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ORCIDGregory Butler
Greg Butler
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- affiliation: Concordia University, Montreal, Canada
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2020 – today
- 2023
[j32]Hamed Ghazikhani
, Gregory Butler:
Enhanced identification of membrane transport proteins: a hybrid approach combining ProtBERT-BFD and convolutional neural networks. J. Integr. Bioinform. 20(2) (2023)- 2022
- [c84]Sima Ataei, Gregory Butler:
Predicting the specific substrate for transmembrane transport proteins using BERT language model. CIBCB 2022: 1-8 - [c83]Hamed Ghazikhani, Gregory Butler:
TooT-BERT-M: Discriminating Membrane Proteins from Non-Membrane Proteins using a BERT Representation of Protein Primary Sequences. CIBCB 2022: 1-8 - [c82]Hamed Ghazikhani, Gregory Butler:
A Study on the Application of Protein Language Models in the Analysis of Membrane Proteins. DCAI (2) 2022: 147-152 - [c81]Hamed Ghazikhani, Gregory Butler:
TooT-BERT-C: A study on discriminating ion channels from membrane proteins based on the primary sequence's contextual representation from BERT models. ICBRA 2022: 23-29 - [c80]Hamed Ghazikhani, Gregory Butler:
TooT-BERT-T: A BERT Approach on Discriminating Transport Proteins from Non-transport Proteins. PACBB 2022: 1-11 - 2021
- [j31]Qian Wang, Xin Zhang, Alexander E. Sorochinsky, Greg Butler, Jianlin Han, Vadim A. Soloshonok:
Advances in the Development of Trifluoromethoxylation Reagents. Symmetry 13(12): 2380 (2021) - 2020
- [j30]Munira Alballa, Gregory Butler:
TooT-T: discrimination of transport proteins from non-transport proteins. BMC Bioinform. 21-S(3): 25 (2020) - [j29]Munira Alballa, Gregory Butler:
Integrative approach for detecting membrane proteins. BMC Bioinform. 21-S(19): 575 (2020) - [j28]Stephanie Kamgnia Wonkap, Gregory Butler:
BENIN: Biologically enhanced network inference. J. Bioinform. Comput. Biol. 18(3): 2040007:1-2040007:16 (2020) - [c79]Shiva Shamloo, Qing Ye, Gregory Butler:
TportHMM: Predicting the substrate class of transmembrane transport proteins using profile Hidden Markov Models. BIBM 2020: 2812-2817
2010 – 2019
- 2019
- [c78]Munira Alballa, Gregory Butler:
Ontology-based transporter substrate annotation for benchmark datasets. BIBM 2019: 2613-2619 - 2017
- [c77]Christine Kehyayan, Gregory Butler:
SynAPhy and SynAVal: Mining a Synteny-Similarity Graph to Resolve Orthology of Proteins in Fungal Genomes. BIBE 2017: 346-351 - 2016
- [c76]Stuart Thiel, Greg Butler, Larry H. Thiel:
Improving GraphChi for Large Graph Processing: Fast Radix Sort in Pre-Processing. IDEAS 2016: 135-141 - 2015
- [j27]Kimchi Strasser, Erin McDonnell, Carol Nyaga, Min Wu, Sherry Wu, Hayda Almeida, Marie-Jean Meurs, Leila Kosseim, Justin Powlowski, Gregory Butler, Adrian Tsang:
mycoCLAP, the database for characterized lignocellulose-active proteins of fungal origin: resource and text mining curation support. Database J. Biol. Databases Curation 2015 (2015) - [c75]Nada Alhirabi, Greg Butler:
