Machine learning approaches for predicting protein-ligand binding sites from sequence data by Orhun Vural, Leon Jololian

“…Frontiers in Bioinformatics…”
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AMEND 2.0: module identification and multi-omic data integration with multiplex-heterogeneous graphs by Samuel S. Boyd, Chad Slawson, Jeffrey A. Thompson

“…BMC Bioinformatics…”
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ClearFinder: a Python GUI for annotating cells in cleared mouse brain by Stefan Pastore, Philipp Hillenbrand, Nils Molnar, Irina Kovlyagina, Monika Chanu Chongtham, Stanislav Sys, Beat Lutz, Margarita Tevosian, Susanne Gerber

“…BMC Bioinformatics…”
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Marigold: a machine learning-based web app for zebrafish pose tracking by Gregory Teicher, R. Madison Riffe, Wayne Barnaby, Gabrielle Martin, Benjamin E. Clayton, Josef G. Trapani, Gerald B. Downes

“…BMC Bioinformatics…”
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NERVE 2.0: boosting the new enhanced reverse vaccinology environment via artificial intelligence and a user-friendly web interface by Andrea Conte, Nicola Gulmini, Francesco Costa, Matteo Cartura, Felix Bröhl, Francesco Patanè, Francesco Filippini

“…BMC Bioinformatics…”
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DTI-MHAPR: optimized drug-target interaction prediction via PCA-enhanced features and heterogeneous graph attention networks by Guang Yang, Yinbo Liu, Sijian Wen, Wenxi Chen, Xiaolei Zhu, Yongmei Wang

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Choosing the most suitable NGS technology to combine with a standardized viral enrichment protocol for obtaining complete avian orthoreovirus genomes from metagenomic samples by Sonsiray Álvarez-Narváez, Sonsiray Álvarez-Narváez, Telvin L. Harrell, Islam Nour, Sujit K. Mohanty, Steven J. Conrad

“…Frontiers in Bioinformatics…”
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Predicting drug combination side effects based on a metapath-based heterogeneous graph neural network by Leixia Tian, Qi Wang, Zhiheng Zhou, Xiya Liu, Ming Zhang, Guiying Yan

“…BMC Bioinformatics…”
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TopoQual polishes circular consensus sequencing data and accurately predicts quality scores by Minindu Weerakoon, Sangjin Lee, Emily Mitchell, Haynes Heaton

“…BMC Bioinformatics…”
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A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance by Alexander Mazein, Marcio Luis Acencio, Irina Balaur, Adrien Rougny, Danielle Welter, Anna Niarakis, Anna Niarakis, Diana Ramirez Ardila, Ugur Dogrusoz, Piotr Gawron, Venkata Satagopam, Venkata Satagopam, Wei Gu, Wei Gu, Andreas Kremer, Reinhard Schneider, Reinhard Schneider, Marek Ostaszewski, Marek Ostaszewski

“…Frontiers in Bioinformatics…”
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SequenceCraft: machine learning-based resource for exploratory analysis of RNA-cleaving deoxyribozymes by M. Eremeyeva, Y. Din, N. Shirokii, N. Serov

“…BMC Bioinformatics…”
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Solu: a cloud platform for real-time genomic pathogen surveillance by Timo Saratto, Kerkko Visuri, Jonatan Lehtinen, Irene Ortega-Sanz, Jacob L. Steenwyk, Samuel Sihvonen

“…BMC Bioinformatics…”
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Innovative CDR grafting and computational methods for PD-1 specific nanobody design by Jagadeeswara Reddy Devasani, Girijasankar Guntuku, Nalini Panatula, Murali Krishna Kumar Muthyala, Mary Sulakshana Palla, Teruna J. Siahaan

“…Frontiers in Bioinformatics…”
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Two-Step Transfer Learning Improves Deep Learning–Based Drug Response Prediction in Small Datasets: A Case Study of Glioblastoma by Jie Ju, Ioannis Ntafoulis, Michelle Klein, Marcel JT Reinders, Martine Lamfers, Andrew P Stubbs, Yunlei Li

“…Bioinformatics and Biology Insights…”
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Resistify: A Novel NLR Classifier That Reveals Helitron-Associated NLR Expansion in Solanaceae by Moray Smith, John T Jones, Ingo Hein

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Frontmatter

“…Journal of Integrative Bioinformatics…”
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Cliotide U1, a Novel Antimicrobial Peptide Isolated From Leaves by Mahnaz Nasre Taheri, Sima Sadat Seyedjavadi, Mehdi Goudarzi, Gholamhossein Ebrahimipour, Ali Hashemi

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Ion channel classification through machine learning and protein language model embeddings by Ghazikhani Hamed, Butler Gregory

“…Journal of Integrative Bioinformatics…”
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Analysis and Characterization of the Immunogenicity of Rhoptry Protein 18 by Masoud Foroutan, Amir Karimipour-Saryazdi, Ali Dalir Ghaffari, Hamidreza Majidiani, Arezo Arzani Birgani, Elaheh Karimzadeh-Soureshjani, Shahrzad Soltani, Hany M Elsheikha

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TREMSUCS-TCGA – an integrated workflow for the identification of biomarkers for treatment success by Balogh Gabor, Jorge Natasha, Dupain Célia, Kamal Maud, Servant Nicolas, Le Tourneau Christophe, Stadler Peter F., Bernhart Stephan H.

“…Journal of Integrative Bioinformatics…”
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