SUBJECTS : Data Visualisation | Integrative Bioinformatics | Genomics | Computational Bioimagin
Frontiers in Bioinformatics: 2023, vol: 3, issue:
- 1)- Piotr Gawron, David Hoksza, Janet Piñero, Maria Peña-Chilet, Marina Esteban-Medina, Jose Luis Fernandez-Rueda, Vincenza Colonna, Ewa Smula, Laurent Heirendt, François Ancien, Valentin Groues, Venkata P Satagopam, Reinhard Schneider, Joaquin Dopazo, Laura I Furlong, Marek Ostaszewski. Visualization of automatically combined disease maps and pathway diagrams for rare diseases. Frontiers in bioinformatics. 2023, 3: 1101505
Cited : 1Read More - 2)- Ana Julia Velez Rueda, Luis Alberto Gonano, Agustín García Smith, Gustavo Parisi, María Silvina Fornasari, Leandro Matías Sommese. CardIAP: calcium transients confocal image analysis tool. Frontiers in bioinformatics. 2023, 3: 1137815Cited : 1Read More
- 3)- Mohammed Zidane, Ahmad Makky, Matthias Bruhns, Alexander Rochwarger, Sepideh Babaei, Manfred Claassen, Christian M Schürch. A review on deep learning applications in highly multiplexed tissue imaging data analysis. Frontiers in bioinformatics. 2023, 3: 1159381Cited : 4Read More
- 4)- Zihao Wang, Yun Zhou, Yu Zhang, Yu K Mo, Yijie Wang. XMR: an explainable multimodal neural network for drug response prediction. Frontiers in bioinformatics. 2023, 3: 1164482Cited : 2Read More
- 5)- David Bryant, Daniel H Huson. NeighborNet: improved algorithms and implementation. Frontiers in bioinformatics. 2023, 3: 1178600Cited : 5Read More
- 6)- Saurav Mallik, Soumita Seth, Amalendu Si, Tapas Bhadra, Zhongming Zhao. Optimal ranking and directional signature classification using the integral strategy of multi-objective optimization-based association rule mining of multi-omics data. Frontiers in bioinformatics. 2023, 3: 1182176Cited : 0Read More
- 7)- Aziz Fouché, Andrei Zinovyev. Omics data integration in computational biology viewed through the prism of machine learning paradigms. Frontiers in bioinformatics. 2023, 3: 1191961Cited : 3Read More
- 8)- Adriano Lucieri, Andreas Dengel, Sheraz Ahmed. Translating theory into practice: assessing the privacy implications of concept-based explanations for biomedical AI. Frontiers in bioinformatics. 2023, 3: 1194993Cited : 3Read More
- 9)- Alexander Mazein, Marcio Luis Acencio, Irina Balaur, Adrien Rougny, Danielle Welter, Anna Niarakis, Diana Ramirez Ardila, Ugur Dogrusoz, Piotr Gawron, Venkata Satagopam, Wei Gu, Andreas Kremer, Reinhard Schneider, Marek Ostaszewski. A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance. Frontiers in bioinformatics. 2023, 3: 1197310Cited : 3Read More
- 10)- Soumyadip Roy, Asa Ben-Hur. Protein quality assessment with a loss function designed for high-quality decoys. Frontiers in bioinformatics. 2023, 3: 1198218Cited : 1Read More
- 11)- Nasser Hashemi, Boran Hao, Mikhail Ignatov, Ioannis Ch Paschalidis, Pirooz Vakili, Sandor Vajda, Dima Kozakov. Improved prediction of MHC-peptide binding using protein language models. Frontiers in bioinformatics. 2023, 3: 1207380Cited : 6Read More
- 12)- Linghao Hu, Blanche Ter Hofstede, Dhavan Sharma, Feng Zhao, Alex J Walsh. Comparison of phasor analysis and biexponential decay curve fitting of autofluorescence lifetime imaging data for machine learning prediction of cellular phenotypes. Frontiers in bioinformatics. 2023, 3: 1210157Cited : 3Read More
- 13)- Wanxin Li, Jules Mirone, Ashok Prasad, Nina Miolane, Carine Legrand, Khanh Dao Duc. Orthogonal outlier detection and dimension estimation for improved MDS embedding of biological datasets. Frontiers in bioinformatics. 2023, 3: 1211819Cited : 0Read More
