S. Lonardi

发表

Finding surprising patterns in a time series database in linear time and space

Eamonn J. Keogh, Stefano Lonardi, Bill Yuan-chi Chiu, 2002, KDD.

A Bit Level Representation for Time Series Data Mining with Shape Based Similarity

Gareth J. Janacek, Eamonn J. Keogh, Stefano Lonardi, 2006, Data Mining and Knowledge Discovery.

Global detectors of unusual words: design, implementation, and applications to pattern discovery in biosequences

Stefano Lonardi, Alberto Apostolico, S. Lonardi, 2001 .

Assignment of orthologous genes via genome rearrangement

Xin Chen, S. Lonardi, Jie Zheng, 2005, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Off-line compression by greedy textual substitution

A. Apostolico, S. Lonardi, S. Lonardi, 2000, Proceedings of the IEEE.

Visualizing and Discovering Non-Trivial Patterns in Large Time Series Databases

Eamonn J. Keogh, Stefano Lonardi, Jessica Lin, 2005, Inf. Vis..

CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers

S. Lonardi, R. Ounit, S. Wanamaker, 2015, BMC Genomics.

Supplemental Material to : Nucleosome landscape and control of transcription in the human malaria parasite

S. Lonardi, K. L. Le Roch, G. Hardiman, 2009 .

Nucleosome occupancy at transcription start sites in the human malaria parasite: a hard-wired evolution of virulence?

S. Lonardi, K. L. Le Roch, N. Ponts, 2011, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

A comparative evaluation of genome assembly reconciliation tools

S. Lonardi, Hind Alhakami, H. Mirebrahim, 2017, Genome Biology.

Length-based encoding of binary data in DNA.

M. Ozkan, S. Lonardi, N. G. Portney, 2008, Langmuir : the ACS journal of surfaces and colloids.

Mining motifs in massive time series databases

Eamonn J. Keogh, Stefano Lonardi, Jessica Lin, 2002, 2002 IEEE International Conference on Data Mining, 2002. Proceedings..

Mechanisms of small RNA generation from cis-NATs in response to environmental and developmental cues.

Stefano Lonardi, Hailing Jin, Viswanathan Chinnusamy, 2013, Molecular plant.

Bisulfite-Conversion-Based Methods for DNA Methylation Sequencing Data Analysis

S. Lonardi, E. Harris, 2016 .

Genome-wide mapping of DNA methylation in the human malaria parasite Plasmodium falciparum.

S. Lonardi, E. Bunnik, K. L. Le Roch, 2013, Cell host & microbe.

A Decomposition Approach for Discovering Network Building Blocks

S. Lonardi, Q. Yang, Qiaofeng Yang, 2007 .

Chromatin-driven de novo discovery of DNA binding motifs in the human malaria parasite

S. Lonardi, K. L. Le Roch, N. Ponts, 2011, BMC Genomics.

Immune profile and mitotic index of metastatic melanoma lesions enhance clinical staging in predicting patient survival

V. Vacic, S. Lonardi, J. Zavadil, 2009, Proceedings of the National Academy of Sciences.

A chromosome conformation capture ordered sequence of the barley genome

John K. McCooke, P. Langridge, P. Kersey, 2017, Nature.

Near-infrared reflectance spectrometry in the determination of the physical state of primary materials in pharmaceutical production

S. Lonardi, P. Corti, E. Dreassi, 1995 .

Coupling expressed sequences and bacterial artificial chromosome resources to access the barley genome

Stefano Lonardi, Timothy J. Close, Steve Wanamaker, 2018 .

Efficient and Accurate Construction of Genetic Linkage Maps from the Minimum Spanning Tree of a Graph

Stefano Lonardi, Timothy J. Close, Prasanna R. Bhat, 2008, PLoS genetics.

Comprehensive Benchmarking and Ensemble Approaches for Metagenomic Classifiers

Stefano Lonardi, Gail L. Rosen, Rita R. Colwell, 2017 .

Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation

S. Lonardi, F. Ay, Abbas Roayaei Ardakany, 2020, Genome biology.

Validating genome-wide CRISPR-Cas9 function improves screening in the oleaginous yeast Yarrowia lipolytica.

James M. Wagner, S. Lonardi, H. Alper, 2019, Metabolic engineering.

