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Publications

    2017

  1. Labbé P, Faure E, Lecointe S, Le Scouarnec S, Kyndt F, Marrec M, Le Tourneau T, Offmann B, Duplaà C, Zaffran S, Schott JJ, Merot J. The alternatively spliced LRRFIP1 Isoform-1 is a key regulator of the Wnt/β-catenin transcription pathway. Biochim Biophys Acta. 2017 Jul;1864(7):1142-1152. doi:
    10.1016/j.bbamcr.2017.03.008.
  2. Shahsavarian MA, Chaaya N, Costa N, Boquet D, Atkinson A, Offmann B, Kaveri SV, Lacroix-Desmazes S, Friboulet A, Avalle B, Padiolleau-Lefèvre S. Multitarget selection of catalytic antibodies with β-lactamase activity using phage display. FEBS J. 2017 Feb;284(4):634-653. doi: 10.1111/febs.14012. Epub 2017 Feb 6.
  3. 2016

  4. Liu G, Ma H, Xie H, Xuan N, Guo X, Fan Z, Rajashekar B, Arnaud P, Offmann B, Picimbon JF. Biotype Characterization, Developmental Profiling, Insecticide Response and Binding Property of Bemisia tabaci Chemosensory Proteins: Role of CSP in Insect Defense. PLoS One. 2016 May 11;11(5):e0154706. doi:10.1371/journal.pone.0154706.
  5. Tom Verhaeghe, Karel De Winter, Magali Berland, Rob De Vreese, Matthias D’hooghe, Bernard Offmann and Tom Desmet. (2016). Converting bulk sugars into prebiotics: semi-rational design of a transglucosylase with controlled selectivity. Chem. Commun., 2016, Accepted Manuscript (DOI: 10.1039/C5CC09940D) [IF = 6.834]
  6. 2015

  7. Nicolas Fontaine, Brigitte Grondin-Perez, Frederic Cadet and Bernard Offmann. (2015). Modeling of a Cell-Free Synthetic System for Biohydrogen Production. J Comput Sci Syst Biol, 8: 132-139 (doi: 10.4172/jcsb.1000181) [IF = 1.59 (unofficial)]
  8. Mahajan, S., Brevern, A. G., Sanejouand, Y. H., Srinivasan, N., & Offmann, B. (2015). Use of a structural alphabet to find compatible folds for amino acid sequences. Protein Science, 24(1), 145-153. [IF = 2.854]
  9. 2014

  10. Magali Berland, Bernard Offmann, Isabelle André, Magali Remaud-Siméon and Philippe Charton. A web-based tool for rational screening of mutants libraries using ProSAR. Protein Engineering, Design and Selection (2014) 27 (10): 375-381.doi: 10.1093/protein/gzu035
  11. [IF = 2.537]Access the recommendation on F1000Prime

  12. Manoharan Malini, Fuchs Patrick F., Ramanathan Sowdhamini, Bernard Offmann. Insights on pH-dependent conformational changes of mosquito odorant binding proteins by molecular dynamics simulations. Journal of Biomolecular Structure & Dynamics (2014), 32(11):1742-51. DOI:10.1080/07391102.2013.834118 [IF = 2.919]
  13. Swapnil Mahajan, Alexandre G. de Brevern, Bernard Offmann and Narayanaswamy Srinivasan. Correlation between local structural dynamics of proteins inferred from NMR ensembles and evolutionary dynamics of homologues of known structure. Journal of Biomolecular Structure & Dynamics (2014), 32(5):751-758. [IF = 2.919]
  14. 2013

  15. Swapnil Mahajan, Garima Agarwal, Mohammed Iftekhar, Bernard Offmann, Alexandre G. de Brevern and Narayanaswamy Srinivasan. DoSA: Database of Structural Alignments. Database (2013). [IF = 3.372]
  16. MANOHARAN Malini*, KANNAN Sankar*, OFFMANN Bernard, Sowdhamini Ramanathan. Association of putative members to family of mosquito odorant binding proteins: Scoring scheme using Fuzzy Functional Templates and Cys residue positions. Bioinformatics and Biology Insights (2013), 7:231-251. doi: 10.4137/BBI.S11096 [IF = 1.809 (unofficial)]
  17. Malini Manoharan, Ng Fuk Chong Matthieu, Aurore Vaïtinadapoulé, Etienne Frumence, Sowdhamini Ramanathan and Bernard Offmann. Comparative genomics of odorant binding proteins in Anopheles gambiae, Aedes aegypti and Culex quinquefasciatus. Genome Biol Evol (2013), 5(1):163-180. [IF = 4.68]
  18. 2011

