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1

Motif trie: An efficient text index for pattern discovery with don't cares

Grossi, Roberto, Menconi, Giulia, Pisanti, Nadia, Trani, Roberto, Vind, Søren

Journal:

Theoretical Computer Science

Year:

2017

Language:

english

File:

PDF, 452 KB

english, 2017

2

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || A General Algorithmic Scheme for Modular Decompositions of Hypergraphs and Applications

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 342 KB

english, 2019

3

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Computing the Rooted Triplet Distance Between Phylogenetic Networks

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 398 KB

english, 2019

4

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Computing the Rooted Triplet Distance Between Phylogenetic Networks

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

File:

PDF, 398 KB

2019

5

Room allocation: a polynomial subcase of the quadratic assignment problem

Valentina Ciriani, Nadia Pisanti, Anna Bernasconi

Journal:

Discrete Applied Mathematics

Year:

2004

Language:

english

File:

PDF, 203 KB

english, 2004

6

Lossless filter for multiple repetitions with Hamming distance

Pierre Peterlongo, Nadia Pisanti, Frédéric Boyer, Alair Pereira do Lago, Marie-France Sagot

Journal:

Journal of Discrete Algorithms

Year:

2008

Language:

english

File:

PDF, 296 KB

english, 2008

7

Masking patterns in sequences: A new class of motif discovery with don’t cares

Giovanni Battaglia, Davide Cangelosi, Roberto Grossi, Nadia Pisanti

Journal:

Theoretical Computer Science

Year:

2009

Language:

english

File:

PDF, 1.01 MB

english, 2009

8

Suffix tree characterization of maximal motifs in biological sequences

Maria Federico, Nadia Pisanti

Journal:

Theoretical Computer Science

Year:

2009

Language:

english

File:

PDF, 695 KB

english, 2009

9

[Lecture Notes in Computer Science] Information Technology in Bio- and Medical Informatics Volume 6865 || A Approach to Clinical Proteomics Data Quality Control and Import

Böhm, Christian, Khuri, Sami, Lhotská, Lenka, Pisanti, Nadia

Year:

2011

Language:

english

File:

PDF, 290 KB

english, 2011

10

Further Thoughts on the Syntenic Distance between Genomes

Nadia Pisanti and Marie-France Sago

Journal:

Year:

2002

Language:

english

File:

PDF, 142 KB

english, 2002

11

[Lecture Notes in Computer Science] Information Technology in Bio- and Medical Informatics Volume 6865 || Combining Markov Models and Association Analysis for Disease Prediction

Böhm, Christian, Khuri, Sami, Lhotská, Lenka, Pisanti, Nadia

Year:

2011

Language:

english

File:

PDF, 223 KB

english, 2011

12

Mobilomics inSaccharomyces cerevisiaestrains

Giulia Menconi, Giovanni Battaglia, Roberto Grossi, Nadia Pisanti…

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 935 KB

english, 2013

13

Rime: Repeat identification

Federico, Maria, Peterlongo, Pierre, Pisanti, Nadia, Sagot, Marie-France

Journal:

Discrete Applied Mathematics

Year:

2014

Language:

english

File:

PDF, 467 KB

english, 2014

14

[Lecture Notes in Computer Science] Information Technology in Bio- and Medical Informatics Volume 6865 ||

Böhm, Christian, Khuri, Sami, Lhotská, Lenka, Pisanti, Nadia

Year:

2011

Language:

english

File:

PDF, 4.14 MB

english, 2011

15

MADMX: A Strategy for Maximal Dense Motif Extraction

Grossi, Roberto, Pietracaprina, Andrea, Pisanti, Nadia, Pucci, Geppino, Upfal, Eli, Vandin, Fabio

Journal:

Journal of Computational Biology

Year:

2011

Language:

english

File:

PDF, 681 KB

english, 2011

16

A Relational Extension of the Notion of Motifs: Application to the Common 3D Protein Substructures Searching Problem

Pisanti, Nadia, Soldano, Henry, Carpentier, Mathilde, Pothier, Joel

Journal:

Journal of Computational Biology

Year:

2009

Language:

english

File:

PDF, 2.32 MB

english, 2009

17

A FIRST APPROACH TO FINDING COMMON MOTIFS WITH GAPS

ILIOPOULOS, COSTAS S., MCHUGH, JAMES, PETERLONGO, PIERRE, PISANTI, NADIA, RYTTER, WOJCIECH, SAGOT, MARIE-FRANCE

Journal:

International Journal of Foundations of Computer Science

Year:

2005

Language:

english

File:

PDF, 482 KB

english, 2005

18

[IEEE 2009 20th International Workshop on Database and Expert Systems Application - Linz, Austria (2009.08.31-2009.09.4)] 2009 20th International Workshop on Database and Expert Systems Application - Mining Biological Sequences with Masks

Battaglia, Giovanni, Grossi, Roberto, Marangoni, Roberto, Pisanti, Nadia

Year:

2009

Language:

english

File:

PDF, 420 KB

english, 2009

19

W hats H ap : Weighted Haplotype Assembly for Future-Generation Sequencing Reads

Patterson, Murray, Marschall, Tobias, Pisanti, Nadia, van Iersel, Leo, Stougie, Leen, Klau, Gunnar W., Schönhuth, Alexander

Journal:

Journal of Computational Biology

Year:

2015

Language:

english

File:

PDF, 280 KB

english, 2015

20

HapCol: accurate and memory-efficient haplotype assembly from long reads

Pirola, Yuri, Zaccaria, Simone, Dondi, Riccardo, Klau, Gunnar W., Pisanti, Nadia, Bonizzoni, Paola

