Search results for "plasmid"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
79	Sílvia M. D. Monteiro, Elizabeth Ferreira Gouvea Goldbarg, Marco César Goldbarg	A Plasmid Based Transgenetic Algorithm for the Biobjective Minimum Spanning Tree Problem.	EvoCOP	2009	DBLP DOI BibTeX RDF	Biobjective minimum spanning tree, plasmid, transgenetic algorithm
68	Pietro Liò, Matteo Brilli, Renato Fani	Topological Metrics in Blast Data Mining: Plasmid and Nitrogen-Fixing Proteins Case Studies.	BIRD	2008	DBLP DOI BibTeX RDF
64	Hirotaka Nakagawa, Kensaku Sakamoto, Yasubumi Sakakibara	Development of an In Vivo Computer Based on Escherichia coli.	DNA	2005	DBLP DOI BibTeX RDF
54	Christiaan V. Henkel, Reno S. Bladergroen, Crina I. A. Balog, André M. Deelder, Tom Head, Grzegorz Rozenberg, Herman P. Spaink	Protein output for DNA computing.	Nat. Comput.	2005	DBLP DOI BibTeX RDF	plasmid computing, DNA computing, proteomics
50	Tiago F. Jesus, Bruno Ribeiro-Gonçalves, Diogo N. Silva, Valeria Bortolaia, Mário Ramirez, João A. Carriço	Plasmid ATLAS: plasmid visual analytics and identification in high-throughput sequencing data.	Nucleic Acids Res.	2019	DBLP DOI BibTeX RDF
50	Zhong Zhao, Baozhen Wang, Liuyong Pang, Ying Chen	Bifurcation Analysis of a Chemostat Model of Plasmid-Bearing and Plasmid-Free Competition with Pulsed Input.	J. Appl. Math.	2014	DBLP DOI BibTeX RDF
50	Jianhua Wu 0006, Hua Nie, Gail S. K. Wolkowicz	The Effect of Inhibitor on the Plasmid-Bearing and Plasmid-Free Model in the Unstirred Chemostat.	SIAM J. Math. Anal.	2007	DBLP DOI BibTeX RDF
50	Dongmei Zuo, Stephanie E. Mohr, Yanhui Hu, Elena Taycher, Andreas Rolfs, Jason Kramer, Janice Williamson, Joshua LaBaer	PlasmID: a centralized repository for plasmid clone information and distribution.	Nucleic Acids Res.	2007	DBLP DOI BibTeX RDF
50	Xiangyun Shi, Xinyu Song 0001, Xueyong Zhou	Analysis of a Model of plasmid-Bearing, plasmid-Free Competition in a Pulsed Chemostat.	Adv. Complex Syst.	2006	DBLP DOI BibTeX RDF
50	Khalid Alhumaizi, Abeer Alwan, Abdelhamid Ajbar	Competition of plasmid-bearing and plasmid-free organisms in a chemostat: A study of bifurcation phenomena.	Math. Comput. Model.	2006	DBLP DOI BibTeX RDF
50	H. Yoshimura, Y. Ikeda, M. Yoshimoto, S. Tamaki, K. Hanada, T. Kusano, Takashi Kohda, H. Saito, M. Oishi	Structural and functional analysis of a polyoma-related mammalian plasmid (L factor): the enhancer activity and plasmid establishment.	Nucleic Acids Res.	1991	DBLP DOI BibTeX RDF
46	Lidia Yamamoto	PlasmidPL: A Plasmid-Inspired Language for Genetic Programming.	EuroGP	2008	DBLP DOI BibTeX RDF
43	Yusuke Nakagawa, Katsuyuki Yugi, Kenji Tsuge, Mitsuhiro Itaya, Hiroshi Yanagawa, Yasubumi Sakakibara	Operon Structure Optimization by Random Self-assembly.	DNA	2008	DBLP DOI BibTeX RDF
43	Kenichi Wakabayashi, Masayuki Yamamura	A Realization of Information Gate by Using Enterococcus faecalis Pheromone System.	DNA	2001	DBLP DOI BibTeX RDF
25	Scott D. Brown, Lisa Dreolini, Jessica F. Wilson, Miruna Balasundaram, Robert A. Holt	Complete sequence verification of plasmid DNA using the Oxford Nanopore Technologies' MinION device.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