A visual spreadsheet using HTML5 for whole genome display. CIBCB 2015: 1-7 - [c74]Faizah Aplop, Greg Butler:
On predicting transport proteins and their substrates for the reconstruction of metabolic networks. CIBCB 2015: 1-9 - [c73]Lin Cheng, Greg Butler:
Accelerating Search of Protein Sequence Databases using CUDA-Enabled GPU. DASFAA (1) 2015: 279-298 - [c72]Gregory Butler:
Computation for Genomics Knowledge Discovery. SE4HPCS@ICSE 2015: 46-50 - 2014
- [j26]Thomas Triplet, Gregory Butler:
A review of genomic data warehousing systems. Briefings Bioinform. 15(4): 471-483 (2014) - [j25]Ian Reid, Nicholas O'Toole, Omar Zabaneh, Reza Nourzadeh, Mahmoud Dahdouli, Mostafa Abdellateef, Paul M. K. Gordon, Jung Soh, Gregory Butler, Christoph W. Sensen, Adrian Tsang:
SnowyOwl: accurate prediction of fungal genes by using RNA-Seq and homology information to select among ab initio models. BMC Bioinform. 15: 229 (2014) - 2013
- [j24]Bahman Zamani, Greg Butler:
Pattern Language Verification in Model Driven Design. Inf. Sci. 237: 343-355 (2013) - [c71]Hind Melhem, Xiang Jia Min, Greg Butler:
The impact of SignalP 4.0 on the prediction of secreted proteins. CIBCB 2013: 16-22 - [c70]Greg Butler:
Putting It All Together: The Design of a Pipeline for Genome-Wide Functional Annotation of Fungi in the Modern Era of "-Omics" Data and Systems Biology. DILS 2013: 113-127 - [c69]Fedor Bakalov, Marie-Jean Meurs, Birgitta König-Ries, Bahar Sateli, René Witte, Greg Butler, Adrian Tsang:
An approach to controlling user models and personalization effects in recommender systems. IUI 2013: 49-56 - [c68]Thomas Triplet, Gregory Butler:
BenchDW: a generic framework for biological data warehouse benchmarking. SAC 2013: 1328-1334 - [e3]René Witte, Christopher J. O. Baker, Greg Butler, Michel Dumontier:
Proceedings of the 4th Canadian Semantic Web Symposium part of the Semantic Trilogy 2013, Montreal, QC, Canada, July 10th, 2013. CEUR Workshop Proceedings 1054, CEUR-WS.org 2013 [contents] - [e2]Christopher J. O. Baker, Greg Butler, Igor Jurisica:
Data Integration in the Life Sciences - 9th International Conference, DILS 2013, Montreal, QC, Canada, July 11-12, 2013. Proceedings. Lecture Notes in Computer Science 7970, Springer 2013, ISBN 978-3-642-39436-2 [contents] - 2012
- [j23]Thomas Triplet, Gregory Butler:
The EnzymeTracker: an open-source laboratory information management system for sample tracking. BMC Bioinform. 13: 15 (2012) - [j22]Marie-Jean Meurs, Caitlin Murphy, Ingo Morgenstern, Greg Butler, Justin Powlowski, Adrian Tsang, René Witte:
Semantic text mining support for lignocellulose research. BMC Medical Informatics Decis. Mak. 12(S-1): S5 (2012) - [c67]Fedor Bakalov, Marie-Jean Meurs, Birgitta König-Ries, Bahar Sateli, René Witte, Greg Butler, Adrian Tsang:
Personalized semantic assistance for the curation of biochemical literature. BIBM 2012: 1-4 - [c66]Jun Luo, Gregory Butler:
ECTree: an extended tree index for attributed subgraph queries. IDEAS 2012: 216-221 - 2011
