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Publications information icon

Phylogeny-Aware Alignment with PRANK and PAGAN

Peer-reviewed
Open access
DOI
10.1007/978-1-0716-1036-7_2
Löytynoja, Ari
Methods in Molecular Biology2021Publications information icon

Evolutionary Sequence Analysis and Visualization with Wasabi

Peer-reviewed
Open access
DOI
10.1007/978-1-0716-1036-7_14
Löytynoja, Ari; Veidenberg, Andres
Methods in Molecular Biology2021Publications information icon

Fast and Simple XML Tree Differencing by Sequence Alignment

Peer-reviewed
Lindholm, Tancred; Kangasharju, Jaakko; Tarkoma, Sasu
-2006Publications information icon

Lagrangian relaxations for multiple network alignment

Peer-reviewed
DOI
10.1007/s10618-017-0505-2
Malmi, Eric; Chawla, Sanjay; Gionis, Aristides
Data Mining and Knowledge Discovery2017Publications information icon

Comprehensive comparison of graph based multiple protein sequence alignment strategies

Peer-reviewed
Open access
DOI
10.1186/1471-2105-13-64
Plyusnin, Ilya; Holm, Liisa
BMC Bioinformatics2012Publications information icon

Sensitive inference of alignment-safe intervals from biodiverse protein sequence clusters using EMERALD

Peer-reviewed
Open access
DOI
10.1186/s13059-023-03008-6
Grigorjew, Andreas; Gynter, Artur; Dias, Fernando H. C; Buchfink, Benjamin; Drost, Hajk Georg; Tomes...
Genome Biology2023Publications information icon

Soft Kernel Target Alignment for Two-stage Multiple Kernel Learning

Peer-reviewed
DOI
10.1007/978-3-319-46307-0
Shen, Huibin; Szedmak, Sandor; Brouard, Celine; Rousu, Juho
Lecture Notes in Artificial Intelligence2016Publications information icon

Bit-parallel sequence-to-graph alignment

Peer-reviewed
Open access
DOI
10.1093/bioinformatics/btz162
Rautiainen, Mikko; Mäkinen, Veli; Marschall, Tobias
Bioinformatics2019Publications information icon

Exploiting Interactions of Multiple Interference for Cooperative Interference Alignment

Peer-reviewed
Open access
DOI
10.1109/TWC.2021.3080584
Li, Zhao; Li, Jun; Liu, Yinghou; Liang, Xiujuan; Shin, Kang G.; Yan, Zheng; Li, Hui
IEEE Transactions on Wireless Communications2021Publications information icon

Distributed hybrid-indexing of compressed pan-genomes for scalable and fast sequence alignment

Peer-reviewed
Open access
DOI
10.1371/journal.pone.0255260
Maarala, Altti Ilari; Arasalo, Ossi; Valenzuela, Daniel; Mäkinen, Veli; Heljanko, Keijo
PLoS ONE2021

Phylogeny-Aware Alignment with PRANK and PAGAN

Peer-reviewed
Open access
DOI
10.1007/978-1-0716-1036-7_2
2021

Evolutionary Sequence Analysis and Visualization with Wasabi

Peer-reviewed
Open access
DOI
10.1007/978-1-0716-1036-7_14
2021

Fast and Simple XML Tree Differencing by Sequence Alignment

Peer-reviewed
2006

Lagrangian relaxations for multiple network alignment

Peer-reviewed
DOI
10.1007/s10618-017-0505-2
2017

Comprehensive comparison of graph based multiple protein sequence alignment strategies

Peer-reviewed
Open access
DOI
10.1186/1471-2105-13-64
2012

Sensitive inference of alignment-safe intervals from biodiverse protein sequence clusters using EMERALD

Peer-reviewed
Open access
DOI
10.1186/s13059-023-03008-6
2023

Soft Kernel Target Alignment for Two-stage Multiple Kernel Learning

Peer-reviewed
DOI
10.1007/978-3-319-46307-0
2016

Bit-parallel sequence-to-graph alignment

Peer-reviewed
Open access
DOI
10.1093/bioinformatics/btz162
2019

Exploiting Interactions of Multiple Interference for Cooperative Interference Alignment

Peer-reviewed
Open access
DOI
10.1109/TWC.2021.3080584
2021

Distributed hybrid-indexing of compressed pan-genomes for scalable and fast sequence alignment

Peer-reviewed
Open access
DOI
10.1371/journal.pone.0255260
2021