Dr. Noël Malod-Dognin

Established Researcher
Life Sciences

BSC
Research       Ph.D.       Publications       Software       Contact

Citation statistics from Scholar Google (January 2019).


AllSince 2012
Citations800721
h-index 13 12
i10-index17 15





J22. Nat.Com. Towards a data-integrated cell
N. Malod-Dognin, J. Petschnigg, S.F.L. Windels, J. Povh, H. Hemmingway, R. Ketteler, and N. Pržulj
Nature Communications 10: 805, 2019.

J21. arXiv Unveiling new disease, pathway, and gene associations via multi-scale neural networks
T. Gaudelet, N. Malod-Dognin, J. Sanchez-Valle, V. Pancaldi, A. Valencia, and N. Pržulj
arXiv preprint:1901.10005, 2019.

J20. arXiv Graphlet Laplacians: graphlet-based neighbourhoods highlight topology-function and topology-disease relationships
S.F.L. Windels, N. Malod-Dognin, and N. Pržulj
bioRxiv preprint:460964, 2018.

J19. Bioinformatics Functional geometry of protein-protein interaction networks
N. Malod-Dognin and N. Pržulj
Bioinformatics btz146, 2019.

J18. Bioinformatics Higher order molecular organisation as a source of biological function
T. Gaudelet, N. Malod-Dognin and N. Pržulj
Bioinformatics 34(17): i944-i953, 2018. Also conference C11.

J17. COiSB Precision medicine ― a promising, yet challenging road lies ahead
N. Malod-Dognin, J. Petschnigg and N. Pržulj
Current Opinion in Systems Biology 7:1-7, 2018. [pdf] [doi]

J16. JIB Omics data complementarity underlines functional cross-communication in yeast
N. Malod-Dognin and N. Pržulj
Journal of Integrative Bioinformatics 14(2), 2017. Also Conference paper C10. [pdf] [doi]

J15. ScientificReports Unified Alignment of Protein-Protein Interaction Networks
N. Malod-Dognin, K. Ban and N. Pržulj
Scientific Reports 7:953, 2017. [pdf] [doi]

J14. Bioinformatics Rebuttal to the Letter to the Editor in response to the paper: Proper evaluation of alignment-free network comparison methods
O.N. Yaveroğlu, N. Malod-Dognin, T. Milenković and N. Pržulj
Bioinformatics 33(7):1107-1109, 2017. [pdf] [doi]

J13. ScientificReports Graphlet-based Characterization of Directed Networks
A. Sarajlić, N. Malod-Dognin, O.N. Yaveroğlu and N. Pržulj
Scientific Reports 6:35098, 2016. [pdf] [doi]

J12. A global genetic interaction network maps a wiring diagram of cellular function
M. Costanzo, B. VanderSluis, E. N. Koch, A. Baryshnikova, C. Pons, G. Tan, W. Wang, M. Usaj, J. Hanchard, S. D. Lee, V. Pelechano, E. B. Styles, M. Billmann, J. van Leeuwen, N. van Dyk, Z.-Y. Lin, E. Kuzmin, J. Nelson, J. S. Piotrowski, T. Srikumar, S. Bahr, Y. Chen, R. Deshpande, C. F. Kurat, S. C. Li, Z. Li, M. M. Usaj, H. Okada, N. Pascoe, B.-J. San Luis, S. Sharifpoor, E. Shuteriqi, S. W. Simpkins, J. Snider, H. G. Suresh, Y. Tan, H. Zhu, N. Malod-Dognin, V. Janjic, N. Pržulj, O. G. Troyanskaya, I. Stagljar, T. Xia, Y. Ohya, A.-C. Gingras, B. Raught, M. Boutros, L. M. Steinmetz, C. L. Moore, A. P. Rosebrock, A. A. Caudy, C. L. Myers, B. Andrews and C. Boone
Science 353(6306):aaf1420, 2016. [pdf] [doi]

J11. Science Network Analytics in the age of Big Data
N. Pržulj and N. Malod-Dognin
Science 353(6295):aah3449, 2016. [pdf] [doi]

J10. Proteomics Integrative Methods for Analysing Big Data in Precision Medicine
V. Gligorijević, N. Malod-Dognin and N. Pržulj
Proteomics 16(15):741-758, 2016. [pdf] [doi]

J9. Bioinformatics FUSE: Multiple Network Alignment via Data Fusion
V. Gligorijević, N. Malod-Dognin and N. Pržulj
Bioinformatics 32(8):1195-1203, 2016. [pdf] [doi]