- [j21]Caitlin Murphy, Justin Powlowski, Min Wu, Greg Butler, Adrian Tsang:
Curation of characterized glycoside hydrolases of Fungal origin. Database J. Biol. Databases Curation 2011 (2011) - [c65]Jianlong Qi, Tom Michoel, Gregory Butler:
An integrative approach to infer regulation programs in a transcription regulatory module network. BCB 2011: 218-225 - [c64]Marie-Jean Meurs, Caitlin Murphy, Nona Naderi, Ingo Morgenstern, Carolina Cantu, Shary Semarjit, Greg Butler, Justin Powlowski, Adrian Tsang, René Witte:
Towards Evaluating the Impact of Semantic Support for Curating the Fungus Scientic Literature. CSWS 2011: 34-39 - [c63]Stephen C. Barrett, Patrice Chalin, Greg Butler:
Table-Driven Detection and Resolution of Operation-Based Merge Conflicts with Mirador. ECMFA 2011: 329-344 - [c62]Jianlong Qi, Tom Michoel, Gregory Butler:
Applying Linear Models to Learn Regulation Programs in a Transcription Regulatory Module Network. EvoBio 2011: 37-47 - 2010
- [c61]Christine Kehyayan, Gregory Butler:
Issues with the PipeAlign phylogenomics toolkit in identifying protein subfamilies. CIBCB 2010: 1-6 - [c60]Jianlong Qi, Tom Michoel, Gregory Butler:
A regression tree-based Gibbs sampler to learn the regulation programs in a transcription regulatory module network. CIBCB 2010: 1-8 - [c59]Stephen C. Barrett, Greg Butler, Patrice Chalin:
Mirador: a synthesis of model matching strategies. IWMCP@ICMT 2010: 2-10
2000 – 2009
- 2009
- [c58]Bahman Zamani, Greg Butler:
Describing Pattern Languages for Checking Design Models. APSEC 2009: 197-204 - [c57]Stephen C. Barrett, Daniel Sinnig, Patrice Chalin, Greg Butler:
Merging of Use Case Models: Semantic Foundations. TASE 2009: 182-189 - 2008
- [c56]Bahman Zamani, Sahar Kayhani, Greg Butler:
A Pattern Language Verifier for Web-Based Enterprise Applications. MoDELS 2008: 553-567 - [c55]Greg Butler, Anders Langlands, Hannes Ricklefs:
A pipeline for 800+ shots. SIGGRAPH Talks 2008: 72:1 - [c54]Bahman Zamani, Greg Butler, Sahar Kayhani:
Tool Support for Pattern Selection and Use. SQM@CSMR 2008: 127-142 - 2006
- [j20]Christopher J. O. Baker, Arash Shaban-Nejad, Xiao Su, Volker Haarslev, Greg Butler:
Semantic web infrastructure for fungal enzyme biotechnologists. J. Web Semant. 4(3): 168-180 (2006) - [c53]Alireza Shaneh, Gregory Butler:
Bayesian Learning for Feed-Forward Neural Network with Application to Proteomic Data: The Glycosylation Sites Detection of the Epidermal Growth Factor-Like Proteins Associated with Cancer as a Case Study. Canadian AI 2006: 110-121 - [c52]Lugang Xu, Greg Butler:
Cascaded Refactoring for Framework Development and Evolution. ASWEC 2006: 319-330 - [c51]Farzad Kohantorabi, Gregory Butler, Christopher J. O. Baker:
A Distributed Agent System upon Semantic Web Technologies to Provide Biological Data. CSWWS 2006: 63-80 - [c50]Christopher J. O. Baker, Xiao Su, Greg Butler, Volker Haarslev:
Ontoligent Interactive Query Tool. CSWWS 2006: 155-169 - [c49]Greg Butler, Guang Wang, Yue Wang, Liqian Zou:
Query Optimization for a Graph Database with Visual Queries. DASFAA 2006: 602-616 - 2005
