Niko Välimäki

发表

Space Efficient String Mining under Frequency Constraints

Johannes Fischer, Veli Mäkinen, Niko Välimäki, 2008, 2008 Eighth IEEE International Conference on Data Mining.

Engineering a compressed suffix tree implementation

Wolfgang Gerlach, Veli Mäkinen, Niko Välimäki, 2007, JEAL.

Efficient Path Kernels for Reaction Function Prediction

Juho Rousu, Veli Mäkinen, Niko Välimäki, 2012, BIOINFORMATICS.

Fast In-Memory XPath Search over Compressed Text and Tree Indexes pdf

Gonzalo Navarro, Sebastian Maneth, Diego Arroyuelo, 2009, ArXiv.

Scalable and Versatile k-mer Indexing for High-Throughput Sequencing Data

Niko Välimäki, Eric Rivals, Eric Rivals, 2013, ISBRA.

Indexing Finite Language Representation of Population Genotypes pdf

Veli Mäkinen, Niko Välimäki, Jouni Sirén, 2010, WABI.

Unified View of Backward Backtracking in Short Read Mapping

Veli Mäkinen, Antti Laaksonen, Niko Välimäki, 2010, Algorithms and Applications.

Run-Length Compressed Indexes Are Superior for Highly Repetitive Sequence Collections

Gonzalo Navarro, Veli Mäkinen, Niko Välimäki, 2008, SPIRE.

Forbidden Patterns

Moshe Lewenstein, Tsvi Kopelowitz, Johannes Fischer, 2012, LATIN.

Random projection based clustering for population genomics

Jukka Corander, Sotiris K. Tasoulis, Lu Cheng, 2014, 2014 IEEE International Conference on Big Data (Big Data).

Compressed suffix tree - a basis for genome-scale sequence analysis

Wolfgang Gerlach, Veli Mäkinen, Niko Välimäki, 2007, Bioinform..

Fast scaffolding with small independent mixed integer programs

Esko Ukkonen, Veli Mäkinen, Niko Välimäki, 2011, Bioinform..

Run-Length Compressed Indexes for Repetitive Sequence Collections

Gonzalo Navarro, Veli Mäkinen, Niko Välimäki, 2008 .

Approximate all-pairs suffix/prefix overlaps

Susana Ladra, Veli Mäkinen, Niko Välimäki, 2012, Inf. Comput..

Approximate All-Pairs Suffix/Prefix Overlaps

Susana Ladra, Veli Mäkinen, Niko Välimäki, 2010, CPM.

Least Random Suffix/Prefix Matches in Output-Sensitive Time

Niko Välimäki, Niko Välimäki, 2012, CPM.

Exploration and retrieval of whole-metagenome sequencing samples

Antti Honkela, Samuel Kaski, Sohan Seth, 2013, Bioinform..

Storage and Retrieval of Highly Repetitive Sequence Collections

Gonzalo Navarro, Veli Mäkinen, Niko Välimäki, 2010, J. Comput. Biol..

On enhancing variation detection through pan-genome indexing

Veli Mäkinen, Niko Välimäki, Esa Pitkänen, 2015, bioRxiv.

Engineering a Compressed Suffix Tree Implementation

Wolfgang Gerlach, Veli Mäkinen, Niko Välimäki, 2007, WEA.

Space-Efficient Algorithms for Document Retrieval

Veli Mäkinen, Niko Välimäki, 2007, CPM.

Multi-pattern Matching with Bidirectional Indexes

Juha Kärkkäinen, Veli Mäkinen, Simon Gog, 2012, COCOON.

Storage and Retrieval of Individual Genomes and other Repetitive Sequence Collections

Veli Mäkinen, Niko Välimäki, Jouni Sirén, 2008 .

Distributed String Mining for High-Throughput Sequencing Data

Simon J. Puglisi, Niko Välimäki, 2012, WABI.

Multi-pattern matching with bidirectional indexes

Juha Kärkkäinen, Veli Mäkinen, Simon Gog, 2012, J. Discrete Algorithms.

Towards pan-genome read alignment to improve variation calling

Veli Mäkinen, Niko Välimäki, Esa Pitkänen, 2018, BMC Genomics.

The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera

Liisa Holm, Esko Ukkonen, Panu Somervuo, 2014, Nature Communications.

Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes

Jukka Corander, Antti Honkela, Niko Välimäki, 2016, Nature Communications.

CTCF/cohesin-binding sites are frequently mutated in cancer

Niko Välimäki, Esa Pitkänen, Kashyap Dave, 2015, Nature Genetics.