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Items: 33

1.

MAGI: A Method for Metabolite Annotation and Gene Integration.

Erbilgin O, Rübel O, Louie KB, Trinh M, Raad M, Wildish T, Udwary D, Hoover C, Deutsch S, Northen TR, Bowen BP.

ACS Chem Biol. 2019 Apr 19;14(4):704-714. doi: 10.1021/acschembio.8b01107. Epub 2019 Apr 4.

PMID:
30896917
2.

μSR study of spin freezing and persistent spin dynamics in NaCaNi2F7.

Cai Y, Wilson MN, Hallas AM, Liu L, Frandsen BA, Dunsiger SR, Krizan JW, Cava RJ, Rubel O, Uemura YJ, Luke GM.

J Phys Condens Matter. 2018 Sep 26;30(38):385802. doi: 10.1088/1361-648X/aad91c. Epub 2018 Aug 9.

PMID:
30089706
3.

Adsorption of Maleic Acid Monomer on the Surface of Hydroxyapatite and TiO2: A Pathway toward Biomaterial Composites.

Albert M, Clifford A, Zhitomirsky I, Rubel O.

ACS Appl Mater Interfaces. 2018 Jul 25;10(29):24382-24391. doi: 10.1021/acsami.8b05128. Epub 2018 Jul 11.

PMID:
29961326
4.

Aziridinium Lead Iodide: A Stable, Low-Band-Gap Hybrid Halide Perovskite for Photovoltaics.

Zheng C, Rubel O.

J Phys Chem Lett. 2018 Feb 15;9(4):874-880. doi: 10.1021/acs.jpclett.7b03114. Epub 2018 Feb 7.

PMID:
29390607
5.

BASTet: Shareable and Reproducible Analysis and Visualization of Mass Spectrometry Imaging Data via OpenMSI.

Rubel O, Bowen BP.

IEEE Trans Vis Comput Graph. 2018 Jan;24(1):1025-1035. doi: 10.1109/TVCG.2017.2744479. Epub 2017 Aug 29.

6.

One-dimensional electron gas in strained lateral heterostructures of single layer materials.

Rubel O.

Sci Rep. 2017 Jun 28;7(1):4316. doi: 10.1038/s41598-017-03880-w.

7.

OpenMSI Arrayed Analysis Toolkit: Analyzing Spatially Defined Samples Using Mass Spectrometry Imaging.

de Raad M, de Rond T, Rübel O, Keasling JD, Northen TR, Bowen BP.

Anal Chem. 2017 Jun 6;89(11):5818-5823. doi: 10.1021/acs.analchem.6b05004. Epub 2017 May 15.

PMID:
28467051
8.

WarpIV: In Situ Visualization and Analysis of Ion Accelerator Simulations.

Rubel O, Loring B, Vay JL, Grote DP, Lehe R, Bulanov S, Vincenti H, Bethel EW.

IEEE Comput Graph Appl. 2016 May-Jun;36(3):22-35. doi: 10.1109/MCG.2016.62.

9.

Thermodynamic origin of instability in hybrid halide perovskites.

Tenuta E, Zheng C, Rubel O.

Sci Rep. 2016 Nov 24;6:37654. doi: 10.1038/srep37654.

10.

Methods for Specifying Scientific Data Standards and Modeling Relationships with Applications to Neuroscience.

Rübel O, Dougherty M, Prabhat, Denes P, Conant D, Chang EF, Bouchard K.

Front Neuroinform. 2016 Nov 4;10:48. eCollection 2016.

11.

Molecular Dynamics of Fibrinogen Adsorption onto Graphene, but Not onto Poly(ethylene glycol) Surface, Increases Exposure of Recognition Sites That Trigger Immune Response.

Dragneva N, Rubel O, Floriano WB.

J Chem Inf Model. 2016 Apr 25;56(4):706-20. doi: 10.1021/acs.jcim.5b00703. Epub 2016 Mar 23.

