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Matti Javanainen Profile
Matti Javanainen

@JavanainenM

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Assistant professor (computational physics), head of BioInterfaces group @Physics_TAU @TampereUni Title of Docent @helsinkiuni, formerly @IOCBPrague @BIOTECH_U

Tampere & Porvoo, Finland
Joined October 2011
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@JavanainenM
Matti Javanainen
4 months
Posting these here as well: Multiple positions (postdoc & PhD) available in my group in Tampere, Finland, see thread:
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@JavanainenM
Matti Javanainen
4 months
* Postdoc on nanoplastic uptake: https://t.co/rlC0OQ3KzX * Postdoc on protein-based foams: https://t.co/SO0Gp01Lw8 * Doctoral researcher on high-throughput simulations: https://t.co/ftN4IP0Fxz * Doctoral researcher on protein-based foams:
lnkd.in
This link will take you to a page that’s not on LinkedIn
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@ramonguixxa
Ramon Guixà-González
7 months
I am looking for a motivated and talented PhD candidate to join my group to study how brain lipids modulate the structure and function of GPCRs in sunny and vibrant Barcelona ☀️🧠 Job post and application details here: https://t.co/YOXZhWChNP
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@alexstubb
Alexander Stubb
9 months
Finland is ranked the Happiest Country in the World for eight years running. Thank you. Kiitos! For us Finns being happy or content with life has at least 5,6 million reasons. In other words we all have our own take on happiness. I personally think that happiness is closely
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@DenysBiriukov
Denys Biriukov
10 months
🚨 I have an open PhD position in my team to work on simulating glycans and their interactions. If you’re passionate about computational biophysics and glycobiology, go ahead and apply! Any shares would be greatly appreciated. 🙃
@CharmmGui
CHARMM-GUI
10 months
[Jobs and Events] Ph.D. position in Computational Biophysics and Glycobiology, Masaryk University, Brno, Czech Republic: https://t.co/x5x54EbXj8
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@v_paavilainen
Ville Paavilainen 🇫🇮🇺🇦
1 year
I have PhD and postdoc positions available in our lab to explore mechanisms of ER protein biogenesis and homeostasis and small molecular modulation, please RT. Expertise in biochemistry, chemical biology and structural biology (especially cryo-EM and cryo-ET) beneficial!
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@scollo_federica
Federica Scollo
1 year
https://t.co/dRZ2XhhjDL I am beyond excited to share that the we got an answer to the question: “Can calmodulin bind to lipids of the cytosolic leaflet of the plasma membrane?”. Please, check it out!
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royalsocietypublishing.org
Abstract. Calmodulin (CaM) is a ubiquitous calcium-sensitive messenger in eukaryotic cells. It was previously shown that CaM possesses an affinity for dive
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@JavanainenM
Matti Javanainen
1 year
Majority of the hands-on work by @TempraCarmelo, co-coordination by Balazs Fabian from @HummerLab @MPIbp, and methodological consultation by @Blendenfleck. Work done at: @Physics_TAU @TampereUni @BIOTECH_UH Funded by: @SuomenAkatemia @EASaatio
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@JavanainenM
Matti Javanainen
1 year
Our computational work examines why—despite applying the finite-size corrections and accounting for interleaflet friction in lipid bilayers—simulations and experiments disagree with respect to lipid diffusion in bilayers and monolayers, and how this could (sometimes) be fixed.
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@JavanainenM
Matti Javanainen
1 year
A new preprint on lipid dynamics in MD simulations! Initially planned as a multidisciplinary work with @SChiantia, we eventually split it into 2 manuscripts: Computational part (out today): https://t.co/vVqZ4AwQDC Experimental part (also fairly fresh!):
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biorxiv.org
Cellular membranes are composed of lipids typically organized in a double-leaflet structure. Interactions between these two leaflets – often referred to as interleaflet coupling – play a crucial role...
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@JavanainenM
Matti Javanainen
1 year
Back from Prague! Attended the PhD defence of Man whom I advised at @IOCBPrague; watched Katarina @cwiklik_lab measure data for future proposals; gave a talk at @JHINST_Prague; met many old&new colleagues; and went for a long hop-scented run along Vltava, followed by some duck 🥰
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@FabioLolicato
Fabio Lolicato
1 year
🚨Jobs Alert🚨@graeter_mbm and I seek 2 postdoctoral researchers with expertise in MD simulations of biological membrane systems. Please apply by September 10🧬🖥️ #SFB1638 #lipidtime @UniHeidelberg @camiloapontelab https://t.co/dPpF7qNqtw 👇👇👇👇👇👇
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@JavanainenM
Matti Javanainen
1 year
My new group at @Physics_TAU @TampereUni has an open postdoc position! Retweets and distribution by other means are highly appreciated☺️ https://t.co/naWRvZhzuE
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@JavanainenM
Matti Javanainen
1 year
6 from Monday on 🫡😅
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@JavanainenM
Matti Javanainen
1 year
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@JavanainenM
Matti Javanainen
1 year
Majority of the work was done at @IOCBPrague, but me, Samuli and Ricky also contributed from @BIOTECH_UH. We're thankful at @CSCfi for computing time. My work was kindly funded by @EASaatio and @SuomenAkatemia.
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@JavanainenM
Matti Javanainen
1 year
It took a while, but we crossed the finish line thanks to the perseverance of twitterless Ricky Nencini and Hector Martinez-Seara. While we see improvement in all our test cases over unscaled CHARMM36 models, prosECCo75 might fail in others. Hence, all feedback is welcome!
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@JavanainenM
Matti Javanainen
1 year
Importantly, prosECCo75 is based on the CHARMM36 model, hence benefiting of decades of great work to capture the structural ensembles of biomolecules.
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@JavanainenM
Matti Javanainen
1 year
prosECCo75 includes parameters for amino acids, lipids, ions, and sugar acids. These are readily available at
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gitlab.com
prosECCo force field using the physically sound 0.75 charge scaling.
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