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Michael T. Zimmermann, Ph.D. - Publications

Affiliations: 
2011 Biochemistry, Biophysics, and Molecular Biology Iowa State University, Ames, IA, United States 
Area:
Bioinformatics Biology, General Biophysics
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38 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Mathison A, Milech De Assuncao T, Dsouza NR, Williams M, Zimmermann MT, Urrutia R, Lomberk G. Discovery, expression, cellular localization, and molecular properties of a novel, alternative spliced HP1γ isoform, lacking the chromoshadow domain. Plos One. 15: e0217452. PMID 32027651 DOI: 10.1371/Journal.Pone.0217452  0.336
2019 Gupta A, Zimmermann MT, Wang H, Broski SM, Sigafoos AN, Macklin SK, Urrutia RA, Clark KJ, Atwal PS, Pignolo RJ, Klee EW. Molecular characterization of known and novel ACVR1 variants in phenotypes of aberrant ossification. American Journal of Medical Genetics. Part A. PMID 31240838 DOI: 10.1002/Ajmg.A.61274  0.339
2019 Zimmermann MT, Williams MM, Klee EW, Lomberk GA, Urrutia R. Modeling Post-Translational Modifications and Cancer-Associated Mutations that Impact the Heterochromatin Protein 1α-Importin Α Heterodimers. Proteins. PMID 31152607 DOI: 10.1002/Prot.25752  0.36
2019 Klee EW, Zimmermann MT. Molecular modeling of LDLR aids interpretation of genomic variants. Journal of Molecular Medicine (Berlin, Germany). PMID 30778614 DOI: 10.1007/S00109-019-01755-3  0.34
2018 Zimmermann MT, Urrutia R, Cousin MA, Oliver GR, Klee EW. Assessing Human Genetic Variations in Glucose Transporter SLC2A10 and Their Role in Altering Structural and Functional Properties. Frontiers in Genetics. 9: 276. PMID 30090112 DOI: 10.3389/Fgene.2018.00276  0.358
2017 Zimmermann MT, Urrutia R, Oliver GR, Blackburn PR, Cousin MA, Bozeck NJ, Klee EW. Molecular modeling and molecular dynamic simulation of the effects of variants in the TGFBR2 kinase domain as a paradigm for interpretation of variants obtained by next generation sequencing. Plos One. 12: e0170822. PMID 28182693 DOI: 10.1371/Journal.Pone.0170822  0.369
2017 Blackburn PR, Tischer A, Zimmermann MT, Kemppainen JL, Sastry S, Knight Johnson AE, Cousin MA, Boczek NJ, Oliver G, Misra VK, Gavrilova RH, Lomberk GA, Auton M, Urrutia RA, Klee EW. A Novel Kleefstra Syndrome Associated Variant that Affects the Conserved TPLX Motif within the Ankyrin Repeat of EHMT1 Leads to Abnormal Protein Folding. The Journal of Biological Chemistry. PMID 28057753 DOI: 10.1074/Jbc.M116.770545  0.338
2017 Nasr SH, Dasari S, Mills JR, Theis JD, Zimmermann MT, Fonseca R, Vrana JA, Lester SJ, McLaughlin BM, Gillespie R, Highsmith WE, Lee JJ, Dispenzieri A, Kurtin PJ. Hereditary Lysozyme Amyloidosis Variant p.Leu102Ser Associates with Unique Phenotype. Journal of the American Society of Nephrology : Jasn. PMID 28049649 DOI: 10.1681/Asn.2016090951  0.311
2016 Long PA, Zimmermann MT, Kim M, Evans JM, Xu X, Olson TM. De novo RRAGC mutation activates mTORC1 signaling in syndromic fetal dilated cardiomyopathy. Human Genetics. PMID 27234373 DOI: 10.1007/S00439-016-1685-3  0.302
2016 Huang J, Eilbeck K, Smith B, Blake JA, Dou D, Huang W, Natale DA, Ruttenberg A, Huan J, Zimmermann MT, Jiang G, Lin Y, Wu B, Strachan HJ, He Y, et al. The Non-Coding RNA Ontology (NCRO): a comprehensive resource for the unification of non-coding RNA biology. Journal of Biomedical Semantics. 7: 24. PMID 27152146 DOI: 10.1186/S13326-016-0066-0  0.304