J8. Bioinformatics L-GRAAL: Lagrangian Graphlet-based Network Aligner
N. Malod-Dognin and N. Pržulj
Bioinformatics 31(13):2182-2189, 2015. [pdf] [doi]

J7. Bioinformatics Topology-Function Conservation in Protein-Protein Interaction Networks
D. Davis, O.N. Yaveroğlu, N. Malod-Dognin, A. Stojmirovic and N. Pržulj
Bioinformatics 31(10):1632-1639, 2015. [pdf] [doi]

J6. ScientificReports Revealing the Hidden Language of Complex Networks
O.N. Yaveroğlu, N. Malod-Dognin, D. Davis, Z. Levnajic, V. Janjic, R. Karapandza, A. Stojmirovic and N. Pržulj
Scientific Reports 4:4547, 2014. [pdf] [doi]

J5. Bioinformatics GR-Align: Fast and Flexible Alignment of Protein 3D Structures Using Graphlet Degree Similarity
N. Malod-Dognin and N. Pržulj
Bioinformatics 30(9):1259-1265, 2014. [pdf] [doi]

J4. ProteinsSFB Characterizing the Morphology of Protein Binding Patches
N. Malod-Dognin, A. Bansal and F. Cazals
Proteins: structure, function, and bioinformatics 80(12):2652-2665, 2012. [pdf] [doi]

J3. nucleic-acid-research CSA: Comprehensive comparison of pairwise structural protein alignments
I. Wohlers, N. Malod-Dognin, R. Andonov and G.W. Klau
Nucleic Acids Research 40(W1):W303-W309, 2012. [pdf] [doi]

J2. JCB Maximum Contact Map Overlap Revisited
R. Andonov, N. Malod-Dognin and N. Yanev
Journal of Computational Biology 18(1):27-41, 2011. [pdf] [doi]

J1. Serdica Solving Maximum Clique Problem for Protein Structure Similarity
N. Malod-Dognin, R. Andonov and N. Yanev
Serdica Journal of Computing 4(1):93-100, 2010. [pdf]


C11.
ECCB'18
Higher order molecular organisation as a source of biological function
T. Gaudelet, N. Malod-Dognin and N. Pržulj
European Conference on Computational Biology (ECCB), 2018. Also journal publication J18.

C10.
IB'17
Omics data complementarity underlines functional cross-communication in yeast
N. Malod-Dognin and N. Pržulj
Proceedings of the International Symposium on Integrative Bioinformatics, 2017. Also journal publication J16.

C9.
PSB'16
Patient-Specific Data Fusion for Cancer Stratification and Personalized Treatment
V. Gligorijević, N. Malod-Dognin and N. Pržulj
Proceedings of the 21st Pacific Symposium on Biocomputing, p. 321-332, 2016. [pdf]

C8.
JOBIM'12
CSA : Comparaison compréhensible d'alignement de paires de structures de protéines
I. Wohlers, N. Malod-Dognin, R. Andonov, G.W. Klau
Proceedings of JOBIM, p.201-208, 2012 (in french).

C7.
PRIB'11
Shape Matching by Localized Calculations of Quasi-isometric Subsets, with Applications to the Comparison of Protein Binding Patches
F. Cazals and N. Malod-Dognin
Pattern Recognition in Bioinformatics, Lecture Notes in Computer Science, vol. 7036, p. 272-283, 2011. [pdf] [doi] [bib]

C6.
WABI'11
Using Dominances for Solving the Protein Family Identification Problem
N. Malod-Dognin, M. Le Boudic-Jamin, P. Kamath, and R. Andonov
Algorithms in Bioinformatics, Lecture Notes in Computer Science, vol. 6833, p. 201-212, 2011. [pdf] [doi] [bib]

C5.
ROADEF 2008
Identification rapide de familles protéiques par dominance
M. Le Boudic-Jamin, N. Malod-Dognin, A. Cornu, J. Nicolas and R. Andonov
Proceedings of the 12th Annual Congress of the French National Society of Operations Research and Decision Science (ROADEF), vol. 2, p.791-792, 2011 (in french).

