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1

On the Hopcroft’s minimization technique for DFA and DFCA

Andrei Păun, Mihaela Păun, Alfonso Rodríguez-Patón

Journal:

Theoretical Computer Science

Year:

2009

Language:

english

File:

PDF, 522 KB

english, 2009

2

Deep collaborative filtering for prediction of disease genes

Zeng, Xiangxiang, Lin, Yinglai, He, Yuying, Lv, Linyuan, Min, Xiaoping, Rodriguez-Paton, Alfonso

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2019

Language:

english

File:

PDF, 1.20 MB

english, 2019

3

Nanoinformatics and DNA-Based Computing: Catalyzing Nanomedicine

Maojo, Victor, Martin-Sanchez, Fernando, Kulikowski, Casimir, Rodriguez-Paton, Alfonso, Fritts, Martin

Journal:

Pediatric Research

Year:

2010

Language:

english

File:

PDF, 856 KB

english, 2010

4

Probability-based collaborative filtering model for predicting gene–disease associations

Zeng, Xiangxiang, Ding, Ningxiang, Rodríguez-Patón, Alfonso, Zou, Quan

Journal:

BMC Medical Genomics

Year:

2017

Language:

english

File:

PDF, 865 KB

english, 2017

5

Computational methods for identifying the critical nodes in biological networks

Liu, Xiangrong, Hong, Zengyan, Liu, Juan, Lin, Yuan, Rodríguez-Patón, Alfonso, Zou, Quan, Zeng, Xiangxiang

Journal:

Briefings in Bioinformatics

Year:

2019

Language:

english

File:

PDF, 7.53 MB

english, 2019

6

Membrane computing and complexity theory: A characterization of PSPACE

Petr Sosík, Alfonso Rodríguez-Patón

Journal:

Journal of Computer and System Sciences

Year:

2007

Language:

english

File:

PDF, 227 KB

english, 2007

7

Algebraic properties of substitution on trajectories

Michael Domaratzki, Petr Sosík, Alfonso Rodríguez-Patón

Journal:

Theoretical Computer Science

Year:

2006

Language:

english

File:

PDF, 240 KB

english, 2006

8

Normal forms for spiking neural P systems

Oscar H. Ibarra, Andrei Păun, Gheorghe Păun, Alfonso Rodríguez-Patón, Petr Sosík, Sara Woodworth

Journal:

Theoretical Computer Science

Year:

2007

Language:

english

File:

PDF, 437 KB

english, 2007

9

Sequential SNP systems based on min/max spike number

Oscar H. Ibarra, Andrei Păun, Alfonso Rodríguez-Patón

Journal:

Theoretical Computer Science

Year:

2009

Language:

english

File:

PDF, 1.14 MB

english, 2009

10

A tissue P system and a DNA microfluidic device for solving the shortest common superstring problem

Lucas Ledesma, Daniel Manrique, Alfonso Rodríguez-Patón

Journal:

Soft Computing - A Fusion of Foundations, Methodologies and Applications

Year:

2005

Language:

english

File:

PDF, 302 KB

english, 2005

11

A tissue P system and a DNA microfluidic device for solving the shortest common superstring problem

Lucas Ledesma, Daniel Manrique, Alfonso Rodríguez-Patón

Journal:

Soft Computing - A Fusion of Foundations, Methodologies and Applications

Year:

2005

File:

PDF, 162 KB

2005

12

Crossover and mutation operators for grammar-guided genetic programming

Jorge Couchet, Daniel Manrique, Juan Ríos, Alfonso Rodríguez-Patón

Journal:

Soft Computing - A Fusion of Foundations, Methodologies and Applications

Year:

2007

Language:

english

File:

PDF, 507 KB

english, 2007

13

On the power of elementary features in spiking neural P systems

Marc García-Arnau, David Pérez, Alfonso Rodríguez-Patón, Petr Sosík

Journal:

Natural Computing

Year:

2008

Language:

english

File:

PDF, 549 KB

english, 2008

14

A review of the nondeterministic waiting time algorithm

John Jack, Andrei Păun, Alfonso Rodríguez-Patón

Journal:

Natural Computing

Year:

2011

Language:

english

File:

PDF, 363 KB

english, 2011

15

A P system and a constructive membrane-inspired DNA algorithm for solving the Maximum Clique Problem

Marc García-Arnau, Daniel Manrique, Alfonso Rodríguez-Patón, Petr Sosík

Journal:

Year:

2007

Language:

english

File:

PDF, 332 KB

english, 2007

16

Evolutionary system for automatically constructing and adapting radial basis function networks

Daniel Manrique, Juan Ríos, Alfonso Rodríguez-Patón

Journal:

Year:

2006

Language:

english

File:

PDF, 466 KB

english, 2006

17

On the scalability of biocomputing algorithms: The case of the maximum clique problem

Daniel Manrique, Alfonso Rodríguez-Patón, Petr Sosík

Journal:

Theoretical Computer Science

Year:

2011

Language:

english

File:

PDF, 368 KB

english, 2011

18

DNA biosensors that reason

Iñaki Sainz de Murieta, Alfonso Rodríguez-Patón

Journal:

Year:

2012

Language:

english

File:

PDF, 1.29 MB

english, 2012

19

Probabilistic reasoning with a Bayesian DNA device based on strand displacement

Sainz de Murieta, Iñaki, Rodríguez-Patón, Alfonso

Journal:

Natural Computing

Year:

2014

Language:

english

File:

PDF, 598 KB

english, 2014

20

DNA strand displacement system running logic programs

Rodríguez-Patón, Alfonso, Sainz de Murieta, Iñaki, Sosík, Petr

Journal:

Year:

2014

Language:

english

File:

PDF, 1013 KB

english, 2014

21

Notes, Short Comments, and Answers to Correspondents.

Rodríguez-Patón, Alfonso, Sainz de Murieta, Iñaki, Sosík, Petr

Journal:

Year:

1871

Language:

english

File:

PDF, 884 KB

english, 1871

22

P systems with proteins on membranes characterize PSPACE

Sosík, Petr, Păun, Andrei, Rodríguez-Patón, Alfonso

Journal:

Theoretical Computer Science

Year:

2013

Language:

english

File:

PDF, 551 KB

english, 2013

23

[IEEE 2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences (ICCABS) - Orlando, FL, USA (2011.02.3-2011.02.5)] 2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences (ICCABS) - Poster: Biochemical signaling: A discrete simulation with memory enhancement

Paun, Andrei, Paun, Mihaela, Rodriguez-Paton, Alfonso, Jack, John

Year:

2011

Language:

english

File:

PDF, 67 KB

english, 2011

24

ON THE POWER OF FAMILIES OF RECOGNIZER SPIKING NEURAL P SYSTEMS

SOSÍK, PETR, RODRÍGUEZ-PATÓN, ALFONSO, CIENCIALA, LUDĚK

Journal:

International Journal of Foundations of Computer Science

Year:

2011

Language:

english

File:

PDF, 235 KB

english, 2011

25

An Autonomous In Vivo Dual Selection Protocol for Boolean Genetic Circuits

Beneš, David, Sosík, Petr, Rodríguez-Patón, Alfonso

Journal:

Artificial Life

Year:

2015

Language:

english

File:

PDF, 677 KB

english, 2015

26

DISCRETE NONDETERMINISTIC MODELING OF THE FAS PATHWAY

JACK, JOHN, RODRÍGUEZ-PATÓN, ALFONSO, IBARRA, OSCAR H., PĂUN, ANDREI

Journal:

International Journal of Foundations of Computer Science

Year:

2008

Language:

english

File:

PDF, 579 KB

english, 2008

27

P SYSTEMS WITH PROTEINS ON MEMBRANES: A SURVEY

PĂUN, ANDREI, PĂUN, MIHAELA, RODRÍGUEZ-PATÓN, ALFONSO, SIDOROFF, MANUELA

Journal:

International Journal of Foundations of Computer Science

Year:

2011

Language:

english

File:

PDF, 231 KB

english, 2011

28

Bacterial computing with engineered populations

Amos, Martyn, Axmann, Ilka Maria, Blüthgen, Nils, de la Cruz, Fernando, Jaramillo, Alfonso, Rodriguez-Paton, Alfonso, Simmel, Friedrich

Journal:

Philosophical Transactions Mathematical Physical & Engineering Sciences

Year:

2015

Language:

english

File:

PDF, 719 KB

english, 2015

29

Directed evolution of biocircuits using conjugative plasmids and CRISPR-Cas9: design and in silico experiments

Beneš, David, Rodríguez-Patón, Alfonso, Sosík, Petr

Journal:

Natural Computing

Year:

2016

Language:

english

File:

PDF, 1.45 MB

english, 2016

30

Sensitivity analysis of Repast computational ecology models with R/Repast

Prestes García, Antonio, Rodríguez-Patón, Alfonso

Journal:

Ecology and Evolution

Year:

2016

Language:

english

File:

PDF, 1.34 MB

english, 2016

31

BioBlocks: Programming Protocols in Biology Made Easier

Gupta, Vishal, Irimia, Jesús, Pau, Iván, Rodríguez-Patón, Alfonso

Journal:

ACS Synthetic Biology

Year:

2017

Language:

english

File:

PDF, 715 KB

english, 2017

32

A new improved and extended version of the multicell bacterial simulator gro

Gutiérrez, Martín Eduardo, Gregorio-Godoy, Paula, Pérez del Pulgar, Guillermo, Muñoz, Luis Enrique, Sáez, Sandra, Rodriguez-Paton, Alfonso

Journal:

ACS Synthetic Biology

Year:

2017

Language:

english

File:

