D. Hull, K. Wolstencroft, R. Stevens, C. Goble, M. Pocock et al., Taverna: a tool for building and running workflows of services, Nucleic Acids Research, vol.34, issue.Web Server, pp.729-732, 2006.
DOI : 10.1093/nar/gkl320

J. Goecks, A. Nekrutenko, and J. Taylor, Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences, Genome Biology, vol.11, issue.8, pp.438-462, 2011.
DOI : 10.1186/gb-2010-11-8-r86

B. Ludäscher, I. Altintas, C. Berkley, D. Higgins, E. Jaeger et al., Scientific workflow management and the Kepler system, Concurrency and Computation: Practice and Experience, vol.28, issue.10, pp.181039-1065, 2006.
DOI : 10.1002/cpe.994

S. Callahan, J. Freire, E. Santos, C. Scheidegger, C. Silva et al., VisTrails, Proceedings of the 2006 ACM SIGMOD international conference on Management of data , SIGMOD '06, pp.745-747, 2006.
DOI : 10.1145/1142473.1142574

J. Starlinger, S. Cohen-boulakia, and U. Leser, (Re)Use in Public Scientific Workflow Repositories, Proceedings of the International Conference on Scientific and Statistical Database Management (SSDBM, pp.361-378
DOI : 10.1007/978-3-642-31235-9_24
URL : https://hal.archives-ouvertes.fr/hal-00748029

S. Cohen-boulakia and U. Leser, Search, adapt, and reuse, ACM SIGMOD Record, vol.40, issue.2, pp.6-16, 2011.
DOI : 10.1145/2034863.2034865
URL : https://hal.archives-ouvertes.fr/inria-00638043

R. Littauer, K. Ram, B. Ludäscher, W. Michener, and R. Koskela, Trends in Use of Scientific Workflows: Insights from a Public Repository and Recommendations for Best Practice, International Journal of Digital Curation, vol.7, issue.2, pp.92-100
DOI : 10.2218/ijdc.v7i2.232

D. Roure, C. Goble, and R. Stevens, The design and realisation of the Virtual Research Environment for social sharing of workflows, Future Generation Computer Systems, vol.25, issue.5, pp.561-567, 2009.
DOI : 10.1016/j.future.2008.06.010

J. Zhao, J. Gómez-pérez, K. Belhajjame, G. Klyne, E. García-cuesta et al., Why workflows break — Understanding and combating decay in Taverna workflows, 2012 IEEE 8th International Conference on E-Science, pp.1-9
DOI : 10.1109/eScience.2012.6404482

P. Missier, N. Paton, and K. Belhajjame, Fine-grained and efficient lineage querying of collection-based workflow provenance, Proceedings of the 13th International Conference on Extending Database Technology, EDBT '10, pp.299-310
DOI : 10.1145/1739041.1739079

J. Valdes, R. Tarjan, and E. Lawler, The recognition of Series Parallel digraphs, Proceedings of the ACM Symposium on Theory of Computing (STOC) 1979, pp.1-12

O. Biton, S. Cohen-boulakia, S. Davidson, and C. Hara, Querying and Managing Provenance through User Views in Scientific Workflows, 2008 IEEE 24th International Conference on Data Engineering, pp.1072-1081
DOI : 10.1109/ICDE.2008.4497516

S. Cohen-boulakia, C. Froidevaux, and J. Chen, Scientific workflow rewriting while preserving provenance, 2012 IEEE 8th International Conference on E-Science, pp.1-9
DOI : 10.1109/eScience.2012.6404419
URL : https://hal.archives-ouvertes.fr/hal-00748032

W. Bein, J. Kamburowski, and M. Stallmann, Optimal Reduction of Two-Terminal Directed Acyclic Graphs, SIAM Journal on Computing, vol.21, issue.6, pp.1112-1129, 1992.
DOI : 10.1137/0221065

S. Cohen-boulakia, C. Froidevaux, C. Goble, A. Williams, and J. Chen, Distilling scientific workflow structure, Proceedings of the International Workshop on Network Tools and Applications in Biology, pp.100-102, 2012.

W. Van-der-aalst, K. Van-hee, A. Ter-hofstede, N. Sidorova, H. Verbeek et al., Soundness of workflow nets: classification, decidability, and analysis. Formal Aspects of Comput, pp.333-363, 2011.

N. Tr?ka, W. Aalst, and N. Sidorova, Data-Flow Anti-patterns: Discovering Data-Flow Errors in Workflows, Proceedings of the International Conference on Advanced Information Systems Engineering (CAiSE, pp.425-439
DOI : 10.1093/comjnl/44.4.246

S. Migliorini, M. Gambini, M. Rosa, and A. Ter-hofstede, Pattern-based evaluation of scientific workflow management systems, 2011.

L. Ramakrishnan and B. Plale, A Multi-Dimensional Classification Model for Workflow Characteristics. WANDS, International Workshop on Workflow Approaches to New Data-centric, Science (ACM SIGMOD), 2010.

D. Garijo, P. Alper, K. Belhajjame, Ó. Corcho, Y. Gil et al., Common motifs in scientific workflows: An empirical analysis, 2012 IEEE 8th International Conference on E-Science, pp.1-8
DOI : 10.1109/eScience.2012.6404427
URL : https://hal.archives-ouvertes.fr/hal-01342933

M. Rodrigues, W. Magalhães, M. Machado, and E. Tarazona-santos, A graph-based approach for designing extensible pipelines, BMC Bioinformatics, vol.13, issue.1, p.163, 2012.
DOI : 10.1007/978-3-540-30581-1_4

P. Alper, K. Belhajjame, C. Goble, and P. Karagoz, Small Is Beautiful: Summarizing Scientific Workflows Using Semantic Annotations, 2013 IEEE International Congress on Big Data, pp.321-328
DOI : 10.1109/BigData.Congress.2013.49

G. Juve, A. Chervenak, E. Deelman, S. Bharathi, G. Mehta et al., Characterizing and profiling scientific workflows, Future Generation Computer Systems, vol.29, issue.3, pp.682-692
DOI : 10.1016/j.future.2012.08.015

I. Wassink, M. Ooms, . Van-der, and P. Vet, Designing Workflows on the Fly Using e-BioFlow, Proceedings of ICSOC/ServiceWave, pp.470-484
DOI : 10.1007/978-3-642-10383-4_35

A. Gibson, M. Gamble, K. Wolstencroft, T. Oinn, C. Goble et al., The data playground: An intuitive workflow specification environment, Future Generation Computer Systems, vol.25, issue.4, pp.453-459, 2009.
DOI : 10.1016/j.future.2008.09.009