- [j19]Xiang Jia Min, Gregory Butler, Reginald Storms, Adrian Tsang:
TargetIdentifier: a webserver for identifying full-length cDNAs from EST sequences. Nucleic Acids Res. 33(Web-Server-Issue): 669-672 (2005) - [j18]Xiang Jia Min, Gregory Butler, Reginald Storms, Adrian Tsang:
OrfPredictor: predicting protein-coding regions in EST-derived sequences. Nucleic Acids Res. 33(Web-Server-Issue): 677-680 (2005) - [c48]Greg Butler, Guang Wang, Yue Wang, Liqian Zou:
A graph database with visual queries for genomics. APBC 2005: 31-40 - [c47]Arash Shaban-Nejad, Christopher J. O. Baker, Volker Haarslev, Greg Butler:
The FungalWeb Ontology: Semantic Web Challenges in Bioinformatics and Genomics. ISWC 2005: 1063-1066 - 2004
- [c46]Jian Xu, Wei Yu, Kexing Rui, Gregory Butler:
Use Case Refactoring: A Tool and a Case Study. APSEC 2004: 484-491 - [c45]Jingxue Zhou, Bin Nie, Gregory Butler:
An Efficient B+-Tree Implementation in C++ Using the STL Style. ICEIS (1) 2004: 163-168 - [c44]Shengbing Ren, Gregory Butler, Kexing Rui, Jian Xu, Wei Yu, Renhang Luo:
A Prototype Tool for Use Case Refactoring. ICEIS (3) 2004: 173-178 - [c43]Yun Mai, Jinmiao Li, Greg Butler:
Difficult Issues in Designing Adaptive Object Model Systems. ICEIS (3) 2004: 295-302 - [c42]Vivien Liang, Gregory Butler:
WISH Query Composer. ICEIS (1) 2004: 566-569 - [c41]Ibrahim Haddad, Greg Butler:
Experimental Studies of Scalability in Clustered Web Systems. IPDPS 2004 - [c40]Wei Yu, Jun Li, Greg Butler:
Refactoring Use Case Models on Episodes. ASE 2004: 328-331 - [c39]Greg Butler, Rei Lee, Mike Welcome:
GUPFS: The Global Unified Parallel File System Project at NERSC. MSST 2004: 361-371 - [c38]Matt Aitken, Greg Butler, Dan Lemmon, Eric Saindon, Dana Peters, Guy Williams:
The Lord of the Rings: the visual effects that brought middle earth to the screen. SIGGRAPH Course Notes 2004: 11 - 2003
- [c37]Kexing Rui, Gregory Butler:
Refactoring Use Case Models: The Metamodel. ACSC 2003: 301-308 - [c36]Ju Wang, Jinmiao Li, Greg Butler:
Implementing the PostgreSQL Query Optimizer within the OPT++ Framework. APSEC 2003: 262-272 - [c35]Jinmiao Li, Yun Mai, Greg Butler:
Implementing Exception Handling Policies for Workflow Management System. APSEC 2003: 564-573 - [c34]Gregory Butler, Xin Shen, Lugang Xu:
Issues in Architectural Modeling and Evolution in the Know-It-All Case Study. ECBS 2003: 321-330 - [c33]Kexing Rui, Shengbing Ren, Gregory Butler:
Refactoring Use Case Models: A Case Study. ICEIS (3) 2003: 239-244 - [c32]Shengbing Ren, Kexing Rui, Gregory Butler:
Refactoring the Scenario Specification: A Message Sequence Chart Approach. OOIS 2003: 294-298 - 2002
- [c31]Gregory Butler:
Architectural Refactoring in Framework Evolution: A Case Study. GPCE 2002: 128-139 - 2001
- [j17]Greg Butler:
Generative techniques for product lines. ACM SIGSOFT Softw. Eng. Notes 26(6): 74-76 (2001) - [c30]Barbara Barth, Gregory Butler, Krzysztof Czarnecki, Ulrich W. Eisenecker:
Generative Programming. ECOOP Workshops 2001: 135-149 - [c29]Gregory Butler, Don S. Batory, Krzysztof Czarnecki, Ulrich W. Eisenecker:
Generative Techniques for Product Lines. ICSE 2001: 760-761 - [c28]Gregory Butler, Lugang Xu:
Cascaded refactoring for framework. SSR 2001: 51-57 - [e1]Gregory Butler, Stan Jarzabek:
Generative and Component-Based Software Engineering, Second International Symposium, GCSE 2000, Erfurt, Germany, October 9-12, 2000, Revised Papers. Lecture Notes in Computer Science 2177, Springer 2001, ISBN 3-540-42578-0 [contents] - 2000
- [j16]Gregory Butler, Rudolf K. Keller, Hafedh Mili:
A framework for framework documentation. ACM Comput. Surv. 32(1es): 15 (2000) - [c27]Shawn Delaney, Gregory Butler, Clement W. H. Lam, Larry H. Thiel:
Three Improvements to the BLASTP Search of Genome Databases. SSDBM 2000: 14-24
1990 – 1999
- 1999
- [c26]Gregory Butler, T. Kharma, O. Tjandra:
Towards OM - An Object-Oriented Implementation of Mantra. Australasian Database Conference 1999: 89-100 - [c25]Greg Butler, Andrea Gantchev, Peter Grogono:
Reusable Strategies for Software Agents via the Subsumption. APSEC 1999: 326-333 - [c24]Gregory Butler:
Developing Frameworks by Aligning Requirements, Design, and Code. ECOOP Workshops 1999: 368 - [c23]Miguel Abdalla, Ferhat Khendek, Greg Butler:
New results on deriving SDL specifications from MSCs. SDL Forum 1999: 51-66 - 1998
- [c22]Greg Butler, Peter Grogono, Ferhat Khendek:
A Reuse Case Perspective on Documenting Frameworks. APSEC 1998: 94-101 - [c21]Yuan Peng, Ferhat Khendek, Peter Grogono, Greg Butler:
Feature Interaction Detection Technique Based on Feature Assumptions. FIW 1998: 291-298 - 1997
- [c20]Greg Butler:
Quality and Reuse in Industrial Software Engineering. APSEC 1997: 3-12 - [c19]Greg Butler, Peter Grogono, Ferhat Khendek:
A Z Specification of Use Cases: A Preliminary Report. APSEC 1997: 505-506 - 1996
- [c18]Gregory Butler, Peter Grogono, Rajjan Shinghal, Indra A. Tjandra:
Document Recognition, Semantics, and Symbolic Reasoning in Reverse Engineering of Software. AISMC 1996: 38-48 - [c17]Gregory Butler:
Software Architectures for Computer Algebra: A Case Study. DISCO 1996: 277-286 - 1995
- [j15]Gregory Butler:
Easy Verification of Behavioural Subtyping in Common Cases. Inf. Process. Lett. 55(1): 57-58 (1995) - [j14]Frank Ng, Gregory Butler, Judy Kay:
An Intelligent Tutoring System for the Dijkstra-Gries Methodology. IEEE Trans. Software Eng. 21(5): 415-428 (1995) - [c16]Gregory Butler:
Intelligent Mathematical Databases. DASFAA 1995: 326-332 - [c15]Gregory Butler, Peter Grogono, Rajjan Shinghal, Indra A. Tjandra:
Analyzing the logical structure of data flow diagrams in software documents. ICDAR 1995: 575-578 - [c14]Gregory Butler, Peter Grogono, Rajjan Shinghal, Indra A. Tjandra:
Retrieving Information from Data Flow Diagrams. WCRE 1995: 22-29 - [c13]Indra A. Tjandra, Gregory Butler:
Formal Representation of Reusable Software Modules. WCRE 1995: 198-202 - 1994
- [j13]Gregory Butler, Sridhar S. Iyer, E. A. O'Brien:
A Database of Groups of Prime-power Order. Softw. Pract. Exp. 24(10): 911-951 (1994) - [c12]Gregory Butler:
Datalog and TwoGroups and C++. AISMC 1994: 80-92 - [c11]Gregory Butler, Clement W. H. Lam:
The Preliminary Design of an Object-Oriented Framework for Combinatorial Enumeration. COODBSE 1994: 134-144 - 1993
- [j12]Gregory Butler, John J. Cannon:
On Holt's Algorithm. J. Symb. Comput. 15(2): 229-233 (1993) - [j11]Gregory Butler:
The Transitive Groups of Degree Fourteen and Fifteen. J. Symb. Comput. 16(5): 413-422 (1993) - [c10]Frank Ng, Gregory Butler:
Specialised Theorem-Proving in an Intelligent Tutoring System for the Dijkstra-Gries Programming Methodology. ICCI 1993: 294-298 - 1992
- [j10]Greg Butler:
An analysis of Atkinson's algorithm. SIGSAM Bull. 26(2): 1-9 (1992) - [c9]Gregory Butler:
The Progress Towards an Intelligent Assistent - A Discussion Paper. AISMC 1992: 107-115 - [c8]Gregory Butler:
Experimental Comparison of Algorithms for Sylow Subgroups. ISSAC 1992: 251-262 - 1991
- [b1]Gregory Butler:
Fundamental Algorithms for Permutation Groups. Lecture Notes in Computer Science 559, Springer 1991, ISBN 3-540-54955-2 - [j9]Gregory Butler, Sridhar S. Iyer:
Towards a deductive database for small simple groups. SIGSAM Bull. 25(4): 7-17 (1991) - [j8]Gregory Butler, John J. Cannon:
Computing Sylow Subgroups of Permutation Groups Using Homomorphic Images of Centralizers. J. Symb. Comput. 12(4/5): 443-458 (1991) - [c7]Gregory Butler:
Implementing Some Algorithms of Kantor. AAECC 1991: 82-93 - [c6]Gregory Butler, Sridhar S. Iyer, Susan H. Ley:
A Deductive Database of the Groups of Order Dividing 128. ISSAC 1991: 210-218 - 1990
- [c5]Gregory Butler, John J. Cannon:
The Design of Cayley - a Language for Modern Algebra. DISCO 1990: 10-19 - [c4]Gregory Butler, Sridhar S. Iyer:
Deductive Mathematical Databases - A Case Study. SSDBM 1990: 50-64
1980 – 1989
- 1989
- [j7]Gregory Butler, John J. Cannon:
Computing in Permutation and Matrix Groups III: Sylow Subgroups. J. Symb. Comput. 8(3): 241-252 (1989) - 1988
- [j6]Gregory Butler:
A Proof of Holt's Algorithm. J. Symb. Comput. 5(3): 275-283 (1988) - [c3]Gregory Butler, John J. Cannon:
Cayley, Version 4: The User Language. ISSAC 1988: 456-466 - 1987
- [j5]Gregory Butler, Matthew J. Kendall:
The Suitability for Master/Slave Concurrency of Concurrent Euclid, Ada and Modula. Softw. Pract. Exp. 17(2): 117-134 (1987) - 1986
- [c2]Greg Butler:
Divide-and-conquer in computational group theory. SYMSAC 1986: 59-64 - 1985
- [j4]Gregory Butler:
An improvement to the centralizer algorithm for permutation groups. SIGSAM Bull. 19(2): 14-18 (1985) - [j3]Gregory Butler:
Effective Computation with Group Homomorphisms. J. Symb. Comput. 1(2): 143-157 (1985) - [j2]Gregory Butler, Clement W. H. Lam:
A General Backtrack Algorithm for the Isomorphism Problem of Combinatorial Objects. J. Symb. Comput. 1(4): 363-381 (1985) - 1983
- [j1]Gregory Butler:
Computing Normalizers in Permutation Groups. J. Algorithms 4(2): 163-175 (1983) - 1981
- [c1]Gregory Butler:
Double cosets and searching small groups. SYMSACC 1981: 182-187