2016 Zimmermann MT, Jia K, Jernigan RL. Ribosome Mechanics Informs about Mechanism. Journal of Molecular Biology. 428: 802-10. PMID 26687034 DOI: 10.1016/J.Jmb.2015.12.003  0.548
2015 Zimmermann MT, Tischer A, Whitten ST, Auton M. Structural origins of misfolding propensity in the platelet adhesive von willebrand factor A1 domain. Biophysical Journal. 109: 398-406. PMID 26200876 DOI: 10.1016/J.Bpj.2015.06.008  0.309
2015 Zimmermann MT, Dasari S, Boddicker RL, Zeng Y, Eckloff B, Cunningham JM, Wu Y, Porcher JC, Link BK, Ansell S, Cerhan JR, Kocher J, Feldman AL. Mutations Targeting the ErbB Pathway and MSC in Peripheral T-Cell Lymphoma Blood. 126: 2681-2681. DOI: 10.1182/Blood.V126.23.2681.2681  0.301
2015 Zimmermann MT, Jia K, Jernigan RL. Ribosome Mechanics Informs about Mechanism Journal of Molecular Biology. DOI: 10.1016/j.jmb.2015.12.003  0.398
2014 Giri K, Shameer K, Zimmermann MT, Saha S, Chakraborty PK, Sharma A, Arvizo RR, Madden BJ, Mccormick DJ, Kocher JP, Bhattacharya R, Mukherjee P. Understanding protein-nanoparticle interaction: a new gateway to disease therapeutics. Bioconjugate Chemistry. 25: 1078-90. PMID 24831101 DOI: 10.1021/Bc500084F  0.344
2014 Zimmermann MT, Jernigan RL. Elastic network models capture the motions apparent within ensembles of RNA structures. Rna (New York, N.Y.). 20: 792-804. PMID 24759093 DOI: 10.1261/Rna.041269.113  0.611
2014 Rashin AA, Domagalski MJ, Zimmermann MT, Minor W, Chruszcz M, Jernigan RL. Factors correlating with significant differences between X-ray structures of myoglobin. Acta Crystallographica. Section D, Biological Crystallography. 70: 481-91. PMID 24531482 DOI: 10.1107/S1399004713028812  0.552
2014 Afonin KA, Kasprzak W, Bindewald E, Puppala PS, Diehl AR, Hall KT, Kim TJ, Zimmermann MT, Jernigan RL, Jaeger L, Shapiro BA. Computational and experimental characterization of RNA cubic nanoscaffolds. Methods (San Diego, Calif.). 67: 256-65. PMID 24189588 DOI: 10.1016/J.Ymeth.2013.10.013  0.548
2013 Gu Y, Sun W, Wang G, Zimmermann MT, Jernigan RL, Fang N. Revealing rotational modes of functionalized gold nanorods on live cell membranes. Small (Weinheim An Der Bergstrasse, Germany). 9: 785-92. PMID 23124917 DOI: 10.1002/Smll.201201808  0.51
2013 Jernigan RL, Liu J, Sankar K, Jia K, Zimmermann MT. 164 Extracting dynamics information from multiple structures Journal of Biomolecular Structure and Dynamics. 31: 106-107. DOI: 10.1080/07391102.2013.786406  0.607
2013 Kloczkowski A, Gniewek P, Faraggi E, Zimmermann M, Gront D, Pawlowski M, Jernigan RL, Kolinski A. New Methods to Improve Protein Structure Prediction and Refinement Biophysical Journal. 104: 229a. DOI: 10.1016/J.Bpj.2012.11.1292  0.632
2013 Kasprzak WK, Afonin KA, Bindewald E, Puppala PS, Kim T, Zimmermann MT, Jernigan RL, Shapiro BA. Coarse-Grained Computational Characterization of RNA Nanocube Flexibility Correlates with Experiments Biophysical Journal. 104: 16a. DOI: 10.1016/J.Bpj.2012.11.119  0.556
2012 Burton B, Zimmermann MT, Jernigan RL, Wang Y. A computational investigation on the connection between dynamics properties of ribosomal proteins and ribosome assembly. Plos Computational Biology. 8: e1002530. PMID 22654657 DOI: 10.1371/Journal.Pcbi.1002530  0.582
2012 Zimmermann MT, Leelananda SP, Kloczkowski A, Jernigan RL. Combining statistical potentials with dynamics-based entropies improves selection from protein decoys and docking poses. The Journal of Physical Chemistry. B. 116: 6725-31. PMID 22490366 DOI: 10.1021/Jp2120143  0.764