Validating genome-wide CRISPR-Cas9 function in the non-conventional yeast Yarrowia lipolytica

James M. Wagner, S. Lonardi, H. Alper, 2018, bioRxiv.

Identification of candidate genes and molecular markers for heat-induced brown discoloration of seed coats in cowpea [Vigna unguiculata (L.) Walp]

S. Lonardi, S. Wanamaker, T. Close, 2014, BMC Genomics.

The genome of cowpea (Vigna unguiculata [L.] Walp.)

S. Shu, S. Lonardi, S. Cannon, 2019, bioRxiv.

The genome of cowpea (Vigna unguiculata [L.] Walp.).

S. Shu, S. Lonardi, S. Cannon, 2019, The Plant journal : for cell and molecular biology.

Comprehensive benchmarking and ensemble approaches for metagenomic classifiers

Stefano Lonardi, Gail L. Rosen, Rita R. Colwell, 2017, Genome Biology.

Correction to: Comprehensive benchmarking and ensemble approaches for metagenomic classifiers

Alexa B. R. McIntyre, C. Mason, S. Lonardi, 2019, Genome biology.

University of Groningen Construction of a map-based reference genome sequence for barley , Hordeum vulgare

El, John K. McCooke, P. Langridge, 2017 .

Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.

John K. McCooke, P. Langridge, P. Kersey, 2017, Scientific Data.

Data Descriptor: Construction of a map-based reference genome sequence for barley, Hordeum vulgare L

El, John K. McCooke, P. Langridge, 2017 .

Analysis of nucleosome positioning landscapes enables gene discovery in the human malaria parasite Plasmodium falciparum

S. Lonardi, E. Bunnik, K. L. Le Roch, 2015, BMC Genomics.

When Less is More: “Slicing” Sequencing Data Improves Read Decoding Accuracy and De Novo Assembly Quality

Gianfranco Ciardo, Stefano Lonardi, Hamid Mirebrahim, 2015, bioRxiv.

UNIVERSITY OF CALIFORNIA RIVERSIDE Bio-Image Analysis for Understanding Plant Development and Mosquito Behaviors A Dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy

S. Lonardi, Katya Mkrtchyan, E. Keogh, 2016 .

7th International Workshop on Data Mining in Bioinformatics (BIOKDD 2007)

Mohammed J. Zaki, Stefano Lonardi, Jake Y. Chen, 2007 .

8th International Workshop on Data Mining in Bioinformatics (BIOKDD 2008)

Mohammed J. Zaki, Stefano Lonardi, Jake Y. Chen, 2008 .

On the Prediction of non-CG DNA Methylation

S. Lonardi, M. Omirou, D. Fasoula, 2022, bioRxiv.

malaria parasite Nucleosome landscape and control of transcription in the human Material Supplemental

S. Lonardi, K. Roch, G. Hardiman, 2010 .

IEEE/ACM TRANSACTIONS ON

Luca Benini, Tao Jiang, Stefano Lonardi, 2004 .

UNIVERSITY OF CALIFORNIA RIVERSIDE Optical Map-Based Genome Scaffolding A Dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy

S. Lonardi, Rajesh K. Gupta, Anton Polishko, 2019 .

Decoding The Nuclear Genome of The Human Pathogen Babesia duncani Shed Light on its Virulence, Drug Susceptibility and Evolution among Apicomplexa

Choukri Ben Mamoun, S. Lonardi, K. L. Le Roch, 2022, bioRxiv.

Genome resources for climate-resilient cowpea, an essential crop for food security

Mitchell R. Lucas, C. Lawley, S. Lonardi, 2016, bioRxiv.

UNIVERSITY OF CALIFORNIA RIVERSIDE A Systematic Approach for Understanding and Modeling the Performance of Network Security Devices A Dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy

M. Faloutsos, H. Madhyastha, S. Lonardi, 2012 .

Karyotype variation, spontaneous genome rearrangements affecting chemical insensitivity, and expression level polymorphisms in the plant pathogen Phytophthora infestans revealed using its first chromosome-scale assembly

S. Lonardi, H. Judelson, Qihua Liang, 2022, PLoS pathogens.

Analysis of nucleosome positioning landscapes enables gene discovery in the human parasite Plasmodium

S. Lonardi, E. Bunnik, K. Roch, 2015 .

A multi‐parent advanced generation inter‐cross (MAGIC) population for genetic analysis and improvement of cowpea (Vigna unguiculata L. Walp.)

