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ORCIDJournal of Integrative Bioinformatics, Volume 21
Volume 21, Number 1, 2024
- Paul F. Lang
, Anand Jain, Christopher Rackauckas:
SBMLToolkit.jl: a Julia package for importing SBML into the SciML ecosystem. - Lucian P. Smith, Frank T. Bergmann, Alan Garny, Tomás Helikar, Jonathan R. Karr, David P. Nickerson, Herbert M. Sauro, Dagmar Waltemath, Matthias König:
The simulation experiment description markup language (SED-ML): language specification for level 1 version 5. - Sahar Aghakhani, Anna Niarakis, Sylvain Soliman:
MetaLo: metabolic analysis of Logical models extracted from molecular interaction maps. - Martin Golebiewski, Gary D. Bader, Padraig Gleeson, Thomas E. Gorochowski, Sarah M. Keating, Matthias König, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath, Falk Schreiber:
Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024. - Frontmatter. i-ii
- Bartholomew E. Jardine, Lucian P. Smith, Herbert M. Sauro:
MakeSBML: a tool for converting between Antimony and SBML. - Avery Mecham, Ashlie Stephenson, Badi I. Quinteros, Grace S. Brown, Stephen R. Piccolo:
TidyGEO: preparing analysis-ready datasets from Gene Expression Omnibus.
Volume 21, Number 2, 2024
- Daniel Martins, Maryam Abbasi, Conceição Egas, Joel P. Arrais:
Detecting outliers in case-control cohorts for improving deep learning networks on Schizophrenia prediction. - Hugo López-Fernández, Miguel Pinto, Cristina P. Vieira, Pedro Duque, Miguel Reboiro-Jato, Jorge Vieira:
Auto-phylo v2 and auto-phylo-pipeliner: building advanced, flexible, and reusable pipelines for phylogenetic inferences, estimation of variability levels and identification of positively selected amino acid sites. - Paloma Tejera-Nevado, Emilio Serrano, Ana González-Herrero, Rodrigo Bermejo-Moreno, Alejandro Rodríguez González:
Unlocking the power of AI models: exploring protein folding prediction through comparative analysis. - Frontmatter. i-ii
- Daniel Glez-Peña, Hugo López-Fernández, Pedro Duque, Cristina P. Vieira, Jorge Vieira:
Inferences on the evolution of the ascorbic acid synthesis pathway in insects using Phylogenetic Tree Collapser (PTC), a tool for the automated collapsing of phylogenetic trees using taxonomic information. - Vicente Enrique Machaca Arceda, Valeria Goyzueta, Maria Cruz, Erika Sejje, Luz Marina Pilco, Julio López, Yván Túpac:
Transformers meets neoantigen detection: a systematic literature review.
Volume 21, Number 3, 2024
- Niklas Gröne, Benjamin Grüneisen, Karsten Klein, Bernard de Bono, Tobias Czauderna, Falk Schreiber:
Layout of anatomical structures and blood vessels based on the foundational model of anatomy. - Can Türker, Christian Panse, Björn Sommer, Marcel Friedrichs, Ralf Hofestädt:
International symposium on integrative bioinformatics 2024 - editorial. - Michal J. Okoniewski, Anna Wiegand, Diana Coman Schmid, Christian Bolliger, Cristian Bovino, Mattia Belluco, Thomas Wüst, Olivier Byrde, Sergio Maffioletti, Bernd Rinn:
Leonhard Med, a trusted research environment for processing sensitive research data. - Stefan Paul Feyer, Bruno Pinaud, Karsten Klein, Etienne Lein, Falk Schreiber:
Exploring animal behaviour multilayer networks in immersive environments - a conceptual framework. - Frontmatter. i-ii
- Xiangyu Li, Xiumin Shi, Yuxuan Li, Lu Wang:
MCMVDRP: a multi-channel multi-view deep learning framework for cancer drug response prediction. - Jorge García Brizuela, Carsten Scharfenberg, Carmen Scheuner, Florian Hoedt, Patrick König, Angela Kranz, Antonia Leidel, Daniel Martini, Gabriel Schneider, Julian Schneider, Lea Sophie Singson, Harald von Waldow, Nils Wehrmeyer, Björn Usadel, Stephan Lesch, Xenia Specka, Matthias Lange, Daniel Arend:
A roadmap for a middleware as a federation service for integrative data retrieval of agricultural data. - Valentin Wesp, Lukas Scholz, Janine M. Ziermann-Canabarro, Stefan Schuster, Heiko Stark:
Constructing networks for comparison of collagen types.
Volume 21, Number 4, 2024
- Mohammad Javad Bazyari, Seyed Hamid Aghaee-Bakhtiari:
MiRNA target enrichment analysis of co-expression network modules reveals important miRNAs and their roles in breast cancer progression. - Gábor Balogh, Natasha Jorge, Célia Dupain, Maud Kamal, Nicolas Servant, Christophe Le Tourneau, Peter F. Stadler, Stephan H. Bernhart:
TREMSUCS-TCGA - an integrated workflow for the identification of biomarkers for treatment success. - Sania Riaz, Fatima Haider, Rizwan-ur-Rehman, Aqsa Zafar:
Exploring the therapeutic potential of Asparagus africanus in polycystic ovarian syndrome: a computational analysis. - Ihsanul Arief, Gagus Ketut Sunnardianto, Syahrul Khairi, Wahyu Dita Saputri:
The potential of Mitragyna speciosa leaves as a natural source of antioxidants for disease prevention. - Hamed Ghazikhani, Gregory Butler:
Ion channel classification through machine learning and protein language model embeddings.
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