  19. Chandra Sekhar Reddy Chilamakuri, Adwait Joshi, Sane Sudha Rani, Bernard Offmann, and R. Sowdhamini. Cross-Genome Comparisons of Newly Identified Domains in Mycoplasma gallisepticum and Domain Architectures with Other Mycoplasma species. Comparative and Functional Genomics, Volume 2011, Article ID 878973, 13 pages, (2011)PDF [IF = 1.28]
  20. 2010

  21. Agnel Praveen Joseph, Garima Agarwal, Swapnil Mahajan, Jean-Christophe Gelly, Lakshmipuram S. Swapna, Bernard Offmann, Frédéric Cadet, Aurélie Bornot, Manoj Tyagi and Hélène Valadié, et al. A short survey on protein blocks. Biophysical Reviews (2010) 2(3):137-145
  22. Chandra Sekhar Reddy Chilamakuri, Sane Sudha Rani, Bernard Offmann and R. Sowdhamini. Systematic search for putative new domain families in Mycoplasma gallisepticum genome. BMC Research Notes, (2010) 3:98.PDF
  23. Groben R, Kaloudas D, Raines C, Offmann B; Maberly S.C, Gontero B. Comparative sequence analysis of CP12, a small protein involved in the formation of a Calvin cycle complex in photosynthetic organisms. Photosynth Res. (2010) 103(3):183-94.PDF
  24. 2009

  25. Protein short loop prediction in terms of a structural alphabet. Tyagi M, Bornot A, Offmann B, de Brevern AG. Comput Biol Chem. (2009) 33(4):329-33.
  26. Analysis of loop boundaries using different local structure assignment methods. Tyagi M, Bornot A, Offmann B, de Brevern AG. Protein Sci. 2009 Sep;18(9):1869-81.
  27. Sankaran Sandhya, Saane Sudha Rani, Barah Pankaj, Madabosse Kande Govind, Bernard Offmann, Narayanaswamy Srinivasan, R. Sowdhamini. Length variations amongst protein domain superfamilies and consequences on structure and function. PLoS One,2009, 4(3):e4981. PDF
  28. 2008

  29. Thangudu RR, Manoharan M, Srinivasan N, Cadet F, Sowdhamini R, Offmann B: Analysis on conservation of disulphide bonds and their structural features in homologous protein domain families. BMC Struct Biol 2008, 8(1):55. PDF
  30. Chilamakuri CS Reddy, Shameer, K, Offmann, B and Sowdhamini, R. PURE: A webserver for the Prediction of domains in Unassigned Regions in proteins. BMC Bioinformatics, 9(1):281, 2008. PDF
  31. Sandhya S, Pankaj B, Govind MK, Offmann B, Srinivasan N, Sowdhamini R. CUSP: an algorithm to distinguish structurally conserved and unconserved regions in protein domain alignments and its application in the study of large length variations. BMC Struct Biol vol. 8 (1) pp. 28, 2008. PDF
  32. Tyagi M., de Brevern A.G., Srinivasan N., Offmann B. Protein structure mining using a structural alphabet, Proteins 71:920–937, 2008. PDF
  33. 2007

  34. Chilamakuri C Sekhar Reddy, Khader Shameer, Offmann Bernard & Ramanathan Sowdhamini. PURE: a web server for querying the relationship between pre-existing domains and unassigned regions in proteins. Nature Protocol Exchange (2007) doi:10.1038/nprot.2007.486
  35. Bornot A., Offmann B., De Brevern A. How flexible protein structures are? New questions on the protein structure plasticity. BioForum Europe, 2007, 11:25 – PDF
  36. Offmann B., Tyagi M., de Brevern A.G. Local Protein Structures, Current Bioinformatics, 2, 165-202, 2007. PDF
  37. Thangudu R.R., Sharma P., Srinivasan N., Offmann B. Analycys : A Database for Conservation and Conformation of Disulphide Bonds in Homologous Protein Domains.Proteins : Str. Func. Bioinf. 67(2):255-61, 2007. PDF
  38. 2006

  39. Manoj Tyagi, Venkataraman S. Gowri, Narayanaswamy Srinivasan, Alexandre G. de Brevern, & Bernard Offmann. A substitution matrix for structural alphabet based on structural alignment of homologous proteins and its applications. Proteins : Struct. Func. Bioinf. 65(1) :32-39, 2006.
  40. M. Tyagi, P. Sharma, C.S. Swamy, F. Cadet, N. Srinivasan, A.G. de Brevern and B. Offmann. Protein Block Expert (PBE): A web-based protein structure analysis server using a structural alphabet. Nucleic Acids Res., 34:W119-W123, 2006. PDF
  41. Gardebien F, Thangudu RR, Gontero B, Offmann B. Construction of a 3D model of CP12, a protein linker. J Mol Graph Model. 25(2) :186-195, 2006.
  42. 2005

