Ravi & Miguel

Ravi Kalathur (PhD) - Postdoctoral Fellow

Center for Molecular and Structural Biomedicine
Faculty of Sciences and Technology (building 8)
University of Algarve

Research Interests:
Gene expression, Systems biology.

Academic Degrees
* 2008: Ph.D. degree in Life sciences, University of Louis Pasteur, Strasbourg, France.
* 2003: P.G diploma in Bioinformatics, IBAB, Bangalore, India.
* 2001: M.Sc. degree in Biochemistry, Nagarjuna University, Guntur, India.

Positions
* 2010-2015: Postdoctoral fellow in Systems Biology and Bioinformatics, CBME, University of Algarve, Faro, Portugal.
* 2009-2010: Research Associate, MRDG department, IISc, Bangalore, India.
* 2005-2008: Ph.D. student, Department of Structural Biology and Genomics, IGBMC, ULP, Strasbourg, France.
* 2003-2004: Junior research fellow, MRDG department, IISc, Bangalore, India.
* 2001-2002: Junior research fellow, NIANP, Bangalore, India.

Publications:
  1. Ravi Kiran Reddy Kalathur, José Pedro Pinto, Biswanath Sahoo, Gautam Chaurasia & Matthias E. Futschik (2017) HDNetDB: A Molecular Interaction Database for Network-Oriented Investigations into Huntington's Disease, Scientific Reports 7: 5216 (pdf+html)

  2. Ravi Kiran Reddy Kalathur, Joaquin Giner-Lamia, Susana Machado, Kameshwar R S Ayasolla, and Matthias E. Futschik (2015) The unfolded protein response and its potential role in Huntington's disease elucidated by a systems biology approach, F1000Research 4:103 (pdf + html)

  3. Stephen Pells, Eirini Koutsouraki, Sofia Morfopoulou, Sara Valencia-Cadavid, Simon Tomlinson, Ravi Kalathur, Matthias Futschik and Paul De Sousa (2015) Novel human embryonic stem cell regulators identified by conserved and distinct CpG island methylation state, PLoS ONE 10(7): e0131102. (pdf + html)

  4. José P. Pinto, Ravi K. Kalathur, Daniel V. Oliveira, Tânia Barata, Rui S. R. Machado, Susana Machado, Ivette Pacheco-Leyva, Isabel Duarte and Matthias E. Futschik (2015). StemChecker: a web-based tool to discover and explore stemness signatures in gene sets, Nucleic Acids Research 43 (W1): W72-W77 (pdf + html)

  5. R. Hill, Ravi K.R. Kalathur, L. Colaço, R. Brandão, S. Ugurel, Matthias Futschik and W. Link (2015) TRIB2 as a biomarker for diagnosis and progression of melanoma. Carcinogenesis 36(4):469-77 (pdf + html)

  6. Richard Hill, Ravi Kiran Reddy Kalathur, Sergio Callejas, Laura Colaço, Ricardo Brandão, Beatriz Serelde, Antonio Cebriá, Carmen Blanco-Aparicio, Joaquín Pastor, Matthias Futschik, Ana Dopazo and Wolfgang Link (2014) A novel Phosphatidylinositol 3-Kinase (PI3K) inhibitor directs a potent FOXO-dependent, p53-independent cell cycle arrest phenotype characterized by the differential induction of a subset of FOXO-regulated genes, Breast Cancer Research 16(6):482 (pdf + html)

  7. José P. Pinto, Ravi K.R. Kalathur, Rui S. R. Machado, Joana M. Xavier, José Bragança, and Matthias E. Futschik (2014) StemCellNet: an interactive platform for network-oriented investigations in stem cell biology. Nucleic Acids Research 42:W154-W160. (pdf+html)

  8. Miguel Hernandez, Ravi Kalathur and Matthias E. Futschik (2014) Molecular networks, their analysis and representation, Springer Handbook of Bio- and Neuroinformatics, ed. Nik Kasabov, Springer (preprint-pdf, Book's web-page)

