Sofia Kudasheva

PhD student at @EarlhamInst 🧬🧠 (she/her)

[Ming "Tommy" Tang @tangming2005]

"Here we map cis-expression quantitative trait loci (eQTLs) across 2.2 million single cells using intestinal biopsies and blood from 421 individuals, including 125 with inflammatory bowel disease (IBD)." https://t.co/4xo145UAAT

[Jess Peers @jesspeers12]

First paper from my PhD (pseudogenization in cheetah) just got accepted in Evolution!!

As if that wasn’t cool enough, I got the email whilst staying at the Cheetah Conservation Fund in Namibia learning about conservation genetics and watching cheetahs!

@EarlhamInst @NRPBIODTP

[Alper Akay @alperakay_]

We have a Big C Cancer Charity @bigctweets funded 4-year PhD studentship in our lab to study RNA splicing and modifications in human cancers. Deadline 19 January, open to UK fee students. @biouea @NorwichRNAClub @NorwichResearch https://t.co/MeSrUEMrOw

[Tarang Mehta @TK_mehta]

🧬🐣🔬PhD in Developmental Genetics!
🫱🏻‍🫲🏽Join our team @LivUniISMIB and @OfficialUoM for a fully funded @BBSRC PhD project! Tackle unexplored #developmental #pathologies through #genomics, #bioinformatics, and #functionalassays: https://t.co/U1FZxVTetJ
✅ Deadline: 31 Jan 2025

[bioRxiv Bioinfo @biorxiv_bioinfo]

Prediction of peptide structural conformations with AlphaFold2 https://t.co/VTlbqOAleF #biorxiv_bioinfo

[Mia Berelson @MiaBerelson]

Very grateful to have been awarded the John Innes Foundation prize for Excellence in Science Communication. Especially pleased that it was alongside @beeshaw_ who has always supported me in my SciComm journey 🌿

[Jeff Nivala @jeffnivala]

Published today in @Nature, we describe an approach for single-molecule protein reading on @nanopore arrays. By utilizing ClpX unfoldase to ratchet proteins through a CsgG nanopore, we achieved single-amino-acid sensitivity. https://t.co/ZTFNZkwpcj

[Fabian Theis @fabian_theis]

Matthias @labs_mann shows first joint proteome and RNA workflow in same cell - very exciting, and lots of promises to build multimodal atlases in nearer future!

[Michael Okun @MichaelOkun]

Does the brain change during pregnancy? You bet it does. How about doing 26 MRI scans on a single person pre-conception to 2 years post-partum. WOW! Laura Pritschet and colleagues nailed it with their new paper in @NatureNeuro.
Key Points:
- The authors point out that pregnancy is a period of profound hormonal and physiological changes.
- The authors did something incredible by mapping neuroanatomical changes in an individual from preconception through two years postpartum.
- Boom! There were pronounced decreases in gray matter volume and cortical thickness.
- There were increases in white matter microstructural integrity, ventricle volume and cerebrospinal fluid.
- There were few regions untouched by the 'transition to motherhood.'
My take: This study shows us how a single brain in a single person can be a powerful resource when scanned serially over time. This method is hard to pull off, however what it has the potential to teach us about neuroscience is mind-blowing. Though this paper is only a single subject, the data provides a comprehensive map of the human brain across gestation. It will be interesting to add to the dataset, so we can understand changes across multiple persons and multiple conditions. The convergence of evidence is revealing that pregnancy as associated with dramatic neuroplasticity. How about a shout out to this 38-year-old woman who underwent 26 MRI scans along with blood draws from 3 weeks preconception through 2 years postpartum!
https://t.co/LEnPHzKCcl #pregnancy #brain @ndosenbach @andreashorn_ @EMiddlebrooksMD

[Conesa Lab @Conesa_Lab]

SQANTI3 release alert🚨 Are you a SQANTI3 user? Go ahead and update your installation to v5.2.2, our newest release includes bug fixes, updates and improvements in classification of monoexons, genic introns, NIC and genic categories. Don't miss the update! https://t.co/2SIsilqLWX

[Earlham Institute @EarlhamInst]

📣 Registration has just opened for #Norwich #Nanopore Day, discussing the latest innovations and applications of @oxfordnanopore sequencing in microbial, plant, animal, and human health research.
https://t.co/89TzJ7VTmo

@biouea @JohnInnesCentre @TheQuadram @TheSainsburyLab

[Sofia Kudasheva @kudasonya1]

Excited to present my research at #eshg2024! Come chat to me about brain #isoform annotation and everything long-read at poster P20.012.A during poster viewing session at 1pm on Sunday. 🧠 🧬

[Earlham Institute @EarlhamInst]

PhD Researcher @MiaBerelson is heading to the @MicrobioSoc #MicroAerosols24 conference next week!

Mia will be speaking about her work using #AirSeq to detect airborne crop pathogens.
https://t.co/FPPq2h0IAE

[Sofia Kudasheva @kudasonya1]

Had two fantastic days at #nanoporeconf celebrating 10 years of MinION and all achievements enabled by Nanopore. Very grateful for the chance to present my PhD work and gain new insights from leading long-read scientists :)

[Jess Peers @jesspeers12]

published first author ✅

(and yet another opportunity for me to recommend doing a year in industry at EI)

[Louise Huuki-Myers @lahuuki]

New in @sciencemagazine: our work from @LieberInstitute #spatialDLPFC applies #snRNAseq and #Visium spatial transcriptomic in the DLPFC to better understand anatomical structure and cellular populations in the human brain #PsychENCODE https://t.co/DKZqmG4YDi

[Marcus Stoiber @Stoibs11]

Amazing updates to suite of @nanopore RNA models including m6A, pseudouridine and research results from inosine. So excited to see the biology the community can investigate with these models #NanoporeConf

[Nature Reviews Drug Discovery @NatRevDrugDisc]

RNA-rewriting candidate moves into the clinic https://t.co/VCIeoNbBzA

‘Pre-mRNA trans-splicing’ drugs could offer an alternative to gene replacement therapies for genetic diseases — starting with Stargardt disease. Find out more in this news article

[Crystal Lewis @cghlewis.bsky.social @Cghlewis]

Just a reminder if you have some messy #rstats code, the {styler} package addins can quickly clean it up according to the tidyverse style guide rules.

[Earlham Institute @EarlhamInst]

Next week at #nanoporeconf PhD Researcher Sofia Kudasheva will be discussing her work using a combined #sequencing approach to identify novel #isoforms in the study of neurodevelopmental disorders.

https://t.co/1oOlJ7JfQq

@nanopore @kudasonya1 @WHaerty