Ira A. Herniter, Shizhong Xu, S. Lonardi, 2018, The Plant journal : for cell and molecular biology.

Assignment of orthologous genes via genome rearrangement

Tao Jiang, Xin Chen, Stefano Lonardi, 2005, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

acCRISPR: an activity-correction method for improving the accuracy of CRISPR screens

S. Lonardi, I. Wheeldon, Cory M Schwartz, 2022, bioRxiv.

Seed Coat Pattern QTL and Development in Cowpea (Vigna unguiculata [L.] Walp.)

Mitchell R. Lucas, Ira A. Herniter, S. Lonardi, 2019, bioRxiv.

MDL-based time series clustering

Eamonn J. Keogh, S. Lonardi, T. Rakthanmanon, 2012, Knowledge and Information Systems.

On the average sequence complexity

Svante Janson, Wojciech Szpankowski, Stefano Lonardi, 2004, Data Compression Conference, 2004. Proceedings. DCC 2004.

On the average sequence complexity

Svante Janson, Wojciech Szpankowski, Stefano Lonardi, 2004, Data Compression Conference, 2004. Proceedings. DCC 2004.

Intelligent Icons: Integrating Lite-Weight Data Mining and Visualization into GUI Operating Systems

Li Wei, Eamonn J. Keogh, Stefano Lonardi, 2006, Sixth International Conference on Data Mining (ICDM'06).

Integrating Lite-Weight but Ubiquitous Data Mining into GUI Operating Systems

Li Wei, Eamonn J. Keogh, Stefano Lonardi, 2005, J. Univers. Comput. Sci..

Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation

Stefano Lonardi, Ferhat Ay, Abbas Roayaei Ardakany, 2020, Genome Biology.

Genome resources for climate-resilient cowpea, an essential crop for food security

Stefano Lonardi, Serdar Bozdag, Ousmane Boukar, 2016, bioRxiv.

Generating and Reversing Chronic Wounds in Diabetic Mice by Manipulating Wound Redox Parameters

Julia G. Lyubovitsky, S. Lonardi, E. Nothnagel, 2014, Journal of diabetes research.

CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers

S. Lonardi, R. Ounit, S. Wanamaker, 2015, BMC Genomics.

Graphlet Kernels for Prediction of Functional Residues in Protein Structures

Vladimir Vacic, Lilia M. Iakoucheva, Stefano Lonardi, 2010, J. Comput. Biol..

Development and implementation of high-throughput SNP genotyping in barley

Stefano Lonardi, Serdar Bozdag, Kavitha Madishetty, 2009, BMC Genomics.

OligoSpawn: a software tool for the design of overgo probes from large unigene datasets

Tao Jiang, Stefano Lonardi, Timothy J. Close, 2006, BMC Bioinformatics.

Efficient Selection of Unique and Popular Oligos for Large EST Databases

Tao Jiang, Stefano Lonardi, Timothy J. Close, 2003, CPM.

Comprehensive benchmarking and ensemble approaches for metagenomic classifiers

Alexa B. R. McIntyre, C. Mason, S. Lonardi, 2017, bioRxiv.

Evolution versus "intelligent design": comparing the topology of protein-protein interaction networks to the Internet.

Q Yang, G Siganos, M Faloutsos, 2006, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

Deciphering histone code of transcriptional regulation in malaria parasites by large-scale data mining

Stefano Lonardi, Jie Zheng, Haifen Chen, 2014, Comput. Biol. Chem..

Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica

S. Lonardi, I. Wheeldon, Cory M Schwartz, 2021, bioRxiv.

A probabilistic method for small RNA flowgram matching.

Vladimir Vacic, Stefano Lonardi, Hailing Jin, 2007, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.

Reference-agnostic representation and visualization of pan-genomes

Stefano Lonardi, Qihua Liang, S. Lonardi, 2021, BMC Bioinform..

BRAT: bisulfite-treated reads analysis tool

Stefano Lonardi, Karine G. Le Roch, Nadia Ponts, 2010, Bioinform..

Sequence analysis BRAT : bisulfite-treated reads analysis tool

S. Lonardi, K. Roch, N. Ponts, 2009 .

Selfish: discovery of differential chromatin interactions via a self-similarity measure

Stefano Lonardi, Ferhat Ay, Abbas Roayaei Ardakany, 2019, bioRxiv.