25	David S. Wishart, Leah Ren, Jacques Leong-Sit, Sukanta Saha, Jason R. Grant, Paul Stothard, Upasana Singh, Abby Kropielnicki, Eponine Oler, Harrison Peters, Vasuk Gautam	PlasMapper 3.0 - a web server for generating, editing, annotating and visualizing publication quality plasmid maps.	Nucleic Acids Res.	2023	DBLP DOI BibTeX RDF
25	Aniket C. Mane, Mahsa Faizrahnemoon, Tomás Vinar, Brona Brejová, Cédric Chauve	PlasBin-flow: a flow-based MILP algorithm for plasmid contigs binning.	Bioinform.	2023	DBLP DOI BibTeX RDF
25	Yongxin Ji, Jiayu Shang, Xubo Tang, Yanni Sun	HOTSPOT: hierarchical host prediction for assembled plasmid contigs with transformer.	Bioinform.	2023	DBLP DOI BibTeX RDF
25	Eduardo Ibargüen-Mondragón, Lourdes Esteva, Miller Cerón Gómez	An optimal control problem applied to plasmid-mediated antibiotic resistance.	J. Appl. Math. Comput.	2022	DBLP DOI BibTeX RDF
25	A. Gargantilla Becerra, P. Martín Gutiérrez, Rafael Lahoz-Beltra	Computing within bacteria: Programming of bacterial behavior by means of a plasmid encoding a perceptron neural network.	Biosyst.	2022	DBLP DOI BibTeX RDF
25	Anuradha Wickramarachchi, Yu Lin 0001	GraphPlas: Refined Classification of Plasmid Sequences Using Assembly Graphs.	IEEE ACM Trans. Comput. Biol. Bioinform.	2022	DBLP DOI BibTeX RDF
25	M. Wayne Davis, Erik M. Jorgensen	ApE, A Plasmid Editor: A Freely Available DNA Manipulation and Visualization Program.	Frontiers Bioinform.	2022	DBLP DOI BibTeX RDF
25	Hariharan Dandapani, Pasi Kankaanpää, Patrik R. Jones, Pauli Kallio	A Plasmid-Based Fluorescence Reporter System for Monitoring Oxidative Damage in E. coli.	Sensors	2022	DBLP DOI BibTeX RDF
25	Noortje G. Godijk, Martin C. J. Bootsma, Henri C. van Werkhoven, Valentijn A. Schweitzer, Sabine C. de Greeff, Annelot F. Schoffelen, Marc J. M. Bonten	Does plasmid-based beta-lactam resistance increase E. coli infections: Modelling addition and replacement mechanisms.	PLoS Comput. Biol.	2022	DBLP DOI BibTeX RDF
25	Aniket C. Mane, Mahsa Faizrahnemoon, Cédric Chauve	A Mixed Integer Linear Programming Algorithm for Plasmid Binning.	RECOMB-CG	2022	DBLP DOI BibTeX RDF
25	Léa Pradier, Tazzio Tissot, Anna-Sophie Fiston-Lavier, Stéphanie Bedhomme	PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets.	BMC Bioinform.	2021	DBLP DOI BibTeX RDF
25	Matthew J. McGuffie, Jeffrey E. Barrick	pLannotate: engineered plasmid annotation.	Nucleic Acids Res.	2021	DBLP DOI BibTeX RDF
25	Kazem Karami, Nasrin Jamshidian, Mostafa Zakariazadeh, Amir Abbas Momtazi-Borojeni, Elham Abdollahi, Zahra Amirghofran, Azar Shahpiri, Akram Kazemi Nasab	Experimental and theoretical studies of Palladium-hydrazide complexes' interaction with DNA and BSA, in vitro cytotoxicity activity and plasmid cleavage ability.	Comput. Biol. Chem.	2021	DBLP DOI BibTeX RDF
25	Yan Jiang, Yanfei Wang, Xiaoting Hua, Yue Qu, Anton Y. Peleg, Yunsong Yu	Pooled Plasmid Sequencing Reveals the Relationship Between Mobile Genetic Elements and Antimicrobial Resistance Genes in Clinically Isolated Klebsiella pneumoniae.	Genom. Proteom. Bioinform.	2020	DBLP DOI BibTeX RDF
