Inge Jonassen

发表

RareVariantVis: new tool for visualization of causative variants in rare monogenic disorders using whole genome sequencing data

Tomasz Stokowy, Mateusz Garbulowski, Torunn Fiskerstrand, 2016, Bioinform..

A comparison of splitting methods for the identification of corner-points

Inge Jonassen, Rune Espelid, 1991, Pattern Recognit. Lett..

TMM@: a web application for the analysis of transmembrane helix mobility

Inge Jonassen, Lars Skjærven, Nathalie Reuter, 2007, BMC Bioinformatics.

Analysis of Gene‐Expression Data Using J‐Express

Inge Jonassen, Bjarte Dysvik, 2002 .

FAIRDOM: supporting FAIR data and model management

Xiaoming Hu, Alan R. Williams, Frederik Coppens, 2020 .

Association of nucleotide patterns with gene function classes: application to human 3' untranslated sequences

William R. Taylor, Inge Jonassen, Darrell Conklin, 2002, Bioinform..

Pairwise Local Alignment and Database Search

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2012 .

A graph based algorithm for generating EST consensus sequences

Inge Jonassen, Ketil Malde, Eivind Coward, 2005, Bioinform..

InterPro : An integrated documentation resource for protein families , domains and functional sites The InterPro Consortium :

Alex Bateman, Rolf Apweiler, Beate Marx, 2005 .

SeeCiTe: a method to assess CNV calls from SNP arrays using trio data

Inge Jonassen, Ksenia Lavrichenko, Øyvind Helgeland, 2020, bioRxiv.

Discovering Patterns and Subfamilies in Biosequences

Esko Ukkonen, Inge Jonassen, Jaak Vilo, 1996, ISMB.

Pattern Discovery in Biosequences

Esko Ukkonen, Inge Jonassen, Jaak Vilo, 1998, ICGI.

Norwegian e-Infrastructure for Life Sciences (NeLS)

Finn Drabløs, Wei Zhang, Inge Jonassen, 2018 .

Appendix A: Basics in Mathematics, Probability and Algorithms

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2012 .

RASflow: an RNA-Seq analysis workflow with Snakemake

Xiaokang Zhang, Inge Jonassen, I. Jonassen, 2019, BMC Bioinformatics.

Characteristics of 454 pyrosequencing data—enabling realistic simulation with flowsim

Inge Jonassen, Ketil Malde, Animesh Sharma, 2010, Bioinform..

A Comparative Analysis of Feature Selection Methods for Biomarker Discovery in Study of Toxicant-treated Atlantic Cod (Gadus morhua) Liver

Xiaokang Zhang, Inge Jonassen, I. Jonassen, 2017, NAIS.

Structure Motif Discovery and Mining the PDB

William R. Taylor, Inge Jonassen, Darrell Conklin, 2002, German Conference on Bioinformatics.

Efficient discovery of conserved patterns using a pattern graph

Inge Jonassen, I. Jonassen, 1997, Comput. Appl. Biosci..

ReCodLiver0.9: Overcoming Challenges in Genome-Scale Metabolic Reconstruction of a Non-model Species

Daniel C. Zielinski, Inge Jonassen, Anders Goksøyr, 2020, bioRxiv.

Characterization of protein families, sequence patterns, and functional annotations in large data sets

Bengt Persson, Inge Jonassen, I. Jonassen, 2008 .

Guest Editorial: WABI Special Section Part 1

Inge Jonassen, Junhyong Kim, I. Jonassen, 2004, TCBB.

EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats

Steve Pettifer, Dan M. Bolser, Rodrigo Lopez, 2013, Bioinform..

BioXSD | BioJSON | BioYAML – towards unified formats for sequences, alignments, features, and annotations

Christophe Blanchet, Inge Jonassen, László Kaján, 2016 .

Systematic exploration of error sources in pyrosequencing flowgram data

Inge Jonassen, Ketil Malde, Susanne Balzer, 2011, Bioinform..

Exploring the limits of fold discrimination by structural alignment: A large scale benchmark using decoys of known fold

William R. Taylor, Inge Jonassen, Michael I. Sadowski, 2011, Comput. Biol. Chem..

Pairwise Global Alignment of Sequences

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2012 .

FAIR Bioinformatics computation and data management: FAIRDOM and the Norwegian Digital Life initiative

Carole Goble, Stian Soiland-Reyes, Wolfgang Müller, 2018 .

The BREW workshop series: a stimulating experience in PhD education

Martin Vingron, Robert Giegerich, Esko Ukkonen, 2008, Briefings Bioinform..

Filtering duplicate reads from 454 pyrosequencing data

Inge Jonassen, Ketil Malde, Markus A. Grohme, 2013, Bioinform..

Integrative Models for the Prediction and Understanding of Protein Structure Patterns

Inge Jonassen, I. Jonassen, 2005, Data Analysis and Visualization in Genomics and Proteomics.