A physical, genetic and functional sequence assembly of the barley genome.

Mihaela M. Martis, P. Langridge, D. Swarbreck, 2022 .

Novel Gene Discovery in the Human Malaria Parasite using Nucleosome Positioning Data.

S Lonardi, S. Lonardi, K. L. Le Roch, 2010, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

A compartmentalized approach to the assembly of physical maps

Stefano Lonardi, Serdar Bozdag, Timothy J. Close, 2007, 2007 IEEE 7th International Symposium on BioInformatics and BioEngineering.

Jukuri, open repository of the Natural Resources Institute Finland (Luke)

S. Shu, S. Lonardi, S. Cannon, 2019 .

An Improved Consensus Linkage Map of Barley Based on Flow‐Sorted Chromosomes and Single Nucleotide Polymorphism Markers

Stefano Lonardi, Timothy J. Close, Matthew J. Moscou, 2011 .

BRAT-nova: fast and accurate mapping of bisulfite-treated reads

Stefano Lonardi, Rachid Ounit, Elena Yavorska Harris, 2016, Bioinform..

BRAT-BW: efficient and accurate mapping of bisulfite-treated reads

Stefano Lonardi, Karine G. Le Roch, Nadia Ponts, 2012, Bioinform..

Combinatorial Pooling Enables Selective Sequencing of the Barley Gene Space

Gianfranco Ciardo, Marco Beccuti, Stefano Lonardi, 2013, PLoS Comput. Biol..

Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis

Vladimir Vacic, Stefano Lonardi, Thomas Girke, 2008, BMC Molecular Biology.

Novo&Stitch: accurate reconciliation of genome assemblies via optical maps

Stefano Lonardi, Steve Wanamaker, Weihua Pan, 2018, Bioinform..

De novo meta-assembly of ultra-deep sequencing data

Stefano Lonardi, Hamid Mirebrahim, Timothy J. Close, 2015, Bioinform..

De novo assembly of ultra-deep sequencing data

Stefano Lonardi, Hamid Mirebrahim, Timothy J. Close, 2014, BCB.

Higher Classification Accuracy of Short Metagenomic Reads by Discriminative Spaced k-mers

Stefano Lonardi, Rachid Ounit, S. Lonardi, 2015, WABI.

Towards parameter-free data mining

Eamonn J. Keogh, Stefano Lonardi, Chotirat Ratanamahatana, 2004, KDD.

Accurate detection of chimeric contigs via Bionano optical maps

Stefano Lonardi, Weihua Pan, S. Lonardi, 2018, Bioinform..

DNA-encoded nucleosome occupancy is associated with transcription levels in the human malaria parasite Plasmodium falciparum

Stefano Lonardi, Nadia Ponts, Jacques Prudhomme, 2014, BMC Genomics.

Composition Profiler: a tool for discovery and visualization of amino acid composition differences

Vladimir Vacic, Stefano Lonardi, A. Keith Dunker, 2007, BMC Bioinformatics.

A Graph-Theoretical Approach to the Selection of the Minimum Tiling Path from a Physical Map

Stefano Lonardi, Serdar Bozdag, Timothy J. Close, 2013, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Computing the Minimal Tiling Path from a Physical Map by Integer Linear Programming

Stefano Lonardi, Serdar Bozdag, Timothy J. Close, 2008, WABI.

On the accurate construction of consensus genetic maps.

Stefano Lonardi, Yonghui Wu, Timothy J Close, 2008, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

Accurate Construction of Consensus Genetic Maps via Integer Linear Programming

Stefano Lonardi, Yonghui Wu, Timothy J. Close, 2011, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

NOrMAL: accurate nucleosome positioning using a modified Gaussian mixture model

Stefano Lonardi, Karine G. Le Roch, Nadia Ponts, 2012, Bioinform..

A view of the pan-genome of domesticated cowpea (Vigna unguiculata [L.] Walp.)

S. Shu, S. Lonardi, J. Carlson, 2022, bioRxiv.

Sequencing of 15 622 gene‐bearing BACs clarifies the gene‐dense regions of the barley genome

Marco Beccuti, Stefano Lonardi, Serdar Bozdag, 2015, The Plant journal : for cell and molecular biology.

Sequencing of 15,622 gene-bearing BACs reveals new features of the barley genome

M Beccuti, S Lonardi, S. Lonardi, 2015, bioRxiv.

