Alumni
In reverse chronological order.
 
Graduate Students
Deena-Al Mahbuba (Deena)
PhD program in Biochemistry
mahbuba@wisc.edu
Project: In vivo and in vitro analysis of the bacterial divisome
Program: Master in Biochemistry
Period: Jan. 2015 - July. 2017
Project: In vivo analysis of mutants of the FtsBL complex of the bacterial divisome
Currently at: PhD student in the Kiessling lab at MIT (Deena joined the Kiessling lab to follow her husband to Boston when his lab moved to MIT)
Senes lab publications:
  1. Condon SGF*, Mahbuba DA*, Armstrong CR, Diaz-Vazquez G, Craven SJ, LaPointe LM, Khadria AS, Chadda R, Crooks JA, Rangarajan N, Weibel DB, Hoskins AA, Robertson JL, Cui Q, Senes A "The FtsLB sub-complex of the bacterial divisome is tetramer with an uninterrupted FtsL helix linking the transmembrane and periplasmic regions" J. Biol. Chem. 2017 in press (*authors contributed equally) [PDF]
Ambalika Khadria (Rika)
Program: PhD program in Biochemistry
Period: Jan. 2009 - Jan. 2015 (PhD student), Jan. 2015 - Feb. 2016 (postdoc)
Thesis: "FRET-based biophysical characterization of bacterial divisome transmembrane proteins" [PDF]
Currently at: Postdoc in Mike Ramsey's lab, University of North Carolina at Chapel Hill
Senes lab publications:
  1. LaPointe LM, Taylor KC, Subramaniam S, Khadria A, Rayment I and Senes A "Structural organization of FtsB, a transmembrane protein of the bacterial divisome", Biochemistry 2013 52, 2574-85 [PDF]
  2. Khadria A and Senes A "Measurement of transmembrane peptide interaction in liposomes using Forster Resonance Energy Transfer (FRET)", in Methods Mol. Biol. 2013 1063, 19-36
  3. Khadria AS and Senes A "The transmembrane domains of the bacterial cell division proteins FtsB and FtsL form a stable high-order oligomer", Biochemistry 2013 52, 7532-41 [PDF]
  4. Khadria AS, Mueller BK, Stefely JA, Tan CH, Pagliarini DJ and Senes A "A Gly-zipper motif mediates homo-dimerization of the transmembrane domain of the mitochondrial kinase ADCK3" J Am Chem Soc 2014 136, 14068-77 [PDF]
  5. Khadria AS and Senes A "Fluorophores, environments and quantification techniques in the analysis of transmembrane helix interaction using FRET" Biopolymers 2015 104 (4), 247-264 [PDF]
  6. Condon SGF*, Mahbuba DA*, Armstrong CR, Diaz-Vazquez G, Craven SJ, LaPointe LM, Khadria AS, Chadda R, Crooks JA, Rangarajan N, Weibel DB, Hoskins AA, Robertson JL, Cui Q, Senes A "The FtsLB sub-complex of the bacterial divisome is tetramer with an uninterrupted FtsL helix linking the transmembrane and periplasmic regions" J. Biol. Chem. 2017 in press (*authors contributed equally) [PDF]
Benjamin Mueller (Ben)
Program: PhD program in Biochemistry (CIBM training grant)
Period: Jan. 2009 - Aug. 2015
Thesis: The GASright Motif in Membrane Protein Dimerization and Structural Prediction [PDF]
Currently at: Postdoc in Jens Meiler's lab, Vanderbilt, Nashville TN
Senes lab publications:
  1. Kulp DW, Subramaniam S, Donald JE, Hannigan BT, Mueller BK, Grigoryan G and Senes A "Structural informatics, modeling and design with an open-source Molecular Software Library (MSL)", J Comput. Chem. 2012 33(20), 1645-61 [PDF]
  2. Mueller BK*, Subramaniam S* and Senes A "A frequent, GxxxG-mediated, transmembrane association motif is optimized for the formation of interhelical Cα-H hydrogen bonds" Proc Natl Acad Sci USA 2014 111(10) E888-95 (*authors contributed equally) [PDF]
  3. Khadria AS, Mueller BK, Stefely JA, Tan CH, Pagliarini DJ and Senes A "A Gly-zipper motif mediates homo-dimerization of the transmembrane domain of the mitochondrial kinase ADCK3" J Am Chem Soc 2014 136, 14068-77 [PDF]
  4. Anderson SM*, Mueller BK*, Lange EJ and Senes A "Combination of Cα-H hydrogen bonds and van der Waals packing modulates the stability of GxxxG-mediated dimers in membranes" J Am Chem Soc. 2017 139, 15774-83 (*authors contributed equally) [PDF]
Loren LaPointe
Program: PhD program in Biochemistry
Period: Jan. 2009 - Feb. 2015
Thesis: Structural organization of the FtsB/FtsL transmembrane subcomplex of the bacterial divisome [PDF]
Currently at: Postdoc in Chuck Sanders' lab, Vanderbilt, Nashville TN
Senes lab publications:
  1. Hsin J, LaPointe LM, Kazy A, Chipot CJ, Senes A, Schulten K "Oligomerization State of Photosynthetic Core Complexes is Correlated with the Dimerization Affinity of a Transmembrane Helix", J Am Chem Soc. 2011 133(35), 14071-81 [PDF]
  2. LaPointe LM, Taylor KC, Subramaniam S, Khadria A, Rayment I and Senes A "Structural organization of FtsB, a transmembrane protein of the bacterial divisome", Biochemistry 2013 52, 2574-85 [PDF]
  3. Gromek KA, Suchy FP, Meddaugh HR, Wrobel RL, LaPointe LM, Chu UB, Primm JG, Ruoho AE, Senes A and Fox BG "The Oligomeric States of the Purified Sigma 1 Receptor are Stabilized by Ligands" J. Biol. Chem. 2014 289(29), 20333-44 [PDF]
  4. Condon SGF*, Mahbuba DA*, Armstrong CR, Diaz-Vazquez G, Craven SJ, LaPointe LM, Khadria AS, Chadda R, Crooks JA, Rangarajan N, Weibel DB, Hoskins AA, Robertson JL, Cui Q, Senes A "The FtsLB sub-complex of the bacterial divisome is tetramer with an uninterrupted FtsL helix linking the transmembrane and periplasmic regions" J. Biol. Chem. 2017 in press (*authors contributed equally) [PDF]
Sabareesh Subramaniam (Sab)
Programs: PhD in Computational Biology, MS in Computer Sciences
Period: Sept. 2008 - Feb. 2014
Thesis: Conformational sampling in protein structure prediction [PDF]
Currently at: VMware, Palo Alto CA
Senes lab publications:
  1. Subramaniam S, Natarajan S, and Senes A "A Machine Learning based Approach to Improve Protein Sidechain Optimization", ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACM BCB) 2011, 478-480 [PDF]
  2. Kulp DW, Subramaniam S, Donald JE, Hannigan BT, Mueller BK, Grigoryan G and Senes A "Structural informatics, modeling and design with an open-source Molecular Software Library (MSL)", J Comput. Chem. 2012 33(20), 1645-61 [PDF]
  3. Subramaniam S and Senes A "An Energy-Based conformer library for side chain optimization: improved prediction and adjustable sampling", Proteins 2012 80, 2218-34 [PDF]
