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Items: 34

1.

Active fluid with Acidithiobacillus ferrooxidans: correlations between swimming and the oxidation route.

Torrenegra JD, Agudelo-Morimitsu LC, Márquez-Godoy MA, Hernández-Ortiz JP.

J Biol Phys. 2019 Jun;45(2):193-211. doi: 10.1007/s10867-019-09524-6. Epub 2019 May 9.

PMID:
31073789
2.

Structure and proton conduction in sulfonated poly(ether ether ketone) semi-permeable membranes: a multi-scale computational approach.

Molina J, de Pablo JJ, Hernández-Ortiz JP.

Phys Chem Chem Phys. 2019 May 8;21(18):9362-9375. doi: 10.1039/c9cp00598f.

PMID:
30994661
3.

A simple dialysis device for large DNA molecules.

Krerowicz SJ, Hernandez-Ortiz JP, Schwartz DC.

Biotechniques. 2019 Feb;66(2):93-95. doi: 10.2144/btn-2018-0133.

4.

Fluctuations and phase transitions of uniaxial and biaxial liquid crystals using a theoretically informed Monte Carlo and a Landau free energy density.

Villada-Gil S, Palacio-Betancur V, Armas-Pérez JC, de Pablo JJ, Hernández-Ortiz JP.

J Phys Condens Matter. 2019 May 1;31(17):175101. doi: 10.1088/1361-648X/ab0394. Epub 2019 Jan 31.

PMID:
30703761
5.

Microscale Objects via Restructuring of Large, Double-Stranded DNA Molecules.

Krerowicz SJW, Hernandez-Ortiz JP, Schwartz DC.

ACS Appl Mater Interfaces. 2018 Dec 5;10(48):41215-41223. doi: 10.1021/acsami.8b18157. Epub 2018 Nov 19.

PMID:
30403478
6.

Discrete and Continuum Models for the Salt in Crowded Environments of Suspended Charged Particles.

Molina JE, Vasquez-Echeverri A, Schwartz DC, Hernández-Ortiz JP.

J Chem Theory Comput. 2018 Sep 11;14(9):4901-4913. doi: 10.1021/acs.jctc.8b00221. Epub 2018 Aug 15.

PMID:
30044624
7.

Leveling of Polymer Grating Structures upon Heating: Dimension Dependence on the Nanoscale and the Effect of Antiplasticizers.

Olaya-Muñoz DA, Nealey PF, Hernández-Ortiz JP.

ACS Appl Mater Interfaces. 2018 Aug 15;10(32):27432-27443. doi: 10.1021/acsami.8b06611. Epub 2018 Aug 3.

PMID:
30033719
8.

Solubilization of phosphorus from phosphate rocks with Acidithiobacillus thiooxidans following a growing-then-recovery process.

Calle-Castañeda SM, Márquez-Godoy MA, Hernández-Ortiz JP.

World J Microbiol Biotechnol. 2017 Dec 29;34(1):17. doi: 10.1007/s11274-017-2390-7.

PMID:
29288469
9.

Electrostatic confinement and manipulation of DNA molecules for genome analysis.

Kounovsky-Shafer KL, Hernandez-Ortiz JP, Potamousis K, Tsvid G, Place M, Ravindran P, Jo K, Zhou S, Odijk T, de Pablo JJ, Schwartz DC.

Proc Natl Acad Sci U S A. 2017 Dec 19;114(51):13400-13405. doi: 10.1073/pnas.1711069114. Epub 2017 Dec 4.

10.

Sharp Morphological Transitions from Nanoscale Mixed-Anchoring Patterns in Confined Nematic Liquid Crystals.

Armas-Pérez JC, Li X, Martínez-González JA, Smith C, Hernández-Ortiz JP, Nealey PF, de Pablo JJ.

Langmuir. 2017 Oct 31;33(43):12516-12524. doi: 10.1021/acs.langmuir.7b02522. Epub 2017 Oct 13.

PMID:
28946745
11.

Mesoscale martensitic transformation in single crystals of topological defects.

