Works by Friedman, Ran

Results: 49

An interactive computer lab of the galvanic cell for students in biochemistry.

Published in:

Biochemistry & Molecular Biology Education, 2018, v. 46, n. 1, p. 58, doi. 10.1002/bmb.21091

By:

Ahlstrand, Emma;
Buetti‐Dinh, Antoine;
Friedman, Ran

Publication type:

Article

Cover Picture: Special Issue: Protein Simulations – Current State of the Art (Isr. J. Chem. 7/2020).

Published in:

Israel Journal of Chemistry, 2020, v. 60, n. 7, p. 652, doi. 10.1002/ijch.202080701

By:

Friedman, Ran;
Levy, Yaakov

Publication type:

Article

Special Issue: Protein Simulations – Current State of the Art.

Published in:

Israel Journal of Chemistry, 2020, v. 60, n. 7, p. 654, doi. 10.1002/ijch.202000052

By:

Friedman, Ran;
Levy, Yaakov

Publication type:

Article

Simulations Studies of Protein Kinases that are Molecular Targets in Cancer.

Published in:

Israel Journal of Chemistry, 2020, v. 60, n. 7, p. 667, doi. 10.1002/ijch.202000015

By:

Friedman, Ran;
Bjelic, Sinisa

Publication type:

Article

Charge Transfer in Proteins: In Celebration of Hemi Gutman's 80 th Birthday.

Published in:

2017

By:

Friedman, Ran;
Agmon, Noam

Publication type:

Editorial

Protein-ion Interactions: Simulations of Bovine Serum Albumin in Physiological Solutions of NaCl, KCl and LiCl.

Published in:

Israel Journal of Chemistry, 2017, v. 57, n. 5, p. 403, doi. 10.1002/ijch.201600119

By:

Becconi, Olga;
Ahlstrand, Emma;
Salis, Andrea;
Friedman, Ran

Publication type:

Article

Proton Transfer on the Molecular Surface of Proteins and Model Systems.

Published in:

Israel Journal of Chemistry, 2009, v. 49, n. 2, p. 149, doi. 10.1560/IJC.49.2.149

By:

Friedman, Ran

Publication type:

Article

Correction to: Exciton effect in new generation of carbon nanotubes: graphdiyne nanotubes.

Published in:

2023

By:

Houshmand, Fatemeh;
Friedman, Ran;
Jalili, Seifollah;
Schofield, Jeremy

Publication type:

Correction Notice

Palbociclib can overcome mutations in cyclin dependent kinase 6 that break hydrogen bonds between the drug and the protein.

Published in:

Protein Science: A Publication of the Protein Society, 2017, v. 26, n. 4, p. 870, doi. 10.1002/pro.3135

By:

Hernandez Maganhi, Stella;
Jensen, Patrizia;
Caracelli, Ignez;
Zukerman Schpector, Julio;
Fröhling, Stefan;
Friedman, Ran

Publication type:

Article

Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-019-3337-9

By:

Buetti-Dinh, Antoine;
Herold, Malte;
Christel, Stephan;
Hajjami, Mohamed El;
Delogu, Francesco;
Ilie, Olga;
Bellenberg, Sören;
Wilmes, Paul;
Poetsch, Ansgar;
Sand, Wolfgang;
Vera, Mario;
Pivkin, Igor V.;
Friedman, Ran;
Dopson, Mark

Publication type:

Article

New paradigms in actomyosin energy transduction: Critical evaluation of non‐traditional models for orthophosphate release.

Published in:

BioEssays, 2023, v. 45, n. 9, p. 1, doi. 10.1002/bies.202300040

By:

Månsson, Alf;
Ušaj, Marko;
Moretto, Luisa;
Matusovsky, Oleg;
Velayuthan, Lok Priya;
Friedman, Ran;
Rassier, Dilson E.

Publication type:

Article

Diffusion of anionic and neutral GFP derivatives through plasmodesmata in epidermal cells of Nicotiana benthamiana.

Published in:

Protoplasma, 2008, v. 234, n. 1-4, p. 13, doi. 10.1007/s00709-008-0014-7

By:

Svetlana Dashevskaya;
Ronen Kopito;
Ran Friedman;
Michael Elbaum;
Bernard Epel

Publication type:

Article

Deciphering the molecular mechanism of FLT3 resistance mutations.