  4. LaPointe LM, Taylor KC, Subramaniam S, Khadria A, Rayment I and Senes A "Structural organization of FtsB, a transmembrane protein of the bacterial divisome", Biochemistry 2013 52, 2574-85 [PDF]
  5. Mueller BK*, Subramaniam S* and Senes A "A frequent, GxxxG-mediated, transmembrane association motif is optimized for the formation of interhelical Cα-H hydrogen bonds" Proc Natl Acad Sci USA 2014 111(10) E888-95 (*authors contributed equally) [PDF]
  6. Subramaniam S and Senes A and "Backbone dependency further improves side chain prediction efficiency in the Energy-Based Conformer Library (bEBL)" Proteins 2014 81 (11), 3177-3187 [PDF]
  7. Zhang Z, Subramaniam S, Kale J, Liao C, Huang B, Brahmbhatt H, Condon SGF, Lapolla SM, Hays, FA, Ding J, He F, Zhang XC, Li J, Senes A, Andrews DW, Lin J "BH3-in-groove dimerization initiates and helix 9 dimerization expands Bax pore assembly in membranes", EMBO J 2016 35, 208-36 [PDF]
 
Research Specialists
Claire Armstrong
Positions: Undergrdaduate Student (2012-2015), Research intern (2015-2017)
Period: Jun. 2012 - July 2017
Senes lab publications:
  1. Armstrong CR, Senes A "Screening for transmembrane association in divisome proteins using TOXGREEN, a high-throughput variant of the TOXCAT assay", Biochim. Biophys. Acta 2016 1858, 2573-83 [PDF]
  2. Condon SGF*, Mahbuba DA*, Armstrong CR, Diaz-Vazquez G, Craven SJ, LaPointe LM, Khadria AS, Chadda R, Crooks JA, Rangarajan N, Weibel DB, Hoskins AA, Robertson JL, Cui Q, Senes A "The FtsLB sub-complex of the bacterial divisome is tetramer with an uninterrupted FtsL helix linking the transmembrane and periplasmic regions" J. Biol. Chem. 2017 in press (*authors contributed equally) [PDF]
Alla Kazy
Position: Associate Research Specialist
Period: Aug. 2008 - Nov. 2010
Senes lab publications:
  1. Hsin J, LaPointe LM, Kazy A, Chipot CJ, Senes A, Schulten K "Oligomerization State of Photosynthetic Core Complexes is Correlated with the Dimerization Affinity of a Transmembrane Helix", J Am Chem Soc. 2011 133(35), 14071-81 [PDF]
 
Undergraduate Students
Claire Holesovsky
Program: BS in Biochemistry, UW-Madison
Period: Jan. 2013 - May 2017
Lab advisor: Sam Craven
Currently at: Senior, UW-Madison
Yudong Sun
Program: BS in Computer Science, UW-Madison
Period: Jan. 2015 - Aug. 2017
Lab advisor: Bath Caselle and Samson Condon
Currently at: Ph.D student, Duke University
Blanche Denecek
Program: BS in Biochemistry, UW-Madison
Period: Jun. - Aug. 2016
Lab advisor: Deena-Al Mahbuba
Currently at: UW-Madison
James Tyler
Program: BS in Biochemistry, UW-Madison
Period: Jan. - May. 2016
Lab advisor: Claire Armstrong
Currently at: UW-Madison
Evan Lange
Programs: Youth Apprentiship Program in Biotechnology (Monona Grove High School); BS in Molecular Biology and Biomedical Engineering, UW-Madison
Period: Jan. - Aug 2011 (high-school student); Sep. 2011 - May. 2016 (undergrad)
Lab advisors: Loren LaPointe, Ben Mueller, Sam Anderson
Currently at: Research Specialist at Cellular Dynamics, Int.
