Isidore Rigoutsos

According to our database, Isidore Rigoutsos authored at least 43 papers between 1986 and 2022.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2022

Reproducibility efforts as a teaching tool: A pilot study.

Nestoras Karathanasis, Daniel Hwang, Vibol Heng, Rimal Abhimannyu, Phillip Slogoff-Sevilla, Gina Buchel, Victoria Frisbie, Peiyao Li, Dafni Kryoneriti, Isidore Rigoutsos

PLoS Comput. Biol., November, 2022

2021

IsoMiRmap: fast, deterministic and exhaustive mining of isomiRs from short RNA-seq datasets.

Phillipe Loher, Nestoras Karathanasis, Eric Londin, Paul F. Bray, Venetia Pliatsika, Aristeidis G. Telonis, Isidore Rigoutsos

Bioinform., 2021

2020

Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API.

Thomas Desvignes, Phillipe Loher, Karen Eilbeck, Jeffery Ma, Gianvito Urgese, Bastian Fromm, Jason Sydes, Ernesto Aparicio-Puerta, Víctor Barrera, Roderic Espín, Florian Thibord, Xavier Bofill-De Ros, Eric Londin, Aristeidis G. Telonis, Elisa Ficarra, Marc R. Friedländer, John H. Postlethwait, Isidore Rigoutsos, Michael Hackenberg, Ioannis S. Vlachos, Marc K. Halushka, Lorena Pantano

Bioinform., 2020

2018

MINTbase v2.0: a comprehensive database for tRNA-derived fragments that includes nuclear and mitochondrial fragments from all The Cancer Genome Atlas projects.

Venetia Pliatsika, Phillipe Loher, Rogan Magee, Aristeidis G. Telonis, Eric Londin, Megumi Shigematsu, Yohei Kirino, Isidore Rigoutsos

Nucleic Acids Res., 2018

2017

Threshold-seq: a tool for determining the threshold in short RNA-seq datasets.

Rogan Magee, Phillipe Loher, Eric Londin, Isidore Rigoutsos

Bioinform., 2017

2016

Consequential considerations when mapping tRNA fragments.

Aristeidis G. Telonis, Phillipe Loher, Yohei Kirino, Isidore Rigoutsos

BMC Bioinform., 2016

MINTbase: a framework for the interactive exploration of mitochondrial and nuclear tRNA fragments.

Venetia Pliatsika, Phillipe Loher, Aristeidis G. Telonis, Isidore Rigoutsos

Bioinform., 2016

2012

Interactive exploration of RNA22 microRNA target predictions.

Phillipe Loher, Isidore Rigoutsos

Bioinform., 2012

2010

Anchoring millions of distinct reads on the human genome within seconds.

Tien Huynh, Michail Vlachos, Isidore Rigoutsos

Proceedings of the EDBT 2010, 2010

2009

Alu and B1 Repeats Have Been Selectively Retained in the Upstream and Intronic Regions of Genes of Specific Functional Classes.

Aristotelis Tsirigos, Isidore Rigoutsos

PLoS Comput. Biol., 2009

2006

Data mining and clinical data repositories: Insights from a 667, 000 patient data set.

Irene M. Mullins, Mir S. Siadaty, Jason A. Lyman, Ken Scully, Carleton T. Garrett, W. Greg Miller, Rudy Muller, Barry Robson, Chid Apté, Sholom M. Weiss, Isidore Rigoutsos, Daniel E. Platt, Simona Cohen, William A. Knaus

Comput. Biol. Medicine, 2006

A generic motif discovery algorithm for sequential data.

Kyle L. Jensen, Mark P. Styczynski, Isidore Rigoutsos, Gregory Stephanopoulos

Bioinform., 2006

2004

Report on BIOKDD04: workshop on data mining in Bioinformatics.

Mohammed Javeed Zaki, Shinichi Morishita, Isidore Rigoutsos

SIGKDD Explor., 2004

The web server of IBM's Bioinformatics and Pattern Discovery group: 2004 update.

Tien Huynh, Isidore Rigoutsos

Nucleic Acids Res., 2004

Of parts and relationships: an unending quest.

Isidore Rigoutsos

Proceedings of the 2004 ACM CIKM International Conference on Information and Knowledge Management, 2004

Chung-Kwei: a Pattern-discovery-based System for the Automatic Identification of Unsolicited E-mail Messages (SPAM).

Isidore Rigoutsos, Tien Huynh

Proceedings of the CEAS 2004, 2004

2003

The web server of IBM's Bioinformatics and Pattern Discovery group.

Tien Huynh, Isidore Rigoutsos, Laxmi Parida, Daniel E. Platt, Tetsuo Shibuya

Nucleic Acids Res., 2003

Evaluation of annotation strategies using an entire genome sequence.

Ioannis Iliopoulos, Sophia Tsoka, Miguel A. Andrade, Anton J. Enright, Mark Carroll, Patrick Poullet, Vasilis J. Promponas, Theodore Liakopoulos, Giorgos Palaios, Claude Pasquier, Stavros J. Hamodrakas, Javier Tamames, Asutosh T. Yagnik, Anna Tramontano, Damien Devos, Christian Blaschke, Alfonso Valencia, David Brett, David M. A. Martin, Christophe Leroy, Isidore Rigoutsos, Chris Sander, Christos A. Ouzounis

Bioinform., 2003

2002

Finding Patterns in Three-Dimensional Graphs: Algorithms and Applications to Scientific Data Mining.