Published in:

FEBS Journal, 2020, v. 287, n. 15, p. 3200, doi. 10.1111/febs.15209

By:

Georgoulia, Panagiota S.;
Bjelic, Sinisa;
Friedman, Ran

Publication type:

Article

Exploring the Impact of Protein Chain Selection in Binding Energy Calculations with DFT.

Published in:

ChemPhysChem, 2024, v. 25, n. 24, p. 1, doi. 10.1002/cphc.202400119

By:

Lindahl, Erik;
Friedman, Ran

Publication type:

Article

Estimating the Gibbs Hydration Energies of Actinium and Trans‐Plutonium Actinides.

Published in:

ChemPhysChem, 2023, v. 24, n. 2, p. 1, doi. 10.1002/cphc.202200516

By:

Friedman, Ran

Publication type:

Article

Sensitivity Analysis of the NPM-ALK Signalling Network Reveals Important Pathways for Anaplastic Large Cell Lymphoma Combination Therapy.

Published in:

PLoS ONE, 2016, v. 11, n. 9, p. 1, doi. 10.1371/journal.pone.0163011

By:

Buetti-Dinh, Antoine;
O’Hare, Thomas;
Friedman, Ran

Publication type:

Article

Biological Membranes in Extreme Conditions: Simulations of Anionic Archaeal Tetraether Lipid Membranes.

Published in:

PLoS ONE, 2016, v. 11, n. 5, p. 1, doi. 10.1371/journal.pone.0155287

By:

Pineda De Castro, Luis Felipe;
Dopson, Mark;
Friedman, Ran

Publication type:

Article

Stochastic modelling of tyrosine kinase inhibitor rotation therapy in chronic myeloid leukaemia.

Published in:

2019

By:

Lindström, H. Jonathan G.;
de Wijn, Astrid S.;
Friedman, Ran

Publication type:

journal article

Computer simulations of the signalling network in FLT3 +-acute myeloid leukaemia – indications for an optimal dosage of inhibitors against FLT3 and CDK6.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2145-y

By:

Buetti-Dinh, Antoine;
Friedman, Ran

Publication type:

Article

Specific Ion and Concentration Effects in Acetate Solutions with Na+, K+ and Cs+.

Published in:

ChemPhysChem, 2019, v. 20, n. 8, p. 1006, doi. 10.1002/cphc.201900163

By:

Friedman, Ran

Publication type:

Article

Discovery of Plasmepsin Inhibitors by Fragment-Based Docking and Consensus Scoring.

Published in:

ChemMedChem, 2009, v. 4, n. 8, p. 1317, doi. 10.1002/cmdc.200900078

By:

Friedman, Ran;
Caflisch, Amedeo

Publication type:

Article

Inferring time‑dependent population growth rates in cell cultures undergoing adaptation.

Published in:

BMC Bioinformatics, 2020, v. 21, p. 1, doi. 10.1186/s12859-020-03887-7

By:

Lindström, H. Jonathan G.;
Friedman, Ran

Publication type:

Article

Protein Surface Dynamics: Interaction with Water and Small Solutes.

Published in:

Journal of Biological Physics, 2005, v. 31, n. 3/4, p. 433, doi. 10.1007/s10867-005-0171-2

By:

Friedman, Ran;
Nachliel, Esther;
Gutman, Menachem

Publication type:

Article

Clustering of atomic displacement parameters in bovine trypsin reveals a distributed lattice of atoms with shared chemical properties.

Published in:

Scientific Reports, 2019, v. 9, n. 1, p. 1, doi. 10.1038/s41598-019-55777-5

By:

Gagnér, Viktor Ahlberg;
Lundholm, Ida;
Garcia-Bonete, Maria-Jose;
Rodilla, Helena;
Friedman, Ran;
Zhaunerchyk, Vitali;
Bourenkov, Gleb;
Schneider, Thomas;
Stake, Jan;
Katona, Gergely

Publication type:

Article

Combination strategies to overcome drug resistance in FLT+ acute myeloid leukaemia.