C4.
SHREC'10
SHREC-10 Track: Protein Model Classification
L. Mavridis, V. Venkatraman, D. W. Ritchie, N. Morikawa, R. Andonov, A. Cornu, N. Malod-Dognin, J. Nicolas, M. Temerinac-Ott, M. Reisert, H. Burkhardt, A. Axenopoulos and P. Daras
Eurographics Workshop on 3D Object Retrieval (3DOR), p. 117-124, 2010. [pdf] [bib]

C3.
SEA'10
Maximum Clique in Protein Structure Comparison
N. Malod-Dognin, R. Andonov and N. Yanev
Experimental Algorithms, Lecture Notes in Computer Science, vol. 6049, p.106-117, 2010. [pdf] [doi] [bib]

C2.
WABI'08
An Efficient Lagrangian Relaxation for the Contact Map Overlap Problem
R. Andonov, N. Yanev and N. Malod-Dognin
Algorithms in Bioinformatics, Lecture Notes in Computer Science, vol. 5251, p. 162-173, 2008. [pdf] [doi] [bib]

C1.
ROADEF 2008
Modèle de PLNE pour la recherche de cliques de poids maximal
N. Malod-Dognin, R. Andonov, N. Yanev and J-F. Gibrat
Proceedings of the 9th Annual Congress of the French National Society of Operations Research and Decision Science (ROADEF), p. 307-308, 25/02/2008 (In french).


B02. CUP Machine Learning for Data Integration in Cancer Precision Medicine: Matrix Factorization Approaches
N. Malod-Dognin, S. Windels and N. Pržulj
Analyzing Network Data in Biology and Medicine, edited by N. Pržulj, Cambridge University Press, forthcoming, 2018

B01. CUP Network Alignment
N. Malod-Dognin and N. Pržulj
Analyzing Network Data in Biology and Medicine, edited by N. Pržulj, Cambridge University Press, forthcoming, 2018


Ph.D. R1 Protein Structure Comparison: From Contact Map Overlap Maximisation to Distance-based Alignment Search Tool
Ph.D. Thesis, University of Rennes 1, January 2010. [Full manuscript available on HAL/TEL]


12.
Towards higher-order modelling and integration of biological data for precision medicine
N. Malod-Dognin
2nd Workshop on Biomedical data fusion and non-negative matrix factorization, Ljubljana, Slovenia, May 23-25, 2018.

12.
ECTB 2016
Towards higher-order modelling and integration of biological data for precision medicine
N. Malod-Dognin, T. Gaudelet, S. Windels and N. Pržulj
European Conference on Translational Bioinformatics, Barcelona, Spain, April 16-17, 2018.

11.
Complex Networks'17
Data-Fusion for Cancer Patient Stratification and Personalised Treatment
V. Gligorijević, N. Malod-Dognin and N. Pržulj
International Conference on Complex Networks and Their Applications, Lyon, France, November 29 - December 01, 2017.

10.
Complex Networks'17
Hypergraphlets Give Insight into Multi-Scale Organisation of Molecular Networks
T. Gaudelet, N. Malod-Dognin, J. Lugo-Martinez, P. Radivojac and N. Pržulj
International Conference on Complex Networks and Their Applications, Lyon, France, November 29 - December 01, 2017.

9.
BelBi 2016
Patient Specific Network Data Integration Enables Precision Medicine in Cancer
V. Gligorijevic, N. Malod-Dognin and N. Przulj
Belgrade Bioinformatics Conference, Belgrade, Serbia, 20-24 June 2016.

8.
ECCB-W7 2016
Network data integration enables precision medicine in cancer
N. Malod-Dognin
ECCB, Workshop 7, The Hague, Netherlands, September 3, 2016.

7.
GenMed 2016
Network Data Integration Enables Precision Medicine
V. Gligorijevic, N. Malod-Dognin and N. Przulj
Summer School: Genomic Medicine, Portoroz, Slovenia, 3-7 May 2016.

6.
NetSci'15
Topology-Function Conservation in Protein-Protein Interaction Networks
D. Davis, O.N. Yaveroglu, N. Malod-Dognin, A. Stojmirovic and N. Przulj
International School and Conference on Network Science, Zaragoza, Spain, 1-5 June 2015.

5.
NetSci'14
Revealing the Hidden Language of Complex Networks
O. N. Yaveroglu, N. Malod-Dognin, D. Davis, Z. Levnajic, V. Janjic, R. Karapandza, A. Stojmirovic, and N. Przulj
International School and Conference on Network Science, Berkeley, California, USA, June 2-6, 2014.

4.
3Dsig'13
GrAlign: Fast Flexible Alignment of Protein 3D Structures
N. Malod-Dognin and N. Przulj
ISMB - 3DSig, Berlin, Germany, July 19-20, 2013.

3.
SFBBM-SFB'12
Stoichiometry Determination for Mass-spectrometry Data in Structural Proteomics
N. Malod-Dognin and F. Cazals
SFBBM-SFB congress, Grenoble, France, November 21-23, 2012.