Prediction of histone post-translational modifications using deep learning

Stefano Lonardi, Dipankar Ranjan Baisya, S. Lonardi, 2020, Bioinform..

Sequence analysis Prediction of histone post-translational modifications using deep learning

S. Lonardi, D. Baisya, 2021 .

Time Series Epenthesis: Clustering Time Series Streams Requires Ignoring Some Data

Eamonn J. Keogh, Stefano Lonardi, Scott Evans, 2011, 2011 IEEE 11th International Conference on Data Mining.

DeeplyEssential: a deep neural network for predicting essential genes in microbes

Stefano Lonardi, Md Abid Hasan, S. Lonardi, 2019, BMC Bioinformatics.

A view of the pan-genome of domesticated cowpea (Vigna unguiculata [L.] Walp.)

S. Shu, S. Lonardi, J. Carlson, 2022, bioRxiv.

Efficient Detection of Unusual Words

Stefano Lonardi, Alberto Apostolico, Mary Ellen Bock, 2000, J. Comput. Biol..

String Matching in Hardware Using the FM-Index

Stefano Lonardi, Walid A. Najjar, Edward Fernandez, 2011, 2011 IEEE 19th Annual International Symposium on Field-Programmable Custom Computing Machines.

When less is more: 'slicing' sequencing data improves read decoding accuracy and de novo assembly quality

Gianfranco Ciardo, Stefano Lonardi, Hamid Mirebrahim, 2015, Bioinform..

Scrible: Ultra-Accurate Error-Correction of Pooled Sequenced Reads

Gianfranco Ciardo, Marco Beccuti, Stefano Lonardi, 2015, WABI.

Accurate Decoding of Pooled Sequenced Data Using Compressed Sensing

Atri Rudra, Gianfranco Ciardo, Stefano Lonardi, 2013, WABI.

Barcoding-free BAC Pooling Enables Combinatorial Selective Sequencing of the Barley Gene Space pdf

Gianfranco Ciardo, Marco Beccuti, Stefano Lonardi, 2011, ArXiv.

Experiencing SAX: a novel symbolic representation of time series

Li Wei, Jessica Lin, Eamonn J. Keogh, 2007, Data Mining and Knowledge Discovery.

Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation

S. Lonardi, F. Ay, Halil Gezer, 2020, Genome Biology.

A Drug Repurposing Approach Reveals Targetable Epigenetic Pathways in Plasmodium vivax Hypnozoites

S. Lonardi, M. Galinski, K. L. Le Roch, 2023, bioRxiv.

A symbolic representation of time series, with implications for streaming algorithms

Eamonn J. Keogh, Stefano Lonardi, Jessica Lin, 2003, DMKD '03.

Faculty Opinions recommendation of Extensive sequencing of seven human genomes to characterize benchmark reference materials.

Stefano Lonardi, S. Lonardi, 2017 .

A multi-parent advanced generation inter-cross population for genetic analysis of multiple traits in cowpea (Vigna unguiculata L. Walp.)

Ira A. Herniter, S. Lonardi, S. Wanamaker, 2017, bioRxiv.

Higher classification sensitivity of short metagenomic reads with CLARK-S

Stefano Lonardi, Rachid Ounit, S. Lonardi, 2016, bioRxiv.

Application of near-infrared reflectance spectrometry to the analytical control of pharmaceuticals: ranitidine hydrochloride tablet production.

S. Lonardi, P. Corti, E. Dreassi, 1996, The Analyst.

Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica

S. Lonardi, I. Wheeldon, Cory M Schwartz, 2021, Nature Communications.

A Novel Bit Level Time Series Representation with Implication of Similarity Search and Clustering

Eamonn J. Keogh, Stefano Lonardi, Anthony J. Bagnall, 2005, PAKDD.

Time-series Bitmaps: a Practical Visualization Tool for Working with Large Time Series Databases

Nitin Kumar, Eamonn J. Keogh, Stefano Lonardi, 2005, SDM.

Visually mining and monitoring massive time series

Jessica Lin, Eamonn J. Keogh, Stefano Lonardi, 2004, KDD.

Probabilistic discovery of time series motifs

Eamonn J. Keogh, Stefano Lonardi, Bill Yuan-chi Chiu, 2003, KDD '03.