2012 Skliros A, Zimmermann MT, Chakraborty D, Saraswathi S, Katebi AR, Leelananda SP, Kloczkowski A, Jernigan RL. The importance of slow motions for protein functional loops. Physical Biology. 9: 014001. PMID 22314977 DOI: 10.1088/1478-3975/9/1/014001  0.712
2012 Zimmermann MT, Jernigan RL. Protein Loop Dynamics Are Complex and Depend on the Motions of the Whole Protein Entropy. 14: 687-700. DOI: 10.3390/E14040687  0.632
2012 Zimmermann MT, Jernigan RL. Computing Entropies for Binding and Refinement of Protein Structures Biophysical Journal. 102: 25a. DOI: 10.1016/J.Bpj.2011.11.161  0.619
2011 Zimmermann MT, Skliros A, Kloczkowski A, Jernigan RL. Immunoglobulin Structure Exhibits Control over CDR Motion. Immunome Research. 7. PMID 25191522 DOI: 10.4172/1745-7580.1000047  0.586
2011 Zimmermann MT, Kloczkowski A, Jernigan RL. MAVENs: motion analysis and visualization of elastic networks and structural ensembles. Bmc Bioinformatics. 12: 264. PMID 21711533 DOI: 10.1186/1471-2105-12-264  0.587
2011 Zimmermann MT, Leelananda SP, Gniewek P, Feng Y, Jernigan RL, Kloczkowski A. Free energies for coarse-grained proteins by integrating multibody statistical contact potentials with entropies from elastic network models. Journal of Structural and Functional Genomics. 12: 137-47. PMID 21674234 DOI: 10.1007/S10969-011-9113-3  0.745
2011 Steczkiewicz K, Zimmermann MT, Kurcinski M, Lewis BA, Dobbs D, Kloczkowski A, Jernigan RL, Kolinski A, Ginalski K. Human telomerase model shows the role of the TEN domain in advancing the double helix for the next polymerization step. Proceedings of the National Academy of Sciences of the United States of America. 108: 9443-8. PMID 21606328 DOI: 10.1073/Pnas.1015399108  0.553
2011 Su CC, Long F, Zimmermann MT, Rajashankar KR, Jernigan RL, Yu EW. Crystal structure of the CusBA heavy-metal efflux complex of Escherichia coli. Nature. 470: 558-62. PMID 21350490 DOI: 10.1038/Nature09743  0.518
2011 Kasprzak WK, Bindewald E, Kim T, Zimmermann MT, Jernigan RL, Shapiro BA. Design and Modeling of RNA Nanostructures with Flexible Building Blocks Biophysical Journal. 100: 472a. DOI: 10.1016/J.Bpj.2010.12.2766  0.574
2010 Long F, Su CC, Zimmermann MT, Boyken SE, Rajashankar KR, Jernigan RL, Yu EW. Crystal structures of the CusA efflux pump suggest methionine-mediated metal transport. Nature. 467: 484-8. PMID 20865003 DOI: 10.1038/Nature09395  0.521
2010 Zimmermann MT, Skliros A, Saraswathi S, Kloczkowski A, Jernigan RL. Immunoglobulin functional motions and their effects on the complementarity determining regions 2010 Acm International Conference On Bioinformatics and Computational Biology, Acm-Bcb 2010. 621-626. DOI: 10.1145/1854776.1854892  0.474
2010 Katebi AR, Gniewek P, Zimmermann M, Saraswathi S, Gong Z, Tuggle CK, Kloczkowski A, Jernigan RL. Immunological implications of a structural analysis of two different porcine IL 1β proteins expressed in macrophages and embryos 2010 Acm International Conference On Bioinformatics and Computational Biology, Acm-Bcb 2010. 653-655. DOI: 10.1145/1854776.1854890  0.756
2010 Zimmermann MT. Functional Motions of Immunoglobin Hypervariable Loops Biophysical Journal. 98: 238a. DOI: 10.1016/J.Bpj.2009.12.1293  0.368
2009 Zimmermann M, Towfic F, Jernigan RL, Kloczkowski A. Short paths in protein structure space originate in graph structure. Proceedings of the National Academy of Sciences of the United States of America. 106: E137; author reply E. PMID 20018710 DOI: 10.1073/Pnas.0912339106  0.585
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