Li X, Martínez-González JA, Hernández-Ortiz JP, Ramírez-Hernández A, Zhou Y, Sadati M, Zhang R, Nealey PF, de Pablo JJ.

Proc Natl Acad Sci U S A. 2017 Sep 19;114(38):10011-10016. doi: 10.1073/pnas.1711207114. Epub 2017 Sep 5.

12.

Parallel O(N) Stokes' solver towards scalable Brownian dynamics of hydrodynamically interacting objects in general geometries.

Zhao X, Li J, Jiang X, Karpeev D, Heinonen O, Smith B, Hernandez-Ortiz JP, de Pablo JJ.

J Chem Phys. 2017 Jun 28;146(24):244114. doi: 10.1063/1.4989545.

PMID:
28668032
13.

Directed Self-Assembly of Colloidal Particles onto Nematic Liquid Crystalline Defects Engineered by Chemically Patterned Surfaces.

Li X, Armas-Pérez JC, Hernández-Ortiz JP, Arges CG, Liu X, Martínez-González JA, Ocola LE, Bishop C, Xie H, de Pablo JJ, Nealey PF.

ACS Nano. 2017 Jun 27;11(6):6492-6501. doi: 10.1021/acsnano.7b03641. Epub 2017 Jun 15.

PMID:
28605183
14.

Directed self-assembly of nematic liquid crystals on chemically patterned surfaces: morphological states and transitions.

Li X, Armas-Perez JC, Martinez-Gonzalez JA, Liu X, Xie H, Bishop C, Hernandez-Ortiz JP, Zhang R, de Pablo JJ, Nealey PF.

Soft Matter. 2016 Oct 19;12(41):8595-8605.

PMID:
27722676
15.

Controlled deformation of vesicles by flexible structured media.

Zhang R, Zhou Y, Martínez-González JA, Hernández-Ortiz JP, Abbott NL, de Pablo JJ.

Sci Adv. 2016 Aug 10;2(8):e1600978. doi: 10.1126/sciadv.1600978. eCollection 2016 Aug.

16.

Computational immuno-biology for organ transplantation and regenerative medicine.

Vásquez-Montoya GA, Danobeitia JS, Fernández LA, Hernández-Ortiz JP.

Transplant Rev (Orlando). 2016 Oct;30(4):235-46. doi: 10.1016/j.trre.2016.05.002. Epub 2016 May 26. Review.

PMID:
27296889
17.

Liquid crystal free energy relaxation by a theoretically informed Monte Carlo method using a finite element quadrature approach.

Armas-Pérez JC, Hernández-Ortiz JP, de Pablo JJ.

J Chem Phys. 2015 Dec 28;143(24):243157. doi: 10.1063/1.4937628.

PMID:
26723642
18.

Theoretically informed Monte Carlo simulation of liquid crystals by sampling of alignment-tensor fields.

Armas-Pérez JC, Londono-Hurtado A, Guzmán O, Hernández-Ortiz JP, de Pablo JJ.

J Chem Phys. 2015 Jul 28;143(4):044107. doi: 10.1063/1.4926790.

PMID:
26233107
19.

Self-consistent description of electrokinetic phenomena in particle-based simulations.

Hernández-Ortiz JP, de Pablo JJ.

J Chem Phys. 2015 Jul 7;143(1):014108. doi: 10.1063/1.4923342.

20.

Homeotropic nano-particle assembly on degenerate planar nematic interfaces: films and droplets.

Londoño-Hurtado A, Armas-Pérez JC, Hernández-Ortiz JP, de Pablo JJ.

Soft Matter. 2015 Jul 7;11(25):5067-76. doi: 10.1039/c5sm00940e.

PMID:
26027806
21.

Theoretical voltammetric response of electrodes coated by solid polymer electrolyte membranes.

Gómez-Marín AM, Hernández-Ortíz JP.

Anal Chim Acta. 2014 Sep 24;844:15-26. doi: 10.1016/j.aca.2014.07.001. Epub 2014 Jul 5.

PMID:
25172811
22.