Using the minimum description length to discover the intrinsic cardinality and dimensionality of time series

Eamonn J. Keogh, S. Lonardi, T. Rakthanmanon, 2015, Data Mining and Knowledge Discovery.

Babesia duncani multi-omics identifies virulence factors and drug targets

S. Lonardi, K. L. Le Roch, Wenxiu Ma, 2023, Nature Microbiology.

A parallel algorithm for clustering protein-protein interaction networks

Stefano Lonardi, Qiaofeng Yang, S. Lonardi, 2005, 2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05).

Efficient and Accurate Construction of Genetic Linkage Maps from Noisy and Missing Genotyping Data

Stefano Lonardi, Yonghui Wu, Timothy J. Close, 2007, WABI.

ThIEF: Finding Genome-wide Trajectories of Epigenetics Marks

Stefano Lonardi, Weihua Pan, Md. Abid Hasan, 2017, WABI.

PuFFIN - a parameter-free method to build nucleosome maps from paired-end reads

S. Lonardi, E. Bunnik, K. Roch, 2014, BMC Bioinformatics.

FHAST: FPGA-Based Acceleration of Bowtie in Hardware

Stefano Lonardi, Walid A. Najjar, Jason R. Villarreal, 2015, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

ISMB 2014 Proceedings Papers Committee

William Stafford Noble, Noah M. Daniels, D. Heckerman, 2014, Bioinformatics.

OMGS: Optical Map-based Genome Scaffolding

Tao Jiang, Stefano Lonardi, Weihua Pan, 2019, bioRxiv.

Data Mining in Bioinformatics: Selected Papers from BIOKDD

Stefano Lonardi, Jake Chen, S. Lonardi, 2010, TCBB.

Error Resilient LZ'77 Data Compression: Algorithms, Analysis, and Experiments

Wojciech Szpankowski, Stefano Lonardi, Mark Daniel Ward, 2007, IEEE Transactions on Information Theory.

A Practical Tool for Visualizing and Data Mining Medical Time Series

Li Wei, Eamonn J. Keogh, Stefano Lonardi, 2005, 18th IEEE Symposium on Computer-Based Medical Systems (CBMS'05).

RAmbler: de novo genome assembly of complex repetitive regions

Glennis A. Logsdon, S. Lonardi, Sakshar Chakravarty, 2023, bioRxiv.

Efficient and Accurate Detection of Topologically Associating Domains from Contact Maps

Stefano Lonardi, Abbas Roayaei Ardakany, S. Lonardi, 2017, WABI.

VizTree: a Tool for Visually Mining and Monitoring Massive Time Series Databases

Eamonn J. Keogh, Stefano Lonardi, Jessica Lin, 2004, VLDB.

Two-Level Microprocessor-Accelerator Partitioning

Frank Vahid, Stefano Lonardi, Yonghui Wu, 2007, 2007 Design, Automation & Test in Europe Conference & Exhibition.

Comprehensive Assessment of Eleven de novo HiFi Assemblers on Complex Eukaryotic Genomes and Metagenomes

L. Li, S. Lonardi, Weihua Pan, 2023, bioRxiv.

Seed Coat Pattern QTL and Development in Cowpea (Vigna unguiculata [L.] Walp.)

Mitchell R. Lucas, Ira A. Herniter, S. Lonardi, 2019, bioRxiv.

Efficient and accurate construction of genetic linkage maps : Supplementary Text S 1

S. Lonardi, T. Close, Yonghui Wu, 2008 .

Efficient Genome-Wide TagSNP Selection Across Populations via the Linkage Disequilibrium Criterion

Tao Jiang, Stefano Lonardi, Yonghui Wu, 2010, J. Comput. Biol..

Efficient algorithms for genome-wide tagSNP selection across populations via the linkage disequilibrium criterion.

Tao Jiang, Stefano Lonardi, Yonghui Wu, 2007, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

Verbumculus and the discovery of unusual words

Stefano Lonardi, Alberto Apostolico, Fang-Cheng Gong, 2008, Journal of Computer Science and Technology.

Compression-based data mining of sequential data

Li Wei, John C. Handley, Eamonn J. Keogh, 2007, Data Mining and Knowledge Discovery.

Shape recovery and volume calculation from biplane angiography in the stereotactic radiosurgical treatment of arteriovenous malformations.

S Lonardi, R Foroni, M Gerosa, 1996, International journal of radiation oncology, biology, physics.