  9. Ravi K. Kalathur , José P. Pinto, Miguel Hernandez, Rui Machado, Dulce Almeida, Gautam Chaurasia and Matthias Futschik (2014) UniHI 7: an enhanced database for retrieval and interactive analysis of human molecular interaction networks, Nucleic Acids Research, Database issue, 42 (D1): D408-D414 (html, pdf)

  10. Thomas Wallach, Katja Schellenberg, Bert Maier, Ravi Kalathur , Pablo Porras, Erich E. Wanker, Matthias E. Futschik and Achim Kramer (2013) Dynamic Circadian Protein-Protein Interaction Networks Predict Temporal Organization of Cellular Functions, PloS Genetics , 9(3): e1003398. doi:10.1371/journal.pgen.1003398 (html, pdf)

  11. Ravi Kalathur, Miguel Hernandez-Prieto and Matthias E. Futschik (2012) Huntington´s Disease and its target genes: A global functional profile based on the HD Research Crossroads database, BMC Neurology, 12:47 (html, Supplementary Material)

  12. Berge C, Froloff N, Kalathur RK, Maumy M, Poch O, Raffelsberger W, Wicker N. Multidimensional Fitting for Multivariate Data Analysis. J Comput Biol. 2010 Feb 22. PMID: 20175691

  13. Reichman S, Kalathur RK, Lambard S, Aït-Ali N, Yang Y, Lardenois A, Ripp R, Poch O, Zack DJ, Sahel JA, Léveillard T.
    The homeobox gene CHX10/VSX2 regulates RdCVF promoter activity in the inner retina.Hum Mol Genet.2010 Jan 15;19(2):250-61. PMID: 19843539

  14. Kalathur RK, Gagniere N, Berthommier G, Poidevin L, Raffelsberger W, Ripp R, Léveillard T, Poch O.
    RETINOBASE: a web database, data mining and analysis platform for gene expression data on retina. BMC Genomics 2008 May 5;9:208. PMID: 18457592

  15. Wicker N, Muller J, Kalathur RK, Poch O.
    A Maximum Likelihood Approximation Method for Dirichlet’s Parameters Estimation. Computaional Statistics and Data Analysis, 2008, 52: 1315-1322.

  16. Ranganathan P, Agrawal A, Bhushan R, Chavalmane AK, Kalathur RK, Takahashi T, Kondaiah P.
    Expression profiling of genes regulated by TGF-beta: differential regulation in normal and tumour cells.BMC Genomics. 2007 Apr 11;8:98. MID: 17425807

Presentations:
  • José Pedro B. G. P. Pinto, Rui S.R. Machado, Ravi K.R. Kalathur, and Matthias E. Futschik (2013) StemCellNet: A web-based Platform for Assembly and Analysis of Molecular Interaction Networks in Stem Cells, 8th International Meeting of the Portuguese Society for Stem Cells and Cell Therapies, Faro, Portugal
  • Ravi K Kalathur and Matthias.E. Futschik (2011) The UniHI Database: A Platform for Assembly and Analysis of Molecular Interaction Networks in Stem Cells, STEM 2011, Lisbon, Portugal
  • Ravi K Kalathur and Matthias.E. Futschik(2010) Network-based analyses of Huntington's disease, EHDN, Prague, CZ
  • Kameshwar Ayasolla, Ravi Kalathur and Matthias Futschik (2010) A systems biology approach towards deciphering the unfolded protein response in Huntington's disease, EHDN, Prague, CZ
  • Kameshwar Ayasolla, Ravi Kalathurand Matthias Futschik (2010) ER stress: an initiator of neuroinflammation in Huntington's disease?, EHDN, Prague, CZ
  • Ravi K Kalathur,Gautam Chaurasia, Erich Wanker and Matthias.E. Futschik (2010) Molecular interaction networks in Huntington´s Disease, SINAL 2010, Faro, Portugal

Link to previous work:
* RETINOBASE (http://alnitak.u-strasbg.fr/RetinoBase/) : a web database, data mining and analysis platform for gene expression data on retina. For access details, please contact: Raymond Ripp.