25	Sergio Arredondo-Alonso, Martin Bootsma, Yaïr Hein, Malbert R. C. Rogers, Jukka Corander, Rob J. L. Willems, Anita C. Schürch	gplas: a comprehensive tool for plasmid analysis using short-read graphs.	Bioinform.	2020	DBLP DOI BibTeX RDF
25	Catherine Badel, Violette Da Cunha, Ryan Catchpole, Patrick Forterre, Jacques Oberto	WASPS: web-assisted symbolic plasmid synteny server.	Bioinform.	2020	DBLP DOI BibTeX RDF
25	Zhencheng Fang, Jie Tan, Shufang Wu, Mo Li, Chunhui Wang, Yongchu Liu, Huaiqiu Zhu	PlasGUN: gene prediction in plasmid metagenomic short reads using deep learning.	Bioinform.	2020	DBLP DOI BibTeX RDF
25	David Pellow, Itzik Mizrahi, Ron Shamir	PlasClass improves plasmid sequence classification.	PLoS Comput. Biol.	2020	DBLP DOI BibTeX RDF
25	Daniele Peri, Manon Deville, Clair Poignard, Emanuela Signori, Roberto Natalini	Numerical optimization of plasmid DNA delivery combined with hyaluronidase injection for electroporation protocol.	Comput. Methods Programs Biomed.	2020	DBLP DOI BibTeX RDF
25	Meghdad Hajimorad, Jeffrey A. Gralnick	Plasmid copy number variation of a modular vector set in Shewanella oneidensis MR-1.	EMBC	2020	DBLP DOI BibTeX RDF
25	Cedric Christian Laczny, Valentina Galata, Achim Plum, Andreas E. Posch, Andreas Keller	Assessing the heterogeneity of in silico plasmid predictions based on whole-genome-sequenced clinical isolates.	Briefings Bioinform.	2019	DBLP DOI BibTeX RDF
25	Hui-Min Zhang, Jun Wang 0147, Xing-Hua Liao	Construction and Functional Analysis of Luciferase Reporter Plasmid Containing CAAP1 Gene Promoter.	ICMHI	2019	DBLP DOI BibTeX RDF
25	Nenad S. Mitic, Sasa N. Malkov, Jovana J. Kovacevic, Gordana Pavlovic-Lazetic, Milos V. Beljanski	Structural disorder of plasmid-encoded proteins in Bacteria and Archaea.	BMC Bioinform.	2018	DBLP DOI BibTeX RDF
25	Luis Vielva, María de Toro, Val F. Lanza, Fernando de la Cruz	PLACNETw: a web-based tool for plasmid reconstruction from bacterial genomes.	Bioinform.	2017	DBLP DOI BibTeX RDF
25	Joanne Kamens	The Addgene repository: an international nonprofit plasmid and data resource.	Nucleic Acids Res.	2015	DBLP DOI BibTeX RDF
25	Adriano N. Raposo, Abel João Padrão Gomes	isDNA: A Tool for Real-Time Visualization of Plasmid DNA Monte-Carlo Simulations in 3D.	IWBBIO (2)	2015	DBLP DOI BibTeX RDF
25	Shivani Goel, Sara Kalvala	PlasMatch: a tool for choosing usable restriction enzymes and plasmid backbones.	BCB	2015	DBLP DOI BibTeX RDF
25	He Huang 0007, Yan Dong, Zhi-Liang Yang, Hao Luo 0002, Xi Zhang, Feng Gao 0001	Complete Sequence of pABTJ2, A Plasmid from Acinetobacter baumannii MDR-TJ, Carrying Many Phage-like Elements.	Genom. Proteom. Bioinform.	2014	DBLP DOI BibTeX RDF
25	Adriano N. Raposo, Abel João Padrão Gomes	Efficient deformation algorithm for plasmid DNA simulations.	BMC Bioinform.	2014	DBLP DOI BibTeX RDF
25	Catherine Y. Seiler, Jin G. Park, Amit Sharma, Preston Hunter, Padmini Surapaneni, Casey Sedillo, James Field, Rhys Algar, Andrea Price, Jason Steel, Andrea Throop, Michael Fiacco, Joshua LaBaer	DNASU plasmid and PSI: Biology-Materials repositories: resources to accelerate biological research.	Nucleic Acids Res.	2014	DBLP DOI BibTeX RDF