2.
MICOM'09
Maximum clique approach to protein structure similarity
N. Malod-Dognin, R. Andonov and N. Yanev
MASSEE (mathematical society of south-east europe) International Congress On Mathematics, Ohrid, Macedonia, September 16-20, 2009.

1.
MMSC'09
Maximum clique approach to protein structure similarity
N. Malod-Dognin, R. Andonov and N. Yanev
International Workshop on Mathematical Modelling and Scientific Computations, Velingrad, Bulgaria, September 23-26, 2009.


16.
NetSci'18
Higher-order modelling and integration of biological data for precision medicine
N. Malod-Dognin, T. Gaudelet, S.F.L Windels and N. Pržulj
International School and Conference on Network Science, Satellite Symposium on Network Medicine, Paris, France, June 11-15, 2018.

15.
Complex Networks'17
Network analysis of Brazil's 2016 Zika-related incidence of microcephaly reveals misestimation of the outbreak and multiple contributing factors
M.P. Cifuentes, C.M. Suarez, S.F.L. Windels, R. Cifuentes, N. Doogan, J.F. Valderrama, N. Malod-Dognin, D. Hood and N. Pržulj
International Conference on Complex Networks and Their Applications, Lyon, France, November 29 - December 01, 2017.

14.
ISMB-ECCB'17
Ulign: Unified Alignment of Protein-Protein Interaction Networks
N. Malod-Dognin, K. Ban and N. Pržulj
ISMB-ECCB, Prague, Czech Republic, July 21-25, 2017.

13.
ISMB-ECCB'17
Hypergraphlets Give Insight into Multi-Scale Organisation of Molecular Networks
T. Gaudelet, N. Malod-Dognin, J. Lugo-Martinez, P. Radivojac and N. Pržulj
ISMB-ECCB, Prague, Czech Republic, July 21-25, 2017.

12.
ISMB-ECCB'17
A network analysis of the incidence pattern of microcephaly in the context of Zika Virus Infection
M.P. Cifuentes, C.M. Suarez, S.F.L. Windels, R. Cifuentes, N. Doogan, J.F. Valderrama, N. Malod-Dognin, D. Hood and N. Pržulj
ISMB-ECCB, Prague, Czech Republic, July 21-25, 2017.

11.
PSB'16
Patient-Specific Data Fusion for Cancer Stratification and Personalized Treatment
V. Gligorijević, N. Malod-Dognin and N. Pržulj
Pacific Symposium on Biocomputing, Big Island, Hawaii, January 4-8, 2016.

10.
ISMB-ECCB'15
FUSE: Multiple Network Alignment via Data Fusion
V. Gligorijević, N. Malod-Dognin and N.Pržulj
ISMB-ECCB, Dublin, Ireland, July 10-14, 2015.

9.
ECCB'14
L-GRAAL: Lagrangian Graphlet-based Network Aligner
N. Malod-Dognin and N. Pržulj
ECCB, Strasbourg, France, September 7-10, 2014.

8.
ECCB'14
Topology-Function Conversion in Protein-Protein Interaction Networks
D. Davis, O.N. Yaveroğlu, N. Malod-Dognin, A. Stojmirovic and N. Pržulj
ECCB, Strasbourg, France, September 7-10, 2014.

6-7.
ISMB-ECCB'13
3Dsig'13
GrAlign: Fast Flexible Alignment of Protein 3D Structures
N. Malod-Dognin and N. Pržulj
ISMB-ECCB, Berlin, Germany, July 21-23, 2013.
3Dsig, Berlin, Germany, July 19-20, 2013.

5.
GTBio'12
On the Stoichiometry Determination Problem for Mass Spectrometry Data
D. Agarwal, N. Malod-Dognin and F. Cazals
GTBio; Montpellier, France, April 3-6, 2012.

2-4.
GTBio'12
GGMM'11
PRIB'11
On the Morphology of Protein Binding Patches
N. Malod-Dognin and F.Cazals
GTBio; Montpellier, France, April 3-6, 2012.
The 17th GGMM congress; La Rochelle, France, May 30 to June 1, 2011.
PRIB; Delft, The Netherlands, November 2-4, 2011. Best poster award

1.
ESF-EMBO'10
Protein Structure Comparison: A Generic Framework
N. Malod-Dognin, R. Andonov and N. Yanev
ESF-EMBO Symposium on Molecular Perspectives on Protein-Protein Interactions; Sant Feliu de Guixols, Spain, November 14-19, 2010.