Predicting gene regulatory elements from their expression data in the complete yeast genome

Esko Ukkonen, Inge Jonassen, Jaak Vilo, 1998, German Conference on Bioinformatics.

Guest Editorial: WABI Special Section Part 1

Inge Jonassen, Junhyong Kim, 2004, TCBB.

Methods for Finding Motifs in Sets of Related Biosequences

Inge Jonassen, I. Jonassen, 1996 .

Protein structure comparison and struc-ture patterns-an algorithmic approach

Inge Jonassen, Ingvar Eidhammer, 2001 .

J-Express: exploring gene expression data using Java

Inge Jonassen, B. Dysvik, I. Jonassen, 2001, Bioinform..

Dynamic domain threading

William R Taylor, Franca Fraternali, Inge Jonassen, 2006, Proteins.

The EMBRACE web service collection

Terri K. Attwood, Jon C. Ison, Vincent Breton, 2010, Nucleic Acids Res..

A fast top-down method for constructing reliable radiation hybrid frameworks

Inge Jonassen, Ingvar Eidhammer, Carsten Helgesen, 2002, Bioinform..

Approaches to the Automatic Discovery of Patterns in Biosequences

David R. Gilbert, Inge Jonassen, Alvis Brazma, 1998, J. Comput. Biol..

Structure Prediction: Threading

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2012 .

Guest Editorial: WABI Special Section Part II

Inge Jonassen, Junhyong Kim, I. Jonassen, 2005, TCBB.

XHM: A system for detection of potential cross hybridizations in DNA microarrays

Inge Jonassen, Astrid Lægreid, Kristian Flikka, 2004, BMC Bioinformatics.

RBR: library-less repeat detection for ESTs

Inge Jonassen, Ketil Malde, Eivind Coward, 2006, Bioinform..

Protein model refinement using structural fragment tessellation

William R. Taylor, Inge Jonassen, Daniel Klose, 2006, Comput. Biol. Chem..

Fast Sequence Clustering Using A Suffix Array Algorithm

Inge Jonassen, Ketil Malde, Eivind Coward, 2003, Bioinform..

BioXSD: the common data-exchange format for everyday bioinformatics web services

Steve Pettifer, Armin Töpfer, Jon C. Ison, 2010, Bioinform..

Multiple Global Alignment and Phylogenetic Trees

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2012 .

Relation Patterns and their Automatic Discovery in Biosequences

Esko Ukkonen, Inge Jonassen, Alvis Brazma, 1997 .

Reconstructing ribosomal genes from large scale total RNA meta-transcriptomic data

Inge Jonassen, Anders Lanzén, Yaxin Xue, 2020, Bioinform..

RASflow: an RNA-Seq analysis workflow with Snakemake

Inge Jonassen, Xiaokang Zhang, 2020, BMC Bioinformatics.

Superposition and Dynamic Programming

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2012 .

Structure Comparison and Structure Patterns

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2000, J. Comput. Biol..

An Ensemble Feature Selection Framework Integrating Stability

Xiaokang Zhang, Inge Jonassen, I. Jonassen, 2018, 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

Distributed and interactive visual analysis of omics data.

Frode S Berven, Harald Barsnes, Kjell Petersen, 2015, Journal of proteomics.

Deblender: a semi−/unsupervised multi-operational computational method for complete deconvolution of expression data from heterogeneous samples

Inge Jonassen, Konstantina Dimitrakopoulou, Elisabeth Wik, 2018, BMC Bioinformatics.

Algorithms in Bioinformatics

Inge Jonassen, Junhyong Kim, I. Jonassen, 2004, Lecture Notes in Computer Science.

Prediction of protein structure from ideal forms

William R Taylor, Inge Jonassen, Tom Sheldon, 2008, Proteins.

A Constraint Based Structure Description Language for Biosequences

David R. Gilbert, Inge Jonassen, Ingvar Eidhammer, 2001, Constraints.

The InterPro database, an integrated documentation resource for protein families, domains and functional sites

Alex Bateman, Rolf Apweiler, Beate Marx, 2001, Nucleic Acids Res..

Analysis of Gene‐Expression Data Using J‐Express

Kjell Petersen, Inge Jonassen, Bjarte Dysvik, 2008, Current protocols in bioinformatics.

Characteristics of 454 pyrosequencing data - enabling realistic simulation with flowsim

Inge Jonassen, Ketil Malde, Animesh Sharma, 2011, Bioinform..

Protein bioinformatics - an algorithmic approach to sequence and structure analysis

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2004 .

Multiple Structure Comparison

William R. Taylor, Inge Jonassen, Ingvar Eidhammer, 2012 .

Mining for Putative Regulatory Elements in the Yeast Genome Using Gene Expression Data

Esko Ukkonen, Alan J. Robinson, Inge Jonassen, 2000, ISMB.

Tumor classification and marker gene prediction by feature selection and fuzzy c-means clustering using microarray data

Eivind Hovig, Inge Jonassen, Junbai Wang, 2003, BMC Bioinformatics.