Published in:

Cancer Cell International, 2023, v. 23, n. 1, p. 1, doi. 10.1186/s12935-023-03000-x

By:

Yang, Jingmei;
Friedman, Ran

Publication type:

Article

Rotating between ponatinib and imatinib temporarily increases the efficacy of imatinib as shown in a chronic myeloid leukaemia model.

Published in:

Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-09048-5

By:

Lindström, H. Jonathan G.;
Friedman, Ran

Publication type:

Article

Acute Toxicity-Supported Chronic Toxicity Prediction: A k-Nearest Neighbor Coupled Read-Across Strategy.

Published in:

International Journal of Molecular Sciences, 2015, v. 16, n. 5, p. 11659, doi. 10.3390/ijms160511659

By:

Chavan, Swapnil;
Friedman, Ran;
Nicholls, Ian A.

Publication type:

Article

Author Correction: Dilution of whisky – the molecular perspective.

Published in:

2018

By:

Karlsson, Björn C. G.;
Friedman, Ran

Publication type:

Correction Notice

Simulations of Biomolecules in Electrolyte Solutions.

Published in:

Advanced Theory & Simulations, 2019, v. 2, n. 4, p. N.PAG, doi. 10.1002/adts.201800163

By:

Friedman, Ran

Publication type:

Article

Dilution of whisky - the molecular perspective.

Published in:

Scientific Reports, 2017, v. 7, n. 1, p. 1, doi. 10.1038/s41598-017-06423-5

By:

Karlsson, Björn C. G.;
Friedman, Ran

Publication type:

Article

Indocyanine green enhanced near-infrared laser treatment of murine mammary carcinoma.

Published in:

International Journal of Cancer, 2012, v. 130, n. 5, p. 1208, doi. 10.1002/ijc.26126

By:

Shafirstein, Gal;
Bäumler, Wolfgang;
Hennings, Leah J.;
Siegel, Eric R.;
Friedman, Ran;
Moreno, Mauricio A.;
Webber, Jessica;
Jackson, Cassie;
Griffin, Robert J.

Publication type:

Article

Drug Resistance Missense Mutations in Cancer Are Subject to Evolutionary Constraints.

Published in:

PLoS ONE, 2013, v. 8, n. 12, p. 1, doi. 10.1371/journal.pone.0082059

By:

Friedman, Ran

Publication type:

Article

Interaction energies between metal ions (Zn2+ and Cd2+) and biologically relevant ligands.

Published in:

International Journal of Quantum Chemistry, 2013, v. 113, n. 23, p. 2554, doi. 10.1002/qua.24506

By:

Ahlstrand, Emma;
Spångberg, Daniel;
Hermansson, Kersti;
Friedman, Ran

Publication type:

Article

Wordom: A user-friendly program for the analysis of molecular structures, trajectories, and free energy surfaces.

Published in:

Journal of Computational Chemistry, 2011, v. 32, n. 6, p. 1183, doi. 10.1002/jcc.21688

By:

Seeber, Michele;
Felline, Angelo;
Raimondi, Francesco;
Muff, Stefanie;
Friedman, Ran;
Rao, Francesco;
Caflisch, Amedeo;
Fanelli, Francesca

Publication type:

Article

The molecular mechanism behind resistance of the kinase FLT3 to the inhibitor quizartinib.

Published in:

Proteins, 2017, v. 85, n. 11, p. 2143, doi. 10.1002/prot.25368

By:

Friedman, Ran

Publication type:

Article

Wild type and mutants of the HET-s(218-289) prion show different flexibility at fibrillar ends: A simulation study.

Published in:

Proteins, 2014, v. 82, n. 3, p. 399, doi. 10.1002/prot.24402

By:

Friedman, Ran;
Caflisch, Amedeo

Publication type:

Article

On the orientation of the catalytic dyad in aspartic proteases.

Published in:

Proteins, 2010, v. 78, n. 6, p. 1575, doi. 10.1002/prot.22674

By:

Friedman, Ran;
Caflisch, Amedeo

Publication type:

Article

Pepsinogen-like activation intermediate of plasmepsin II revealed by molecular dynamics analysis.

Published in:

Proteins, 2008, v. 73, n. 4, p. 814, doi. 10.1002/prot.22105

By:

Friedman, Ran;
Caflisch, Amedeo

Publication type:

Article

Molecular dynamics study of a calmodulin-like protein with an IQ peptide: Spontaneous refolding of the protein around the peptide.