Senes lab publications:
  1. Anderson SM*, Mueller BK*, Lange EJ and Senes A "Combination of Cα-H hydrogen bonds and van der Waals packing modulates the stability of GxxxG-mediated dimers in membranes" J Am Chem Soc. 2017 139, 15774-83 (*authors contributed equally) [PDF]
Praisten Tiano
Program: BS in Biochemistry, UW-Madison
Period: Jan. 2014 - May. 2016
Lab advisor: Sam Condon
Currently at:
Xiangyang Liu
Program: BS in Biochemistry, UW-Madison
Period: Jun. 2014 - May 2015
Lab advisor: Sam Condon Sam Anderson
Currently at:Ph.D student in Biophysics, UW-Madison, Raman Lab, Biochemistry, UW-Madison
Ashley Peotter
Program: BS in Biochemistry, UW-Madison
Period: Oct. 2013 - May 2015
Lab advisor: Rika Khadria
Currently at: Senior at UW-Madison
Marley Crews-Hill
Program: BS in Biochemistry, UW-Madison
Period: Jun. - Dec. 2014
Lab advisor: Sam Condon
Currently at: UW-Madison
Sandra Zebaze
Program: Summer Research Program, (Senior from the University of Maryland, College Park)
Period: Jun. - Jul 2014
Lab advisor: Claire Armstrong and Sam Craven
Currently at: Ph.D student in Chemistry, University of Maryland, College Park
Joel Lange
Program: BS in Biochemistry, UW-Madison
Period: Sept. 2012 - May 2014
Lab advisor: Loren LaPointe
Currently at: Medical student, Medical College of Wisconsin, Milwaukee
Jennifer Peotter
Program: BS in Biochemistry, UW-Madison
Period: Jan. 2012 - May 2014
Lab advisor: Ambalika Khadria
Currently at: Ph.D student in the Integrated Program in Biochemistry, UW Madison
Chin Tan
Program: BS in Biochemistry, UW-Madison
Period: Jun. 2013 - May 2014
Lab advisor: Ambalika Khadria
Currently at: Ph.D. student in Biochemistry, Duke University
Senes lab publications:
  1. Khadria AS, Mueller BK, Stefely JA, Tan CH, Pagliarini DJ and Senes A "A Gly-zipper motif mediates homo-dimerization of the transmembrane domain of the mitochondrial kinase ADCK3" J Am Chem Soc 2014 136, 14068-77 [PDF]
Nawaraj Subedi
Program: BS in Biochemistry, UW-Madison
Perdiod: Jan. 2012 - May 2013
Lab advisor: Ambalika Khadria
Currently at: Hudson River HealthCare Peekskill, NY (AmeriCorps)
Tania Soerianto
Program: BS in Biochemistry, UW-Madison
Perdiod: Sept. - Dec. 2012
Lab advisor: Ben Mueller
Samuel Krall
Program: BS in Biochemistry, UW-Madison
Perdiod: Jan. 2011 - Dec. 2012
Lab advisor: Loren LaPointe and Ben Mueller
Currently at: Minnesota Valley Testing Company
Mohandas Pillai
Program: BS in Physics, UW-Madison
Perdiod: Sept 2011 - May 2012
Lab advisor: Sabareesh Subramaniam
Currently at: PhD Program in Math, University of California Berkeley
Pragya Sidhwani
Program: Khorana Program Summer Intern (Delhi University South Campus)
Perdiod: Jun. - July 2012
Lab advisor: Ambalika Khadria
Currently at: PhD Program in Biological Sciences at the UC San Diego CA
Zixiao Chen
Program: BS in Biochemistry, UW-Madison
Perdiod: Jan. 2009 - Jun 2011
Lab advisor: Alla Kazi and Loren LaPointe
Currently at: Nordic Consulting, Milwaukee WI
Aileen Hsi
Program: BS in Biochemistry, UW-Madison
Years: Sept. 2009 - Jun. 2010
Lab advisor: Ben Mueller
Divyateja Adapala
Program: Khorana Program Summer Intern (Indian Institute of Technology, Madras)
Perdiod: Jun. - July 2010
Lab advisor: Ambalika Khadria
John (JT) McCrone
Program: BS in Biochemistry and Math, UW-Madison
Perdiod: Sep. 2008 - Dec. 2009
Lab advisor: Alla Kazy
Currently at: PhD Program in Microbiology and Immunology, University of Michigan
Sarita Koride
Program: Khorana Program Summer Intern (Indian Institute of Technology, Guwahati)
Perdiod: Jun. - July 2009
Lab advisor: Sabareesh Subramaniam
Currently at: PhD program in Chemical and Biomolecular Engineering, Johns Hopkins University
 
High School Students
Tyler Jenks
Program: Youth Apprentiship Program in Biotechnology (McFarland High School)
Perdiod: Jan. - Aug 2015
Lab advisor: Sam Craven
Currently at: undergrad at University of Wisconsin-Stout
Alessandro Senes
Associate Professor
Department of Biochemistry - UW-Madison
433 Backcock Dr., Room 419
Madison, WI 53706
office (+1) 608-890-2584
lab. (+1) 608-262-7355