- 14)- Famke Bäuerle, Gwendolyn O Döbel, Laura Camus, Simon Heilbronner, Andreas Dräger. Genome-scale metabolic models consistently predict characteristics of . Frontiers in bioinformatics. 2023, 3: 1214074Cited : 1Read More
- 15)- Helena Klara Jambor. Insights on poster preparation practices in life sciences. Frontiers in bioinformatics. 2023, 3: 1216139Cited : 1Read More
- 16)- Fabiano C Fernandes, Marlon H Cardoso, Abel Gil-Ley, Lívia V Luchi, Maria G L da Silva, Maria L R Macedo, Cesar de la Fuente-Nunez, Octavio L Franco. Geometric deep learning as a potential tool for antimicrobial peptide prediction. Frontiers in bioinformatics. 2023, 3: 1216362Cited : 15Read More
- 17)- Constance J Jeffery. Current successes and remaining challenges in protein function prediction. Frontiers in bioinformatics. 2023, 3: 1222182Cited : 7Read More
- 18)- Dmitrii K Chebanov, Vsevolod A Misyurin, Irina Zh Shubina. An algorithm for drug discovery based on deep learning with an example of developing a drug for the treatment of lung cancer. Frontiers in bioinformatics. 2023, 3: 1225149Cited : 1Read More
- 19)- Jose Barba-Montoya, Sudip Sharma, Sudhir Kumar. Molecular timetrees using relaxed clocks and uncertain phylogenies. Frontiers in bioinformatics. 2023, 3: 1225807Cited : 3Read More
- 20)- Kejue Jia, Mesih Kilinc, Robert L Jernigan. New alignment method for remote protein sequences by the direct use of pairwise sequence correlations and substitutions. Frontiers in bioinformatics. 2023, 3: 1227193Cited : 0Read More
- 21)- Christopher J Soelistyo, Kristina Ulicna, Alan R Lowe. Machine learning enhanced cell tracking. Frontiers in bioinformatics. 2023, 3: 1228989Cited : 2Read More
- 22)- Paolo Pozzi, Alessia Candeo, Petra Paiè, Francesca Bragheri, Andrea Bassi. Artificial intelligence in imaging flow cytometry. Frontiers in bioinformatics. 2023, 3: 1229052Cited : 1Read More
- 23)- Jack M Craig, Sudhir Kumar, S Blair Hedges. The origin of eukaryotes and rise in complexity were synchronous with the rise in oxygen. Frontiers in bioinformatics. 2023, 3: 1233281Cited : 3Read More
- 24)- Wei Ouyang, Kevin W Eliceiri, Beth A Cimini. Moving beyond the desktop: prospects for practical bioimage analysis via the web. Frontiers in bioinformatics. 2023, 3: 1233748Cited : 4Read More
- 25)- Ryan S McClure, Yvonne Rericha, Katrina M Waters, Robyn L Tanguay. 3' RNA-seq is superior to standard RNA-seq in cases of sparse data but inferior at identifying toxicity pathways in a model organism. Frontiers in bioinformatics. 2023, 3: 1234218Cited : 0Read More
- 26)- Luca Panconi, Dylan M Owen, Juliette Griffié. Cluster analysis for localisation-based data sets: dos and don'ts when quantifying protein aggregates. Frontiers in bioinformatics. 2023, 3: 1237551Cited : 0Read More
- 27)- Michael John Fanous, Nir Pillar, Aydogan Ozcan. Digital staining facilitates biomedical microscopy. Frontiers in bioinformatics. 2023, 3: 1243663Cited : 3Read More
- 28)- Diego Mariano, Neli José Da Fonseca Júnior, Lucianna Helene Santos, Raquel Cardoso de Melo-Minardi. Editorial: Bioinformatics in the age of data science: algorithms, methods, and tools applied from Omics to structural data. Frontiers in bioinformatics. 2023, 3: 1246859Cited : 0Read More
- 29)- Niloofar Shirvanizadeh, Mauno Vihinen. VariBench, new variation benchmark categories and data sets. Frontiers in bioinformatics. 2023, 3: 1248732Cited : 0Read More