PMID:
26966807
12.

Efficient Driving of Piezoelectric Transducers Using a Biaxial Driving Technique.

Pichardo S, Silva RR, Rubel O, Curiel L.

PLoS One. 2015 Sep 29;10(9):e0139178. doi: 10.1371/journal.pone.0139178. eCollection 2015.

13.

Dirigent Protein-Mediated Lignan and Cyanogenic Glucoside Formation in Flax Seed: Integrated Omics and MALDI Mass Spectrometry Imaging.

Dalisay DS, Kim KW, Lee C, Yang H, Rübel O, Bowen BP, Davin LB, Lewis NG.

J Nat Prod. 2015 Jun 26;78(6):1231-42. doi: 10.1021/acs.jnatprod.5b00023. Epub 2015 May 17.

14.

Identifying important ions and positions in mass spectrometry imaging data using CUR matrix decompositions.

Yang J, Rübel O, Prabhat, Mahoney MW, Bowen BP.

Anal Chem. 2015;87(9):4658-66. doi: 10.1021/ac5040264. Epub 2015 Apr 13.

PMID:
25825055
15.

An atomic charge model for graphene oxide for exploring its bioadhesive properties in explicit water.

Stauffer D, Dragneva N, Floriano WB, Mawhinney RC, Fanchini G, French S, Rubel O.

J Chem Phys. 2014 Jul 28;141(4):044705. doi: 10.1063/1.4890503.

PMID:
25084935
16.

A collaborative visual analytics suite for protein folding research.

Harvey W, Park IH, Rübel O, Pascucci V, Bremer PT, Li C, Wang Y.

J Mol Graph Model. 2014 Sep;53:59-71. doi: 10.1016/j.jmgm.2014.06.003. Epub 2014 Jul 14.

PMID:
25068440
17.

Binding of solvated peptide (EPLQLKM) with a graphene sheet via simulated coarse-grained approach.

Sheikholeslami S, Pandey RB, Dragneva N, Floriano W, Rubel O, Barr SA, Kuang Z, Berry R, Naik R, Farmer B.

J Chem Phys. 2014 May 28;140(20):204901. doi: 10.1063/1.4876716.

PMID:
24880319
18.

Marble game with optimal ferroelectric switching.

Cole J, Ahmed SJ, Curiel L, Pichardo S, Rubel O.

J Phys Condens Matter. 2014 Apr 2;26(13):135901. doi: 10.1088/0953-8984/26/13/135901. Epub 2014 Mar 13.

PMID:
24625783
19.

Feature-based analysis of plasma-based particle acceleration data.

Rübel O, Geddes CG, Chen M, Cormier-Michel E, Bethel EW.

IEEE Trans Vis Comput Graph. 2014 Feb;20(2):196-210. doi: 10.1109/TVCG.2013.107.

PMID:
24356363
20.

Favorable adsorption of capped amino acids on graphene substrate driven by desolvation effect.

Dragneva N, Floriano WB, Stauffer D, Mawhinney RC, Fanchini G, Rubel O.

J Chem Phys. 2013 Nov 7;139(17):174711. doi: 10.1063/1.4828437.

PMID:
24206326
21.

OpenMSI: a high-performance web-based platform for mass spectrometry imaging.

Rübel O, Greiner A, Cholia S, Louie K, Bethel EW, Northen TR, Bowen BP.

Anal Chem. 2013 Nov 5;85(21):10354-61. doi: 10.1021/ac402540a. Epub 2013 Oct 25.

PMID:
24087878
22.

Morse-Smale Regression.

Gerber S, Rübel O, Bremer PT, Pascucci V, Whitaker RT.

J Comput Graph Stat. 2013 Jan 1;22(1):193-214.

23.

Lead monoxide α-PbO: electronic properties and point defect formation.

Berashevich J, Semeniuk O, Rubel O, Rowlands JA, Reznik A.

