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Revision as of 12:52, 2 February 2022

Laboratory of Modeling in Biology and Medicine

biophysics · systems biology · bioengineering

Head:
Prof. Tomasz Lipniacki — institutional www
e-mail: tlipnia@ippt.pan.pl or tomek@rice.edu
phone: +48 22 8261281 ext. 409
room: 325

Recent publications of our Lab:

Concentration on demand – a microfluidic system for precise adjustment of the content of single droplets
Zaremba D, Błoński S, Korczyk PM
Chemical Engineering Journal 430(3):132935 (2022) CrossRef | PDF

Molecular insights into receptor binding energetics and neutralization of SARS-CoV-2 variants
M Koehler, A Ray, RA Moreira, B Juniku, AB Poma, D Alsteens
Nature Communications 12(1):6977 (2021) CrossRef | PDF

Direction of epithelial folding defines impact of mechanical forces on epithelial state,
Błoński S, J Aureille, S Badawi, D Zaremba, L Pernet, A Grichine, S Fraboulet, PM Korczyk, P Recho, Ch Guilluy, ME Dolega
Developmental Cell 56:3222–3234 (2021) CrossRef

Fractional response analysis reveals logarithmic cytokine responses in cellular populations
Nienałtowski K, Rigby RE, Walczak J, Zakrzewska KE, Rehwinkel J, Komorowski M
Nature Communications 12:4175 (2021) CrossRef | PDF

Super-spreading events initiated the exponential growth phase of COVID-19 with R₀ higher than initially estimated
Kochańczyk M, Grabowski F, Lipniacki T
Royal Society Open Science 7:200786 (2020) CrossRef | PDF SuppInfo-PDF Correspondence

Quantitative determination of mechanical stability in the novel coro-navirus spike protein
Moreira RA, Chwastyk M, Baker JL, Guzman HV, Poma AB
Nanoscale 12:16409 (2020) CrossRef

Multifunctional platform based on electrospun nanofibers and plasmonic hydrogel: A smart nanostructured pillow for near-infrared light-driven biomedical applications
Nakielski P, Pawłowska S, Rinoldi C, Ziai Y, De Sio L, Urbanek O, Zembrzycki K, Pruchniewski M, Lanzi M, Salatelli E, Calogero A, Kowalewski TA, Yarin AL, Pierini F
ACS Applied Materials & Interfaces (2020) 12(49):54328–5434 CrossRef | PDF

Ultraviolet light-assisted electrospinning of core–shell fully cross-linked P(NIPAAm-co-NIPMAAm) hydrogel-based nanofibers for thermally-induced drug delivery self-regulation
Pawłowska S, Rinoldi C, Nakielski P, Ziai Y, Urbanek O, Li X, Kowalewski TA, Ding B, Pierini F
Advanced Materials Interfaces 2000247 (2020) CrossRef | SuppInfo-PDF SuppMovie-MP4 CoverPicture

Accounting for corner flow unifies the understanding of droplet formation
in microfluidic channels
Korczyk PM, van Steijn V, Blonski S, Zaremba D, Beattie DA, Garstecki P
Nature Communications 10:2528 (2019) CrossRef | PDF SuppInfo-PDF

The limited information capacity of cross-reactive sensors drives the evolutionary
expansion of signaling
Komorowski M, Tawfik DS
Cell Systems 8(1):76–85.e6 (2019) PubMed CrossRef

Cell fate in antiviral response arises in the crosstalk of IRF, NF-κB and JAK/STAT pathways
Czerkies M, Korwek Z, Prus W, Kochańczyk M, Jaruszewicz-Błońska J, Tudelska K, Błoński S, Kimmel M, Brasier AR, Lipniacki T
Nature Communications 9:493 (2018) PubMed CrossRef | PDF SuppInfo-PDF SuppData SuppMovies SuppCode

An information-theoretic framework for deciphering pleiotropic and noisy
biochemical signaling
Jetka T, Nienałtowski K, Filippi S, Stumpf MPH, Komorowski M
Nature Communications 9:4591 (2018) PubMed CrossRef | PDF SuppInfo-PDF

Single-material organic solar cells based on electrospun fullerene-grafted polythiophene nanofibers
Pierini F, Lanzi M, Nakielski P, Pawłowska S, Urbanek O, Zembrzycki K, Kowalewski TA
Macromolecules 50(13):4972–81 (2017) CrossRef

Traveling waves in a coupled reaction–diffusion and difference model of hematopoiesis
Adimy M, Chekroun A, Kaźmierczak B
Journal of Differential Equations 262(7):4085–4128 (2017) CrossRef

The propagation phenomenon of solutions of a parabolic problem on the sphere
Kazmierczak B, Tsai J-C, Bialecki S
Mathematical Models and Methods in Applied Sciences 28(10):2001–2067 (2018) CrossRef

→ All publications

To learn more on our research, you may read our perspective on regulatory pathway modeling (a book chapter in Polish).