Journal:

Year:

2015

Language:

english

File:

PDF, 253 KB

english, 2015

21

Robust optical fiber patch-cords for in vivo optogenetic experiments in rats

Trujillo-Pisanty, Ivan, Sanio, Christian, Chaudhri, Nadia, Shizgal, Peter

Journal:

Year:

2015

Language:

english

File:

PDF, 1.65 MB

english, 2015

22

Circular sequence comparison: algorithms and applications

Grossi, Roberto, Iliopoulos, Costas S., Mercas, Robert, Pisanti, Nadia, Pissis, Solon P., Retha, Ahmad, Vayani, Fatima

Journal:

Algorithms for Molecular Biology

Year:

2016

Language:

english

File:

PDF, 1.94 MB

english, 2016

23

On the Minimum Error Correction Problem for Haplotype Assembly in Diploid and Polyploid Genomes

Bonizzoni, Paola, Dondi, Riccardo, Klau, Gunnar W., Pirola, Yuri, Pisanti, Nadia, Zaccaria, Simone

Journal:

Journal of Computational Biology

Year:

2016

Language:

english

File:

PDF, 579 KB

english, 2016

24

Preface

Mercaş, Robert, Pisanti, Nadia

Journal:

Journal of Discrete Algorithms

Year:

2017

Language:

english

File:

PDF, 109 KB

english, 2017

25

Reference Module in Life Sciences || Algorithms Foundations

Year:

2018

Language:

english

File:

PDF, 86 KB

english, 2018

26

SNPs detection by eBWT positional clustering

Prezza, Nicola, Pisanti, Nadia, Sciortino, Marinella, Rosone, Giovanna

Journal:

Algorithms for Molecular Biology

Year:

2019

Language:

english

File:

PDF, 1.43 MB

english, 2019

27

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Stable Noncrossing Matchings

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 319 KB

english, 2019

28

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) ||

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 12.22 MB

english, 2019

29

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Complexity of Fall Coloring for Restricted Graph Classes

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 352 KB

english, 2019

30

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Incremental Algorithm for Minimum Cut and Edge Connectivity in Hypergraph

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 450 KB

english, 2019

31

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Complexity and Algorithms for Semipaired Domination in Graphs

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 321 KB

english, 2019

32

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Fixed-Parameter Tractability of $$(n-k)$$ List Coloring

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 278 KB

english, 2019

33

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Shortest Unique Palindromic Substring Queries on Run-Length Encoded Strings

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 385 KB

english, 2019

34

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Reaching 3-Connectivity via Edge-Edge Additions

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 543 KB

english, 2019

35

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || On Erdős–Szekeres-Type Problems for k-convex Point Sets

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

Language:

english

File:

PDF, 409 KB

english, 2019

36

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || On Erdős–Szekeres-Type Problems for k-convex Point Sets

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

File:

PDF, 409 KB

2019

37

[Lecture Notes in Computer Science] Combinatorial Algorithms Volume 11638 (30th International Workshop, IWOCA 2019, Pisa, Italy, July 23–25, 2019, Proceedings) || Reaching 3-Connectivity via Edge-Edge Additions

Colbourn, Charles J., Grossi, Roberto, Pisanti, Nadia

Year:

2019

File:

PDF, 543 KB

2019

38

[IEEE 2019 IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE) - Athens, Greece (2019.10.28-2019.10.30)] 2019 IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE) - Technology and Species Independent Simulation of Sequencing Data and Genomic Variants

Geraci, Filippo, Massidda, Riccardo, Pisanti, Nadia

Year:

2019

File:

PDF, 6.30 MB

2019

39

Longest property-preserved common factor: A new string-processing framework

Ayad, Lorraine A.K., Bernardini, Giulia, Grossi, Roberto, Iliopoulos, Costas S., Pisanti, Nadia, Pissis, Solon P., Rosone, Giovanna

Journal:

Theoretical Computer Science

Year:

2020

File:

PDF, 566 KB

2020

40

Dissociable mesolimbic dopamine circuits control responding triggered by alcohol-predictive discrete cues and contexts

Valyear, Milan D., Glovaci, Iulia, Zaari, Audrey, Lahlou, Soraya, Trujillo-Pisanty, Ivan, Andrew Chapman, C., Chaudhri, Nadia

Journal:

Nature Communications

Year:

2020

File:

PDF, 3.51 MB

2020

41

Variable-order reference-free variant discovery with the Burrows-Wheeler Transform

Prezza, Nicola, Pisanti, Nadia, Sciortino, Marinella, Rosone, Giovanna

Journal:

BMC Bioinformatics

Year:

2020

File:

PDF, 1.57 MB

2020

42

Editorial: Special Issue on International Workshop on Combinatorial Algorithms (IWOCA 2019)

Pisanti, Nadia, Colbourn, Charles, Grossi, Roberto

Journal:

Theory of Computing Systems

Year:

2020

File:

PDF, 110 KB

2020

43

Comparing Degenerate Strings

Alzamel, Mai, Ayad, Lorraine A.K., Bernardini, Giulia, Grossi, Roberto, Iliopoulos, Costas S., Pisanti, Nadia, Pissis, Solon P., Rosone, Giovanna, ter Beek, Maurice, Koutny, Maciej, Rozenberg, Grzegor

Journal:

Fundamenta Informaticae

Year:

2020

File:

PDF, 299 KB

2020

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