J Phys Condens Matter. 2013 Feb 20;25(7):075803. doi: 10.1088/0953-8984/25/7/075803. Epub 2013 Jan 22.

PMID:
23341469
24.

Modeling the radiation ionization energy and energy resolution of trigonal and amorphous selenium from first principles.

Darbandi A, Devoie É, Di Matteo O, Rubel O.

J Phys Condens Matter. 2012 Nov 14;24(45):455502. doi: 10.1088/0953-8984/24/45/455502. Epub 2012 Oct 19.

PMID:
23085846
25.

High-Throughput Characterization of Porous Materials Using Graphics Processing Units.

Kim J, Martin RL, Rübel O, Haranczyk M, Smit B.

J Chem Theory Comput. 2012 May 8;8(5):1684-93. doi: 10.1021/ct200787v. Epub 2012 Apr 20.

PMID:
26593662
26.

Generalized lucky-drift model for impact ionization in semiconductors with disorder.

Rubel O, Potvin A, Laughton D.

J Phys Condens Matter. 2011 Feb 9;23(5):055802. doi: 10.1088/0953-8984/23/5/055802. Epub 2011 Jan 13.

PMID:
21406915
27.

Lone-pair states as a key to understanding impact ionization in chalcogenide semiconductors.

Rubel O, Laughton D.

J Phys Condens Matter. 2010 Sep 8;22(35):355803. doi: 10.1088/0953-8984/22/35/355803. Epub 2010 Aug 13.

PMID:
21403299
28.

Coupling visualization and data analysis for knowledge discovery from multi-dimensional scientific data.

Rübel O, Ahern S, Bethel EW, Biggin MD, Childs H, Cormier-Michel E, Depace A, Eisen MB, Fowlkes CC, Geddes CG, Hagen H, Hamann B, Huang MY, Keränen SV, Knowles DW, Hendriks CL, Malik J, Meredith J, Messmer P, Prabhat, Ushizima D, Weber GH, Wu K.

Procedia Comput Sci. 2010 May;1(1):1757-1764.

29.

Integrating data clustering and visualization for the analysis of 3D gene expression data.

Rübel O, Weber GH, Huang MY, Bethel EW, Biggin MD, Fowlkes CC, Luengo Hendriks CL, Keränen SV, Eisen MB, Knowles DW, Malik J, Hagen H, Hamann B.

IEEE/ACM Trans Comput Biol Bioinform. 2010 Jan-Mar;7(1):64-79. doi: 10.1109/TCBB.2008.49.

PMID:
20150669
30.

Formation energies of antiphase boundaries in GaAs and GaP: an ab Initio study.

Rubel O, Baranovskii SD.

Int J Mol Sci. 2009 Nov 25;10(12):5104-14. doi: 10.3390/ijms10125104.

31.

Visual exploration of three-dimensional gene expression using physical views and linked abstract views.

Weber GH, Rübel O, Huang MY, DePace AH, Fowlkes CC, Keränen SV, Luengo Hendriks CL, Hagen H, Knowles DW, Malik J, Biggin MD, Hamann B.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Apr-Jun;6(2):296-309. doi: 10.1109/TCBB.2007.70249.

32.

Exact solution for hopping dissociation of geminate electron-hole pairs in a disordered chain.

Rubel O, Baranovskii SD, Stolz W, Gebhard F.

Phys Rev Lett. 2008 May 16;100(19):196602. Epub 2008 May 15.

PMID:
18518469
33.

A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm.

Fowlkes CC, Hendriks CL, Keränen SV, Weber GH, Rübel O, Huang MY, Chatoor S, DePace AH, Simirenko L, Henriquez C, Beaton A, Weiszmann R, Celniker S, Hamann B, Knowles DW, Biggin MD, Eisen MB, Malik J.

Cell. 2008 Apr 18;133(2):364-74. doi: 10.1016/j.cell.2008.01.053.

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