25	David Hradetzky, Stephan Boehringer, Thomas Geiser, Amiq Gazdhar	An approach towards bronchoscopic-based gene therapy using electrical field accelerated plasmid droplets.	EMBC	2012	DBLP DOI BibTeX RDF
25	Rafael Silva-Rocha, Hidde de Jong, Javier Tamames, Víctor de Lorenzo	The logic layout of the TOL network of Pseudomonas putida pWW0 plasmid stems from a metabolic amplifier motif (MAM) that optimizes biodegradation of m-xylene.	BMC Syst. Biol.	2011	DBLP DOI BibTeX RDF
25	Meng-Meng Qiang, Nan Wang, Xiang-Zheng Hu, Tong-Cun Zhang	Construction and function analysis of luciferase reporter plasmid with myocardin gene promoter.	BMEI	2011	DBLP DOI BibTeX RDF
25	Fengfeng Zhou, Ying Xu 0001	cBar: a computer program to distinguish plasmid-derived from chromosome-derived sequence fragments in metagenomics data.	Bioinform.	2010	DBLP DOI BibTeX RDF
25	Zhixiang Yin, Hua Chen, Bosheng Song	Plasmid DNA computing model of 0-1 programming problem.	BIC-TA	2010	DBLP DOI BibTeX RDF
25	Seema Tharannum, J. Nithya, T. S. Manjula	Prevalence of Plasmid Mediated Multi Drug Resistant Enterobacteriaceae in Hospital Environment at Bangalore, India.	ICECS	2009	DBLP DOI BibTeX RDF
25	Richard Gregory 0001, J. R. Saunders, V. A. Saunders	Rule-based modelling of conjugative plasmid transfer and incompatibility.	Biosyst.	2008	DBLP DOI BibTeX RDF
25	Matteo Brilli, Alessio Mengoni, Marco Fondi, Marco Bazzicalupo, Pietro Liò, Renato Fani	Analysis of plasmid genes by phylogenetic profiling and visualization of homology relationships using Blast2Network.	BMC Bioinform.	2008	DBLP DOI BibTeX RDF
25	Mano Sivaganesan, Shawn Seifring, Manju Varma, Richard A. Haugland, Orin C. Shanks	A Bayesian method for calculating real-time quantitative PCR calibration curves using absolute plasmid DNA standards.	BMC Bioinform.	2008	DBLP DOI BibTeX RDF
25	Bruno S. Andrade, Alex G. Taranto, Shaila C. S. Roessle, Aristóteles Góes-Neto, Mitchell A. Avery	Comparative Modeling of DNA and RNA Polymerases from Moniliophthora perniciosa Mitochondrial Plasmid.	BCBGC	2008	DBLP BibTeX RDF
25	Ioannis Lestas, Glenn Vinnicombe, Tom Bishop	Tradeoffs in gene regulatory networks: the plasmid replication control problem.	CDC/ECC	2005	DBLP DOI BibTeX RDF
25	Xiaoli Dong, Paul Stothard, Ian J. Forsythe, David S. Wishart	PlasMapper: a web server for drawing and auto-annotating plasmid maps.	Nucleic Acids Res.	2004	DBLP DOI BibTeX RDF
25	Mark Jacobs	Developing the Agrobacterium Ti plasmid as a vector for plant genetic engineering: the 2002 Benjamin Franklin Medal in life sciences presented to Mary-Dell Chilton.	J. Frankl. Inst.	2003	DBLP DOI BibTeX RDF
25	P. J. E. Goss, Jean Peccoud	Analysis of the Stabilizing Effect of ROM on the Genetic Network Controlling ColE1 Plasmid Replication.	Pacific Symposium on Biocomputing	1999	DBLP BibTeX RDF
25	Christian Barth, D. J. Fraser, Paul R. Fisher	A rapid, small scale method for characterization of plasmid insertions in the Dictyostelium genome.	Nucleic Acids Res.	1998	DBLP DOI BibTeX RDF
25	Eberhard Scherzinger, Rudi Lurz, Sabine Otto, Beate Dobrinski	In vitro cleavage of double- and single-stranded DNA by plasmid RSF1010- encoded mobilization proteins.	Nucleic Acids Res.	1992	DBLP DOI BibTeX RDF