PDF, 2.38 MB

english, 2017

33

P Systems Simulating Bacterial Conjugation: Universality and Properties

Păun, Andrei, Rodríguez-Patón, Alfonso, Aman, Bogdan, Kleijn, Jetty, Koutny, Maciej, Lucanu, Dorel

Journal:

Fundamenta Informaticae

Year:

2017

Language:

english

File:

PDF, 339 KB

english, 2017

34

Spiking Neural P Systems with Colored Spikes

Song, Tao, Rodriguez-Paton, Alfonso, Zheng, Pan, Zeng, Xiangxiang

Journal:

IEEE Transactions on Cognitive and Developmental Systems

Year:

2017

Language:

english

File:

PDF, 229 KB

english, 2017

35

[IEEE 2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Kansas City, MO (2017.11.13-2017.11.16)] 2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Iteratively collective prediction of disease-gene associations through the incomplete network

Meng, Xiangyi, Zou, Quan, Rodriguez-Paton, Alfonso, Zeng, Xiangxiang

Year:

2017

Language:

english

File:

PDF, 1.08 MB

english, 2017

36

Meta-path methods for prioritizing candidate disease miRNAs

Zhang, Xuan, Zou, Quan, Rodriguez-Paton, Alfonso, zeng, xiangxiang

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2017

Language:

english

File:

PDF, 2.04 MB

english, 2017

37

Structural Hole Spanner in HumanNet Identifies Disease Gene and Drug targets

Zeng, Xiangxiang, Lin, Jiawei, Lin, Chen, Liu, Xiangrong, Rodriguez-Paton, Alfonso

Journal:

Year:

2018

Language:

english

File:

PDF, 1.53 MB

english, 2018

38

A Parallel Image Skeletonizing Method Using Spiking Neural P Systems with Weights

Song, Tao, Pang, Shanchen, Hao, Shaohua, Rodríguez-Patón, Alfonso, Zheng, Pan

Journal:

Neural Processing Letters

Year:

2018

Language:

english

File:

PDF, 1.75 MB

english, 2018

39

A Parallel Workflow Pattern Modelling Using Spiking Neural P Systems with Colored Spikes

Song, Tao, Zeng, Xiangxiang, Zheng, Pan, Jiang, Min, Rodriguez-Paton, Alfonso

Journal:

IEEE Transactions on NanoBioscience

Year:

2018

Language:

english

File:

PDF, 1.44 MB

english, 2018

40

Spiking Neural P Systems with Learning Functions

Song, Tao, Pan, Linqiang, Wu, Tingfang, Zheng, Pan, Wong, M. L. Dennis, Rodriguez-Paton, Alfonso

Journal:

IEEE Transactions on NanoBioscience

Year:

2019

File:

PDF, 6 KB

2019

41

Spiking Neural P Systems with Learning Functions

Song, Tao, Pan, Linqiang, Wu, Tingfang, Zheng, Pan, Wong, M. L. Dennis, Rodriguez-Paton, Alfonso

Journal:

IEEE Transactions on NanoBioscience

Year:

2019

Language:

english

File:

PDF, 6 KB

english, 2019

42

A Parallel Bioinspired Framework for Numerical Calculations Using Enzymatic P System With an Enzymatic Environment

Pang, Shanchen, Ding, Tong, Rodriguez-Paton, Alfonso, Song, Tao, Phen, Zhen

Journal:

Year:

2018

Language:

english

File:

PDF, 7.99 MB

english, 2018

43

[IEEE 2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Madrid, Spain (2018.12.3-2018.12.6)] 2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - LncRNA-disease association prediction based on neighborhood information aggregation in neural network

Chen, Hongjie, Wang, Xun, Zhang, Xuan, Zeng, Xiangxiang, Song, Tao, Rodriguez-Paton, Alfonso

Year:

2018

File:

PDF, 240 KB

2018

44

An artificial intelligent diagnostic system on mobile Android terminals for cholelithiasis by lightweight convolutional neural network

Pang, Shanchen, Wang, Shuo, Rodríguez-Patón, Alfonso, Li, Pibao, Wang, Xun, Song, Tao

Journal:

Year:

2019

Language:

english

File:

PDF, 3.59 MB

english, 2019

45

U-Next: A Novel Convolution Neural Network With an Aggregation U-Net Architecture for Gallstone Segmentation in CT Images

Song, Tao, Meng, Fan, Rodriguez-Paton, Alfonso, Li, Pibao, Zheng, Pan, Wang, Xun

Journal:

Year:

2019

File:

PDF, 1.21 MB

2019

46

Double Layers Self-Organized Spiking Neural P Systems With Anti-Spikes for Fingerprint Recognition

Ma, Tongmao, Hao, Shaohua, Wang, Xun, Alfonso Rodriguez-Paton, Alfonso, Wang, Shudong, Song, Tao

Journal:

Year:

2019

File:

PDF, 5.32 MB

2019