  43. Thangudu RR, Vinayagam A, Pugalenthi G, Manonmani A, Offmann B, Sowdhamini R. Native and modeled disulfide bonds in proteins: knowledge-based approaches toward structure prediction of disulfide-rich polypeptides. Proteins: Struct. Func. Bioinf., 58(4):866-79, 2005.
  44. 2003

  45. Besnard G, Pincon G, D’Hont A, Hoarau JY, Cadet F, Offmann B. Characterisation of the phosphoenolpyruvate carboxylase gene family in sugarcane (Saccharum spp.). Theor Appl Genet. 107(3):470-8, 2003.
  46. Offmann B., Raboin L-M, Notaise J. Segregation of resistance to Xanthomonas albilineans in a sugarcane progeny. Journal of Nature 15(1):113-124, 2003.
  47. 2002

  48. Hoarau JY, Grivet L, Offmann B, Raboin LM, Diorflar JP, Payet J, Hellmann M, D’Hont A, Glaszmann JC. Genetic dissection of a modern sugarcane cultivar ( Saccharum spp.).II. Detection of QTLs for yield components. Theor Appl Genet. 105(6-7):1027-1037., 2002.
  49. Besnard G, Offmann B, Robert C, Rouch C, Cadet F. Assessment of the C(4) phosphoenolpyruvate carboxylase gene diversity in grasses (Poaceae). Theor Appl Genet., 105(2-3):404-412, 2002. PDF
  50. Offmann B, Cadet F. Redox-active Disulfides in a Plant Light Switch: A Pbl Problem. BAMBED 30: 249-254, 2002.
  51. Offmann B, Cadet F. Enzymes as structural tools in infrared spectroscopy. Spectroscopy Letters, 35(4) :523 – 526, 2002.
  52. 2001

  53. Hoarau J-Y, Offmann B, D’Hont A, Risterucci A-M, Roques D, Glaszmann J-C Grivet L. Genetic dissection of a modern sugarcane cultivar (Saccharum spp). I. Genome mapping with AFLP markers. Theor Appl Genet 103:84-97, (2001). PDF
  54. 1997

  55. Cadet F., Offmann B. Direct Spectroscopic Sucrose Determination of Raw Sugar Cane Juices. Jnl. Agric. Food. Chem. 45(1) :166-171, (1997). PDF
  56. Cadet F., Robert C., Offmann B. Simultaneous Determination of Sugars by Multivariate Analysis Applied to Mid-Infrared Spectra of Biological Samples. Appl. Spectrosc. 51(3) :369-375, (1997). PDF
  57. 1996

  58. Cadet F., Offmann B. Evidence for Potassium-Sucrose Interaction in Biological Mid-Infrared Spectra by Multidimensional Analysis. Spectros. Letters. 29(7) :1353-1365, (1996).
  59. Cadet F., Offmann B. Gram-Schmidt Orthogonalization and Elimination of the Effect of Unwanted Component Spectra Applied to a Biological Mid-Infrared Spectra Collection. Spectros. Letters. 29(5) :901-918, (1996).
  60. Cadet F., Offmann B. Baseline Correction Applied to a Mid-Infrared Spectra Collection. Spectrosc. Letters. 29(4) :591-607, (1996).
  61. Cadet F., Offmann B. Extraction of Characteristics Bands of Sugars by Multidimensionnal Analysis of Their Infrared Spectra. Spectrosc. Letters. 29(3):523-536, (1996).

Book chapters

  1. L.S. Swapna, B. Offmann and N. Srinivasan. Evolutionary dynamics of protein-protein interactions. A case study using the DJ-1/PfpI family of enzyme. In Knowledge Discovery in Bioinformatics: Techniques, Methods and Application. Edited by Yi Pan and X. Hu, Editions Wiley, pp 210-237, 2007.

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Communications

Swapnil Mahajan, Alexandre G. de Brevern, Narayanaswamy Srinivasan and Bernard Offmann. Protein fold recognition by conditional probability based threading using a structural alphabet. ISMB/ECCB 2013, 3D Structural Bioinformatics and Biophysics Satellite Meeting, Berlin, Germnay, 19-20 July 2013 Magali BERLAND, Bernard OFFMANN, Isabelle ANDRE, Magali REMAUD-SIMEON and Philippe CHARTON. A new method for spectral characterization of …

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