Xiong Wang, Jason Tsong-Li Wang, Dennis E. Shasha, Bruce A. Shapiro, Isidore Rigoutsos, Kaizhong Zhang

IEEE Trans. Knowl. Data Eng., 2002

2001

QSAR in grossly underdetermined systems: Opportunities and issues.

Daniel E. Platt, Laxmi Parida, Yuan Gao, Aris Floratos, Isidore Rigoutsos

IBM J. Res. Dev., 2001

DELPHI: A pattern-based method for detecting sequence similarity.

Aris Floratos, Isidore Rigoutsos, Laxmi Parida, Yuan Gao

IBM J. Res. Dev., 2001

An Output-Sensitive Flexible Pattern Discovery Algorithm.

Laxmi Parida, Isidore Rigoutsos, Daniel E. Platt

Proceedings of the Combinatorial Pattern Matching, 12th Annual Symposium, 2001

2000

Pattern discovery on character sets and real-valued data: linear bound on irredundant motifs and an efficient polynomial time algorithm.

Laxmi Parida, Isidore Rigoutsos, Aris Floratos, Daniel E. Platt, Yuan Gao

Proceedings of the Eleventh Annual ACM-SIAM Symposium on Discrete Algorithms, 2000

Knowledge discovery in biological domains (tutorial AM-3).

Aris Floratos, Igor Jurisica, Isidore Rigoutsos

Proceedings of the Tutorial notes of the sixth ACM SIGKDD international conference on Knowledge discovery and data mining, 2000

1999

An Approximation Algorithm for Alignment of Multiple Sequences using Motif Discovery.

Laxmi Parida, Aris Floratos, Isidore Rigoutsos

J. Comb. Optim., 1999

Sequence homology detection through large scale pattern discovery.

Aris Floratos, Isidore Rigoutsos, Laxmi Parida, Gustavo Stolovitzky, Yuan Gao

Proceedings of the Third Annual International Conference on Research in Computational Molecular Biology, 1999

Building Dictionaries of 1D and 3D Motifs by Mining the Unaligned 1D Sequences of 17 Archaeal and Bacterial Genomes.

Isidore Rigoutsos, Yuan Gao, Aris Floratos, Laxmi Parida

Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology, 1999

Representation and Matching of Small Flexible Molecules in Large Databases of 3D Molecular Information.

Isidore Rigoutsos, Daniel E. Platt, Andrea Califano, B. David Silverman

Proceedings of the Pattern Discovery in Biomolecular Data: Tools, 1999

1998

Managing Statistical Behavior of Large Data Sets in Shared-Nothing Architectures.

Isidore Rigoutsos, Alex Delis

IEEE Trans. Parallel Distributed Syst., 1998

Combinatorial pattern discovery in biological sequences: The TEIRESIAS algorithm [published erratum appears in Bioinformatics 1998;14(2): 229].

Isidore Rigoutsos, Aris Floratos

Bioinform., 1998

Motif discovery without alignment or enumeration (extended abstract).

Isidore Rigoutsos, Aris Floratos

Proceedings of the Second Annual International Conference on Research in Computational Molecular Biology, 1998

Two-Dimensional Affine Invariants that Distribute Uniformly and can be Tuned to any Convex Feature Domain.

Isidore Rigoutsos

Proceedings of the Sixth International Conference on Computer Vision (ICCV-98), 1998

Well-Behaved, Tunable 3D-Affine Invariants.

Isidore Rigoutsos

Proceedings of the 1998 Conference on Computer Vision and Pattern Recognition (CVPR '98), 1998

1997

Automated Discovery of Active Motifs in Three Dimensional Molecules.

Xiong Wang, Jason Tsong-Li Wang, Dennis E. Shasha, Bruce A. Shapiro, Sitaram Dikshitulu, Isidore Rigoutsos, Kaizhong Zhang

Proceedings of the Third International Conference on Knowledge Discovery and Data Mining (KDD-97), 1997

1996

The Impact of Hashing Function Choice on the Load Balancing in Very Large Dartasets.

Isidore Rigoutsos, Alex Delis

Proceedings of the 8th International Conference on Software Engineering and Knowledge Engineering, 1996

1995

A Bayesian Approach to Model Matching with Geometric Hashing.

Isidore Rigoutsos, Robert A. Hummel

Comput. Vis. Image Underst., 1995

1993

FLASH: A Fast Look-Up Algorithm for String Homology.

Andrea Califano, Isidore Rigoutsos

Proceedings of the 1st International Conference on Intelligent Systems for Molecular Biology, 1993

Distributed Bayesian object recognition.

Isidore Rigoutsos, Robert A. Hummel

Proceedings of the Conference on Computer Vision and Pattern Recognition, 1993

1992

Massively Parallel Bayesian Object Recognition.

Isidore Rigoutsos

PhD thesis, 1992

Massively Parallel Model Matching: Geometric Hashing on the Connection Machine.

Isidore Rigoutsos, Robert A. Hummel

Computer, 1992

Visuo-Tactual Coarseness Estimation Tasks: Experiments and Modeling.

Isidore Rigoutsos

Proceedings of the Advances in Machine Vision: Strategies and Applications, 1992

1991

An algorithm for point clustering and grid generation.

Marsha J. Berger, Isidore Rigoutsos

IEEE Trans. Syst. Man Cybern., 1991

1986

Determining the 3-D Motion of a Rigid Surface Patch Without Correspondence under Perspective Projection.

Yiannis Aloimonos, Isidore Rigoutsos

Proceedings of the 5th National Conference on Artificial Intelligence. Philadelphia, 1986