25	M. A. Mitchell, Krzysztof Skowronek, L. Kauc, S. H. Goodgal	Electroporation of Haemophilus influenzae is effective for transformation of plasmid but not chromosomal DNA.	Nucleic Acids Res.	1991	DBLP DOI BibTeX RDF
25	J. D. Liu, J. S. Parkinson	A Macintosh program for drawing circular plasmid maps.	Comput. Appl. Biosci.	1989	DBLP DOI BibTeX RDF
25	M. Tommasino, S. Ricci, C. L. Galeotti	Genome organization of the killer plasmid pGK12 from Kluyveromyces lactis.	Nucleic Acids Res.	1988	DBLP DOI BibTeX RDF
25	Antonio Puyet, Gloria H. del Solar, Manuel Espinosa	Identification of the origin and direction of replication of the broad-host-range plasmid pLS1.	Nucleic Acids Res.	1988	DBLP DOI BibTeX RDF
25	Petra Grönger, Sundaram S. Manian, Helmut Reiländer, Michael O'Connell, Ursula B. Priefer, Alfred Pühler	Organization and partial sequence of a DNA region of the Rhizobium leguminosarum symbiotic plasmid pRL6JI containing the genes fixABC, nifA, nifB and a novel open reading frame.	Nucleic Acids Res.	1987	DBLP DOI BibTeX RDF
25	Rolf Deblaere, Benny Bytebier, Henri De Greve, Francine Deboeck, Jeff Schell, Marc Van Montagu, Jan Leemans	Efficient octopine Ti plasmid-derived vectors for Agrobacterium- mediated gene transfer to plants.	Nucleic Acids Res.	1985	DBLP DOI BibTeX RDF
25	Marcin Filutowicz, George Davis, Alan Greener, Donald R. Helinski	Autorepressor properties of the pi-initiation protein encoded by plasmid R6K.	Nucleic Acids Res.	1985	DBLP DOI BibTeX RDF
25	Ramon Diaz, Sagrario Ortega	Initiation of plasmid R1 replication in vitro is independent of transcription by host RNA polymerase.	Nucleic Acids Res.	1984	DBLP DOI BibTeX RDF
25	Gary P. Nolan, Claude V. Maina, Aladar A. Szalay	Plasmid mapping computer program.	Nucleic Acids Res.	1984	DBLP DOI BibTeX RDF
25	A. R. Stuitje, E. Veltkamp, P. J. Weijers, H. J. Nijkamp	Origin and direction of replication of the bacteriocinogenic plasmid Clo DF13.	Nucleic Acids Res.	1979	DBLP DOI BibTeX RDF
21	Bei Wang 0001, Dimitris Papamichail, Steffen Mueller, Steven Skiena	Two proteins for the price of one: the design of maximally compressed coding sequences.	Nat. Comput.	2007	DBLP DOI BibTeX RDF	Gene compression, Gene design, Overlapping genes, Sequence design algorithms, Dynamic programming, Synthetic biology, Protein design
21	Marc Blenkiron, D. K. Arvind 0001, Jamie A. Davies	Design of an irreversible DNA memory element.	Nat. Comput.	2007	DBLP DOI BibTeX RDF	DNA computing, Rotatable, Latch, Synthetic biology, Memory element
21	Xinyu Tang, Shawna L. Thomas, Lydia Tapia, Nancy M. Amato	Tools for Simulating and Analyzing RNA Folding Kinetics.	RECOMB	2007	DBLP DOI BibTeX RDF
21	Can Alkan, Emre Karakoç, Joseph H. Nadeau, Süleyman Cenk Sahinalp, Kaizhong Zhang	RNA-RNA Interaction Prediction and Antisense RNA Target Search.	RECOMB	2005	DBLP DOI BibTeX RDF
21	Bei Wang 0001, Dimitris Papamichail, Steffen Mueller, Steven Skiena	Two Proteins for the Price of One: The Design of Maximally Compressed Coding Sequences.	DNA	2005	DBLP DOI BibTeX RDF
21	Mark Adams	The sequence of the human genome (abstract only).	RECOMB	2001	DBLP DOI BibTeX RDF