@@ Line 55: / Line 55: @@
 * '''Quantitative determination of mechanical stability in the novel coro-navirus spike protein'''<br style="line-height: 50%; margin-bottom:10px"/><span class="pmbm">Moreira RA</span>, <span class="nopmbm">Chwastyk M</span>, <span class="nopmbm">Baker JL</span>, <span class="nopmbm">Guzman HV</span>, <span class="pmbm">Poma AB</span><br style="line-height: 50%; margin-bottom:10px"/>''Nanoscale'' <u>12</u>:16409 (2020) [https://doi.org/10.1039/D0NR03969A CrossRef]
-* '''Multifunctional platform based on electrospun nanofibers and plasmonic hydrogel: A smart nanostructured pillow for near-infrared light-driven biomedical applications'''<br style="line-height: 50%; margin-bottom:10px"/><span class="pmbm">Nakielski&nbsp;P</span>,  <span class="pmbm">Pawłowska&nbsp;S</span>, <span class="pmbm">Rinoldi&nbsp;C</span>, <span class="pmbm">Ziai&nbsp;Y</span>, <span class="nopmbm">De&nbsp;Sio&nbsp;L</span>, <span class="nopmbm">Urbanek&nbsp;O</span>, <span class="pmbm">Zembrzycki&nbsp;K</span>, <span class="pmbm">Pruchniewski&nbsp;M</span>, <span class="nopmbm">Lanzi&nbsp;M</span>, <span class="nopmbm">Salatelli&nbsp;E</span>, <span class="nopmbm">Calogero&nbsp;A</span>, <span class="pmbm">Kowalewski&nbsp;TA</span>, <span class="nopmbm">Yarin&nbsp;AL</span>, <span class="pmbm">Pierini&nbsp;F</span><br style="line-height: 50%; margin-bottom:10px"/>''ACS Applied Materials & Interfaces'' (accepted) [https://dx.doi.org/10.1021/acsami.0c13266 CrossRef]
+* '''Multifunctional platform based on electrospun nanofibers and plasmonic hydrogel: A smart nanostructured pillow for near-infrared light-driven biomedical applications'''<br style="line-height: 50%; margin-bottom:10px"/><span class="pmbm">Nakielski&nbsp;P</span>,  <span class="pmbm">Pawłowska&nbsp;S</span>, <span class="pmbm">Rinoldi&nbsp;C</span>, <span class="pmbm">Ziai&nbsp;Y</span>, <span class="nopmbm">De&nbsp;Sio&nbsp;L</span>, <span class="nopmbm">Urbanek&nbsp;O</span>, <span class="pmbm">Zembrzycki&nbsp;K</span>, <span class="pmbm">Pruchniewski&nbsp;M</span>, <span class="nopmbm">Lanzi&nbsp;M</span>, <span class="nopmbm">Salatelli&nbsp;E</span>, <span class="nopmbm">Calogero&nbsp;A</span>, <span class="pmbm">Kowalewski&nbsp;TA</span>, <span class="nopmbm">Yarin&nbsp;AL</span>, <span class="pmbm">Pierini&nbsp;F</span><br style="line-height: 50%; margin-bottom:10px"/>''ACS Applied Materials & Interfaces'' (2020) <u>12(49)</u>:54328–5434 [https://dx.doi.org/10.1021/acsami.0c13266 CrossRef] | [https://pubs.acs.org/doi/pdf/10.1021/acsami.0c13266 PDF]
 * '''Ultraviolet light-assisted electrospinning of core–shell fully cross-linked P(NIPAAm-<i>co</i>-NIPMAAm) hydrogel-based nanofibers for thermally-induced drug delivery self-regulation'''<br style="line-height: 50%; margin-bottom:10px"/><span class="pmbm">Pawłowska&nbsp;S</span>, <span class="pmbm">Rinoldi&nbsp;C</span>, <span class="pmbm">Nakielski&nbsp;P</span>, <span class="pmbm">Ziai&nbsp;Y</span>, <span class="nopmbm">Urbanek&nbsp;O</span>, <span class="nopmbm">Li&nbsp;X</span>, <span class="pmbm">Kowalewski&nbsp;TA</span>, <span class="nopmbm">Ding&nbsp;B</span>, <span class="pmbm">Pierini&nbsp;F</span><br style="line-height: 50%; margin-bottom:10px"/>''Advanced Materials Interfaces'' 2000247 (2020) [https://doi.org/10.1002/admi.202000247 CrossRef] | [http://pmbm.ippt.pan.pl/publications/supplementary/Pawlowska-2020-AdvMaterInterfaces-SuppInfo.pdf SuppInfo-PDF] [http://pmbm.ippt.pan.pl/publications/supplementary/Pawlowska-2020-AdvMaterInterfaces-SuppMovie.mp4 SuppMovie-MP4]  [https://onlinelibrary.wiley.com/doi/10.1002/admi.202070064 CoverPicture]