Published in:

Proteins, 2006, v. 64, n. 1, p. 133, doi. 10.1002/prot.20956

By:

Ganoth, Assaf;
Nachliel, Esther;
Friedman, Ran;
Gutman, Menachem

Publication type:

Article

A computational study of hedgehog signalling involved in basal cell carcinoma reveals the potential and limitation of combination therapy.

Published in:

2018

By:

Buetti-Dinh, Antoine;
Jensen, Rebecca;
Friedman, Ran

Publication type:

journal article

Multistep orthophosphate release tunes actomyosin energy transduction.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-32110-9

By:

Moretto, Luisa;
Ušaj, Marko;
Matusovsky, Oleg;
Rassier, Dilson E.;
Friedman, Ran;
Månsson, Alf

Publication type:

Article

The protonation state of the catalytic aspartates in plasmepsin II

Published in:

FEBS Letters, 2007, v. 581, n. 21, p. 4120, doi. 10.1016/j.febslet.2007.07.033

By:

Friedman, Ran;
Caflisch, Amedeo

Publication type:

Article

Molecular dynamics simulations of palmitate entry into the hydrophobic pocket of the fatty acid binding protein

Published in:

FEBS Letters, 2007, v. 581, n. 6, p. 1243, doi. 10.1016/j.febslet.2007.02.033

By:

Tsfadia, Yossi;
Friedman, Ran;
Kadmon, Jonathan;
Selzer, Anna;
Nachliel, Esther;
Gutman, Menachem

Publication type:

Article

Understanding Conformational Dynamics of Complex Lipid Mixtures Relevant to Biology.

Published in:

2018

By:

Friedman, Ran;
Khalid, Syma;
Aponte-Santamaría, Camilo;
Arutyunova, Elena;
Becker, Marlon;
Boyd, Kevin J.;
Christensen, Mikkel;
Coimbra, João T. S.;
Concilio, Simona;
Daday, Csaba;
van Eerden, Floris J.;
Fernandes, Pedro A.;
Gräter, Frauke;
Hakobyan, Davit;
Heuer, Andreas;
Karathanou, Konstantina;
Keller, Fabian;
Lemieux, M. Joanne;
Marrink, Siewert J.;
May, Eric R.

Publication type:

journal article

Membrane-Ion Interactions.

Published in:

2018

By:

Friedman, Ran

Publication type:

journal article

Membrane Protein Structure, Function, and Dynamics: a Perspective from Experiments and Theory.

Published in:

Journal of Membrane Biology, 2015, v. 248, n. 4, p. 611, doi. 10.1007/s00232-015-9802-0

By:

Cournia, Zoe;
Allen, Toby;
Andricioaei, Ioan;
Antonny, Bruno;
Baum, Daniel;
Brannigan, Grace;
Buchete, Nicolae-Viorel;
Deckman, Jason;
Delemotte, Lucie;
Val, Coral;
Friedman, Ran;
Gkeka, Paraskevi;
Hege, Hans-Christian;
Hénin, Jérôme;
Kasimova, Marina;
Kolocouris, Antonios;
Klein, Michael;
Khalid, Syma;
Lemieux, M.;
Lindow, Norbert

Publication type:

Article

Combating drug resistance in acute myeloid leukaemia by drug rotations: the effects of quizartinib and pexidartinib.

Published in:

Cancer Cell International, 2021, v. 21, n. 1, p. 1, doi. 10.1186/s12935-021-01856-5

By:

Yang, Jingmei;
Lindström, H. Jonathan G.;
Friedman, Ran

Publication type:

Article

The effects of combination treatments on drug resistance in chronic myeloid leukaemia: an evaluation of the tyrosine kinase inhibitors axitinib and asciminib.

Published in:

2020

By:

G. Lindström, H. Jonathan;
Friedman, Ran

Publication type:

journal article

Beyond IC50—A computational dynamic model of drug resistance in enzyme inhibition treatment.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012570

By:

Roadnight Sheehan, J.;
de Wijn, Astrid S.;
Freire, Thales Souza;
Friedman, Ran

Publication type:

Article