Presentation of large DNA molecules for analysis as nanoconfined dumbbells.

Kounovsky-Shafer KL, Hernández-Ortiz JP, Jo K, Odijk T, de Pablo JJ, Schwartz DC.

Macromolecules. 2013 Oct 22;46(20):8356-8368.

23.

Effect of poly(ethylene oxide) homopolymer and two different poly(ethylene oxide-b-poly(propylene oxide)-b-poly(ethylene oxide) triblock copolymers on morphological, optical, and mechanical properties of nanostructured unsaturated polyester.

Builes DH, Hernández-Ortiz JP, Corcuera MA, Mondragon I, Tercjak A.

ACS Appl Mater Interfaces. 2014 Jan 22;6(2):1073-81. doi: 10.1021/am4046266. Epub 2013 Dec 30.

PMID:
24354274
24.

Ion effects at electrode/solid polymer electrolyte membrane interfaces.

Gómez-Marín AM, Hernández-Ortíz JP.

Phys Chem Chem Phys. 2014 Feb 7;16(5):1945-56. doi: 10.1039/c3cp54173h.

PMID:
24336802
25.

Liquid-crystal-mediated self-assembly at nanodroplet interfaces.

Moreno-Razo JA, Sambriski EJ, Abbott NL, Hernández-Ortiz JP, de Pablo JJ.

Nature. 2012 May 2;485(7396):86-9. doi: 10.1038/nature11084.

PMID:
22552096
26.

Liquid crystal mediated interactions between nanoparticles in a nematic phase.

Tomar V, Roberts TF, Abbott NL, Hernández-Ortiz JP, de Pablo JJ.

Langmuir. 2012 Apr 10;28(14):6124-31. doi: 10.1021/la204119p. Epub 2012 Mar 30.

PMID:
22409589
27.

Modeling flows of confined nematic liquid crystals.

Hernández-Ortiz JP, Gettelfinger BT, Moreno-Razo J, de Pablo JJ.

J Chem Phys. 2011 Apr 7;134(13):134905. doi: 10.1063/1.3567098.

PMID:
21476772
28.

Hydrodynamic effects on the translocation rate of a polymer through a pore.

Hernández-Ortiz JP, Chopra M, Geier S, de Pablo JJ.

J Chem Phys. 2009 Jul 28;131(4):044904. doi: 10.1063/1.3184798.

PMID:
19655916
29.

Dynamics of confined suspensions of swimming particles.

Hernandez-Ortiz JP, Underhill PT, Graham MD.

J Phys Condens Matter. 2009 May 20;21(20):204107. doi: 10.1088/0953-8984/21/20/204107. Epub 2009 Apr 21.

PMID:
21825516
30.

Diffusion and spatial correlations in suspensions of swimming particles.

Underhill PT, Hernandez-Ortiz JP, Graham MD.

Phys Rev Lett. 2008 Jun 20;100(24):248101. Epub 2008 Jun 16.

PMID:
18643631
31.

Dipole-induced self-assembly of helical beta-peptides.

Miller CA, Hernández-Ortiz JP, Abbott NL, Gellman SH, de Pablo JJ.

J Chem Phys. 2008 Jul 7;129(1):015102. doi: 10.1063/1.2928700.

PMID:
18624501
32.

Fast computation of many-particle hydrodynamic and electrostatic interactions in a confined geometry.

Hernández-Ortiz JP, de Pablo JJ, Graham MD.

Phys Rev Lett. 2007 Apr 6;98(14):140602. Epub 2007 Apr 6.

PMID:
17501260
33.

N log N method for hydrodynamic interactions of confined polymer systems: Brownian dynamics.

Hernández-Ortiz JP, de Pablo JJ, Graham MD.

J Chem Phys. 2006 Oct 28;125(16):164906.

PMID:
17092138
34.

Transport and collective dynamics in suspensions of confined swimming particles.

Hernandez-Ortiz JP, Stoltz CG, Graham MD.

Phys Rev Lett. 2005 Nov 11;95(20):204501. Epub 2005 Nov 10.

PMID:
16384062

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