Machine Learning Approaches for Biomarker Discovery Using Gene Expression Data

Inge Jonassen, Anders Goksøyr, Xiaokang Zhang, 2021, Bioinformatics.

SeeCiTe: a method to assess CNV calls from SNP arrays using trio data

Inge Jonassen, Stefan Johansson, Øyvind Helgeland, 2021, Bioinform..

The genome sequence of Atlantic cod reveals a unique immune system

Inge Jonassen, Tor Gjøen, Stig W. Omholt, 2011, Nature.

Reports in Informatics Eecient Discovery of Conserved Patterns Using a Pattern Graph

Inge Jonassen, 1996 .

Using Deep Learning to Extrapolate Protein Expression Measurements

Edgars Celms, Juan Antonio Vizcaíno, Lelde Lace, 2020, Proteomics.

Evaluation of signal peptide prediction algorithms for identification of mycobacterial signal peptides using sequence data from proteomic methods

Inge Jonassen, Harald G. Wiker, I. Jonassen, 2009, Microbiology.

A structural pattern‐based method for protein fold recognition

William R Taylor, Inge Jonassen, I. Jonassen, 2004, Proteins.

Norwegian e-Infrastructure for Life Sciences (NeLS)

Finn Drabløs, Eivind Hovig, Wei Zhang, 2018, F1000Research.

Characterization of Early Stages of Human B Cell Development by Gene Expression Profiling1

Inge Jonassen, Andreas Rosenwald, L. Staudt, 2007, The Journal of Immunology.

The bio.tools registry of software tools and data resources for the life sciences

Hedi Peterson, Tomáš Raček, Radka Svobodová Vařeková, 2019, Genome Biology.

High‐throughput metabarcoding of eukaryotic diversity for environmental monitoring of offshore oil‐drilling activities

Inge Jonassen, Eric M. Thompson, Anders Lanzén, 2016, Molecular ecology.

CREST – Classification Resources for Environmental Sequence Tags

Daniel H. Huson, Tim Urich, Inge Jonassen, 2012, PloS one.

StructWeb: Biosequence structure searching on the Web using clp(FD)

David Gilbert, Inge Jonassen, Ingvar Eidhammer, 1997 .

Exploring the composition and diversity of microbial communities at the Jan Mayen hydrothermal vent field using RNA and DNA.

Tim Urich, Inge Jonassen, Anders Lanzén, 2011, FEMS microbiology ecology.

Genome-Wide Profiling of Histone H3 Lysine 4 and Lysine 27 Trimethylation Reveals an Epigenetic Signature in Prostate Carcinogenesis

Yi Qu, Inge Jonassen, Varda Rotter, 2009, PloS one.

Probing the "dark matter" of protein fold space.

William R Taylor, Inge Jonassen, Siv Midtun Hollup, 2009, Structure.

Scoring Function for Pattern Discovery Programs Taking Into Account Sequence Diversity

Desmond G. Higgins, Inge Jonassen, D. Higgins, 1996 .

The Atlantic salmon genome provides insights into rediploidization

Steven J. M. Jones, James A. Yorke, Torgeir R. Hvidsten, 2016, Nature.

Gene expression profiles in prostate cancer: association with patient subgroups and tumour differentiation.

Inge Jonassen, Laila Stordrange, Bruz Marzolf, 2005, International journal of oncology.

ERG upregulation and related ETS transcription factors in prostate cancer.

Inge Jonassen, Laila Stordrange, Biaoyang Lin, 2007, International journal of oncology.

The ELIXIR channel in F1000Research

Barend Mons, Inge Jonassen, Niklas Blomberg, 2015, F1000Research.

High accuracy mass spectrometry analysis as a tool to verify and improve gene annotation using Mycobacterium tuberculosis as an example

Inge Jonassen, Gisle Sælensminde, I. Jonassen, 2008, BMC Genomics.

Linkage-disequilibrium-based binning affects the interpretation of GWASs.

Inge Jonassen, Manuel Mattheisen, Morten Mattingsdal, 2012, American journal of human genetics.

Increased Expression of SIM2-s Protein Is a Novel Marker of Aggressive Prostate Cancer

Inge Jonassen, Laila Stordrange, Leroy Hood, 2007, Clinical Cancer Research.

Identification of highly connected and differentially expressed gene subnetworks in metastasizing endometrial cancer

Anna Berg, Inge Jonassen, Kjell Petersen, 2018, PloS one.

RNA-Seq analysis of transcriptome responses in Atlantic cod (Gadus morhua) precision-cut liver slices exposed to benzo[a]pyrene and 17α-ethynylestradiol.

Nello Blaser, Inge Jonassen, Anders Goksøyr, 2018, Aquatic toxicology.

Masking repeats while clustering ESTs

Inge Jonassen, Ketil Malde, Eivind Coward, 2005, Nucleic acids research.