Validating genome-wide CRISPR-Cas9 function in the non-conventional yeast Yarrowia lipolytica

James M. Wagner, S. Lonardi, H. Alper, 2018, bioRxiv.

A chromosome conformation capture ordered sequence of the barley genome

John K. McCooke, P. Langridge, P. Kersey, 2017, Nature.

Discovering the Intrinsic Cardinality and Dimensionality of Time Series Using MDL

Eamonn J. Keogh, Stefano Lonardi, Yuan Hao, 2011, 2011 IEEE 11th International Conference on Data Mining.

Title: A Drug Repurposing Approach Reveals Targetable Epigenetic Pathways in Plasmodium vivax Hypnozoites

S. Lonardi, M. Galinski, K. L. Le Roch, 2023 .

Online Information Compression in Sensor Networks

Dimitrios Gunopulos, Stefano Lonardi, Vana Kalogeraki, 2006, 2006 IEEE International Conference on Communications.

Efficient information compression in sensor networks

Dimitrios Gunopulos, Stefano Lonardi, Vana Kalogeraki, 2006, Int. J. Sens. Networks.

Storage and transmission of microarray images.

Stefano Lonardi, S. Lonardi, Yu Luo, 2005, Drug discovery today.

Gridding and compression of microarray images

Yu Luo, Stefano Lonardi, S. Lonardi, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

Mechanisms of small RNA generation from cis-NATs in response to environmental and developmental cues.

Jina, S. Lonardi, Hailing Jin, 2013, Molecular plant.

Linear global detectors of redundant and rare substrings

Stefano Lonardi, Alberto Apostolico, Mary Ellen Bock, 1999, Proceedings DCC'99 Data Compression Conference (Cat. No. PR00096).

APPLICATION OF NIRS TO THE CONTROL OF PHARMACEUTICALS IDENTIFICATION AND ASSAY OF SEVERAL PRIMARY MATERIALS

S. Lonardi, P. Corti, E. Dreassi, 1992 .

Exploration of Short Reads Genome Mapping in Hardware

Stefano Lonardi, Walid A. Najjar, Edward Fernandez, 2010, 2010 International Conference on Field Programmable Logic and Applications.

This Provisional PDF corresponds to the article as it appeared upon acceptance. Fully formatted PDF and full text (HTML) versions will be made available soon. Development and implementation of high-throughput SNP genotyping in barley

S. Lonardi, R. Varshney, S. Wanamaker, 2009 .

Using the minimum description length to discover the intrinsic cardinality and dimensionality of time series

Eamonn J. Keogh, Stefano Lonardi, Yuan Hao, 2014, Data Mining and Knowledge Discovery.

Deconvoluting BAC-Gene Relationships Using a Physical Map

Stefano Lonardi, Yonghui Wu, Timothy J. Close, 2008, J. Bioinform. Comput. Biol..

Deconvoluting the BAC-gene relationships using a physical map.

Stefano Lonardi, Lan Liu, Yonghui Wu, 2007, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

A parallel edge-betweenness clustering tool for Protein-Protein Interaction networks

Stefano Lonardi, Qiaofeng Yang, S. Lonardi, 2007, Int. J. Data Min. Bioinform..

A view of the pan‐genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.)

S. Shu, S. Lonardi, J. Carlson, 2023, The plant genome.

OMGS: Optical Map-based Genome Scaffolding

S. Lonardi, Tao Jiang, Weihua Pan, 2019, bioRxiv.

Monotony of surprise and large-scale quest for unusual words

Stefano Lonardi, Alberto Apostolico, Mary Ellen Bock, 2002, RECOMB '02.

Monotony of surprise and large-scale quest for unusual words.

Stefano Lonardi, Alberto Apostolico, Mary Ellen Bock, 2003 .

A Linear-Time Algorithm for Predicting Functional Annotations from PPI Networks

Stefano Lonardi, Yonghui Wu, S. Lonardi, 2008, J. Bioinform. Comput. Biol..

A Linear-time Algorithm for Predicting Functional Annotations from Protein Protein Interaction Networks ∗

Stefano Lonardi, Yonghui Wu, S. Lonardi, 2007 .

On the prediction of non-CG DNA methylation using machine learning

S. Lonardi, M. Omirou, D. Fasoula, 2022, NAR genomics and bioinformatics.