Frontiers Bioinform.

Publications

volume 4, 2024

Michaël Vacher, Rodrigo Cánovas, Simon M. Laws, James D. Doecke
A comprehensive multi-omics analysis reveals unique signatures to predict Alzheimer's disease. Frontiers Bioinform. 4 (2024)
Kai O. Kreissner, Benjamin Faller, Ivan Talucci, Hans M. Maric
MARTin - an open-source platform for microarray analysis. Frontiers Bioinform. 4 (2024)
Shamini Hemandhar Kumar, Ines Tapken, Daniela Kuhn, Peter Claus, Klaus Jung
bootGSEA: a bootstrap and rank aggregation pipeline for multi-study and multi-omics enrichment analyses. Frontiers Bioinform. 4 (2024)
Kevan Baker, Nathaniel Hughes, Sutanu Bhattacharya
An interactive visualization tool for educational outreach in protein contact map overlap analysis. Frontiers Bioinform. 4 (2024)
Neta Zadok, Gil Ast, Roded Sharan
A network-based method for associating genes with autism spectrum disorder. Frontiers Bioinform. 4 (2024)
Xihaier Luo, Seyednami Niyakan, Patrick R. Johnstone, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Shantenu Jha, Byung-Jun Yoon
Pathway-based analyses of gene expression profiles at low doses of ionizing radiation. Frontiers Bioinform. 4 (2024)
Alban Obel Slabowska, Charles Pyke, Henning Hvid, Leon Eyrich Jessen, Simon J. Baumgart, Vivek Das
A systematic evaluation of state-of-the-art deconvolution methods in spatial transcriptomics: insights from cardiovascular disease and chronic kidney disease. Frontiers Bioinform. 4 (2024)
Wouter-Michiel A. M. Vierdag, Sinem K. Saka
A perspective on FAIR quality control in multiplexed imaging data processing. Frontiers Bioinform. 4 (2024)
Joshua Zhang, Mary E. Sehl, Roger Shih, Elizabeth Crabb Breen, Fengxue Li, Ake T. Lu, Jay H. Bream, Priya Duggal, Jeremy Martinson, Steven M. Wolinsky, Otoniel Martinez-Maza, Christina M. Ramirez, Steve Horvath, Beth D. Jamieson
Effects of highly active antiretroviral therapy initiation on epigenomic DNA methylation in persons living with HIV. Frontiers Bioinform. 4 (2024)
Alexander G. Lucaci, William E. Brew, Jason Lamanna, Avery Selberg, Vincenzo Carnevale, Anna R. Moore, Sergei L. Kosakovsky Pond
The evolution of mammalian Rem2: unraveling the impact of purifying selection and coevolution on protein function, and implications for human disorders. Frontiers Bioinform. 4 (2024)
Sarah von Löhneysen, Mario Mörl, Peter F. Stadler
Limits of experimental evidence in RNA secondary structure prediction. Frontiers Bioinform. 4 (2024)
Michael Olbrich, Lennart Bartels, Inken Wohlers
Sequencing technologies and hardware-accelerated parallel computing transform computational genomics research. Frontiers Bioinform. 4 (2024)
Marin Truchi, Caroline Lacoux, Cyprien Gille, Julien Fassy, Virginie Magnone, Rafael Lopes Goncalves, Cédric Girard Riboulleau, Iris Manosalva-Pena, Marine Gautier-Isola, Kevin Lebrigand, Pascal Barbry, Salvatore Spicuglia, Georges Vassaux, Roger Rezzonico, Michel Barlaud, Bernard Mari
Detecting subtle transcriptomic perturbations induced by lncRNAs knock-down in single-cell CRISPRi screening using a new sparse supervised autoencoder neural network. Frontiers Bioinform. 4 (2024)
Trudy M. Wassenaar, Terry Harville, Jonathan Chastain, Visanu Wanchai, David Wayne Ussery
DNA structural features and variability of complete MHC locus sequences. Frontiers Bioinform. 4 (2024)
Lieke Michielsen, Marcel J. T. Reinders, Ahmed Mahfouz
Predicting cell population-specific gene expression from genomic sequence. Frontiers Bioinform. 4 (2024)
Ashraf Akintayo Akintola, Abdullahi Tunde Aborode, Muhammed Taofiq Hamza, Augustine Amakiri, Benjamin Moore, Suliat Abdulai, Oluyinka Ajibola Iyiola, Lateef Adegboyega Sulaimon, Effiong Effiong, Adedeji Ogunyemi, Boluwatife Dosunmu, Abdulkadir Yusif Maigoro, Opeyemi Lawal, Kayode Raheem, Ui Wook Hwang
Bioinformatics proficiency among African students. Frontiers Bioinform. 4 (2024)
