part of this amazing team ! Ad maiora !!!

[Beatrice Bodega @beatricebodega]

2/3 IRescue features a unique algorithm that handles UMI deduplication while accounting for sequencing errors, and optimally redistribute the counts from multi-mapping reads through an Expectation-Maximization approach.
https://t.co/I3gZzGwdsK

[Prof. Nikolai Slavov @slavov_n]

UMAP was introduced to biology data with the argument that it 'preserves the global structure of the data' better than t-SNE.

This claim was falsified in a matters arising article.
1/2

[Human Technopole @humantechnopole]

🧐 #MeetTheSpeaker!
“Understanding molecular mechanisms of #genome function, including transposable elements, could highlight novel molecules that could become biomarkers and therapeutic approaches”
Watch the interview with @beatricebodega @LaStatale @INGM
https://t.co/WhA9rCEwkQ

[Human Technopole @humantechnopole]

Thanks to all the speakers and participants of the #Fantom6 Spring Meeting, that brought together biologists from broad areas, technology developers and bioinformaticians to present, discuss and strategize @FANTOM_project

Organised in collaboration with @riken_en @RIKEN_IMS

[Beatrice Bodega @beatricebodega]

Are you an highly motivated bioinformatician? Are you searching for a new position? Our Bioinformatic Unit at INGM, Milan, is hiring ! Please check the advertisement and apply !!

[Heng Li @lh3lh3]

Just learned that gencode/ensembl may have incomplete CDS. For example, the CDS length of ENST00000533813.5 is 704bp, not a multiple of 3. ENST00000532256.1 has a 6bp CDS.

[Tom Morello @tmorello]

Congrats to my former ⁦@Harvard⁩ bandmate ⁦@CarolynBertozzi⁩ on her ⁦@NobelPrize⁩ in chemistry! We won the Ivy League Battle of the Bands in 1986 with our rockin’ group ‘Bored Of Education’, with her on keyboards & me in spandex. https://t.co/LemA6pcSPV

[Genome-Instability&Human-Pathologies @GPathologies]

Thanks everyone for their participation, new projects...new ideas! see you soon

[Chiara Brandas @_chiaa_b93]

Lovely days at @unimib for the #DIMETdays

#phdlife #opendays #science

[Benedetto Polimeni @be_poli]

Cc and many thanks to @beatricebodega and my co-authors @valeriaranzani1 and @FedericaMarasca !

[Benedetto Polimeni @be_poli]

I'm happy to share our pre-print presenting IRescue, a tool to quantify transposable elements expression in scRNA-seq! Check the thread for GitHub link 🧵

[bioRxiv @biorxivpreprint]

IRescue: single cell uncertainty-aware quantification of transposable elements expression https://t.co/PZDtOPvLRc #bioRxiv

[Benedetto Polimeni @be_poli]

IRescue uses the information of all multiple alignments from multimapping reads/UMIs aligned on TEs subfamilies to accurately estimate TE expression levels at single cell resolution. Get IRescue here: https://t.co/6NjZgMlvaW

[Giovanni Pascarella @mokurai79]

Beyond ecstatic to share that our paper is finally out @CellCellPress!
It's been a while since I lastly highlighted the main findings, so here's a refresher for new and old readers with some new data added during the peer-review process (-18)
https://t.co/lsewK3YlA1