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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

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

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

File:

PDF, 398 KB

2019

4

[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

5

[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

6

Mobilomics inSaccharomyces cerevisiaestrains

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

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 935 KB

english, 2013

7

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

8

[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

9

Preface

Mercaş, Robert, Pisanti, Nadia

Journal:

Journal of Discrete Algorithms

Year:

2017

Language:

english

File:

PDF, 109 KB

english, 2017

10

[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

11

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

12

[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

13

[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

14

[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

15

[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

16

[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

17

[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

18

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

19

[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

20

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

21

[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

22

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

23

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

24

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

25

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

26

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

27

Reference Module in Life Sciences || Algorithms Foundations

Year:

2018

Language:

english

File:

PDF, 86 KB

english, 2018

28

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

29

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

30

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

31

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

32

[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

33

[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

34

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

35

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

36

[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

37

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

38

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

39

[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

40

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

41

[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

42

[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

43

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

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