Mary E. Sehl, Elizabeth Crabb Breen, Roger Shih, Fengxue Li, Joshua Zhang, Peter Langfelder, Steve Horvath, Jay H. Bream, Priya Duggal, Jeremy Martinson, Steven M. Wolinsky, Otoniel Martinez-Maza, Christina M. Ramirez, Beth D. Jamieson
Decreased but persistent epigenetic age acceleration is associated with changes in T-cell subsets after initiation of highly active antiretroviral therapy in persons living with HIV. Frontiers Bioinform. 4 (2024)
Brona Brejová, Travis Gagie, Eva Herencsárová, Tomás Vinar
Maximum-scoring path sets on pangenome graphs of constant treewidth. Frontiers Bioinform. 4 (2024)
Phillip J. Tomezsko, Colby T. Ford, Avery E. Meyer, Adam M. Michaleas, Rafael Jaimes
Human cytokine and coronavirus nucleocapsid protein interactivity using large-scale virtual screens. Frontiers Bioinform. 4 (2024)
Pietro Di Lena, Christine Nardini, Matteo Pellegrini
Editorial: Computational methods for analysis of DNA methylation data, volume II. Frontiers Bioinform. 4 (2024)
Samuel D. Chorlton
Ten common issues with reference sequence databases and how to mitigate them. Frontiers Bioinform. 4 (2024)
Aimer Gutierrez-Diaz, Steve Hoffmann, Juan Carlos Gallego-Gómez, Clara Bermudez-Santana
Systematic computational hunting for small RNAs derived from ncRNAs during dengue virus infection in endothelial HMEC-1 cells. Frontiers Bioinform. 4 (2024)
Ruofan Cao, Yide Zhang, Jessica Houston
Editorial: Phasor analysis for fluorescence lifetime data. Frontiers Bioinform. 4 (2024)
Shubham Choudhury, Nisha Bajiya, Sumeet Patiyal, Gajendra P. S. Raghava
MRSLpred - a hybrid approach for predicting multi-label subcellular localization of mRNA at the genome scale. Frontiers Bioinform. 4 (2024)
Michael S. Rosenberg
MetaWin 3: open-source software for meta-analysis. Frontiers Bioinform. 4 (2024)
Fengyuan Huang, Robert S. Welner, Jake Y. Chen, Zongliang Yue
PAGER-scFGA: unveiling cell functions and molecular mechanisms in cell trajectories through single-cell functional genomics analysis. Frontiers Bioinform. 4 (2024)
A. L. Swan, A. Broadbent, Prakash Singh Gaur, A. Mishra, Kim T. Gurwitz, A. Mithani, Sarah L. Morgan, G. Malhotra, Catherine Brooksbank
Making bioinformatics training FAIR: the EMBL-EBI training portal. Frontiers Bioinform. 4 (2024)
Gennaro Calendo, Dara Kusic, Jozef Madzo, Neda Gharani, Laura Scheinfeldt
ursaPGx: a new R package to annotate pharmacogenetic star alleles using phased whole-genome sequencing data. Frontiers Bioinform. 4 (2024)
Claudia Sala, Pietro Di Lena, Danielle Fernandes Durso, Ìtalo Faria do Valle, Maria Giulia Bacalini, Daniele Dall'Olio, Claudio Franceschi, Gastone C. Castellani, Paolo Garagnani, Christine Nardini
Where are we in the implementation of tissue-specific epigenetic clocks? Frontiers Bioinform. 4 (2024)
Rang Li, Sabrina Wilderotter, Madison Stoddard, Debra Van Egeren, Arijit Chakravarty, Diane Joseph-McCarthy
Computational identification of antibody-binding epitopes from mimotope datasets. Frontiers Bioinform. 4 (2024)
Jannes Peeters, Daniël M. Bot, Gustavo Alberto Rovelo Ruiz, Jan Aerts
Snowflake: visualizing microbiome abundance tables as multivariate bipartite graphs. Frontiers Bioinform. 4 (2024)
Lajoyce Mboning, Liudmilla Rubbi, Michael Thompson, Louis-S. Bouchard, Matteo Pellegrini
BayesAge: A maximum likelihood algorithm to predict epigenetic age. Frontiers Bioinform. 4 (2024)
Isaac Filella-Merce, Vincent Mallet, Eric Durand, Michael Nilges, Guillaume Bouvier, Riccardo Pellarin
AlignScape, displaying sequence similarity using self-organizing maps. Frontiers Bioinform. 4 (2024)
Hayet Belghit, Mariano Spivak, Manuel Dauchez, Marc Baaden, Jessica Prévoteau-Jonquet
From complex data to clear insights: visualizing molecular dynamics trajectories. Frontiers Bioinform. 4 (2024)

volume 3, 2023