- 30)- Florian Levet. Optimizing Voronoi-based quantifications for reaching interactive analysis of 3D localizations in the million range. Frontiers in bioinformatics. 2023, 3: 1249291Cited : 0Read More
- 31)- Paola Lecca. Editorial: Expert Opinions in Network bioinformatics: 2022. Frontiers in bioinformatics. 2023, 3: 1254668Cited : 0Read More
- 32)- Joran Deschamps, Damian Dalle Nogare, Florian Jug. Better research software tools to elevate the rate of scientific discovery or why we need to invest in research software engineering. Frontiers in bioinformatics. 2023, 3: 1255159Cited : 3Read More
- 33)- Annette Lien, Leonardo Pestana Legori, Louis Kraft, Peter Wad Sackett, Gabriel Renaud. Benchmarking software tools for trimming adapters and merging next-generation sequencing data for ancient DNA. Frontiers in bioinformatics. 2023, 3: 1260486Cited : 2Read More
- 34)- Juan G Diaz Ochoa, André Marquardt. Editorial: Transparent machine learning in bio-medicine. Frontiers in bioinformatics. 2023, 3: 1264803Cited : 0Read More
- 35)- Zhi-Ping Liu. Editorial: Insights in integrative bioinformatics-2021. Frontiers in bioinformatics. 2023, 3: 1267370Cited : 0Read More
- 36)- Bela T L Vogler, Francesco Reina, Christian Eggeling. Blob-B-Gone: a lightweight framework for removing blob artifacts from 2D/3D MINFLUX single-particle tracking data. Frontiers in bioinformatics. 2023, 3: 1268899Cited : 0Read More
- 37)- Rahul Kumar, Kumardeep Chaudhary, Sandeep Kumar Dhanda. Editorial: Recent advances in peptide informatics: challenges and opportunities. Frontiers in bioinformatics. 2023, 3: 1271932Cited : 0Read More
- 38)- Erik Burlingame, Luke Ternes, Jia-Ren Lin, Yu-An Chen, Eun Na Kim, Joe W Gray, Young Hwan Chang. 3D multiplexed tissue imaging reconstruction and optimized region of interest (ROI) selection through deep learning model of channels embedding. Frontiers in bioinformatics. 2023, 3: 1275402Cited : 3Read More
- 39)- Konstantinos A Kyritsis, Nikolaos Pechlivanis, Fotis Psomopoulos. Software pipelines for RNA-Seq, ChIP-Seq and germline variant calling analyses in common workflow language (CWL). Frontiers in bioinformatics. 2023, 3: 1275593Cited : 0Read More
- 40)- Kaisei Hara, Natsuki Iwano, Tsukasa Fukunaga, Michiaki Hamada. DeepRaccess: high-speed RNA accessibility prediction using deep learning. Frontiers in bioinformatics. 2023, 3: 1275787Cited : 0Read More
- 41)- Xu Yang, Langwen Lai, Xiaoli Qiang, Ming Deng, Yuhao Xie, Xiaolong Shi, Zheng Kou. Towards Chinese text and DNA shift encoding scheme based on biomass plasmid storage. Frontiers in bioinformatics. 2023, 3: 1276934Cited : 0Read More
- 42)- Thomas Krannich, Marina Herrera Sarrias, Hiba Ben Aribi, Moustafa Shokrof, Alfredo Iacoangeli, Ammar Al-Chalabi, Fritz J Sedlazeck, Ben Busby, Ahmad Al Khleifat. VariantSurvival: a tool to identify genotype-treatment response. Frontiers in bioinformatics. 2023, 3: 1277923Cited : 0Read More
- 43)- Suad Algarni, Steven L Foley, Hailin Tang, Shaohua Zhao, Dereje D Gudeta, Bijay K Khajanchi, Steven C Ricke, Jing Han. Development of an antimicrobial resistance plasmid transfer gene database for enteric bacteria. Frontiers in bioinformatics. 2023, 3: 1279359Cited : 3Read More
- 44)- Jan Rothörl, Maarten A Brems, Tim J Stevens, Peter Virnau. Reconstructing diploid 3D chromatin structures from single cell Hi-C data with a polymer-based approach. Frontiers in bioinformatics. 2023, 3: 1284484Cited : 0Read More
- 45)- Kevin K D Tan, Mark A Tsuchida, Jenu V Chacko, Niklas A Gahm, Kevin W Eliceiri. Real-time open-source FLIM analysis. Frontiers in bioinformatics. 2023, 3: 1286983Cited : 0Read More
- 46)- Mohammed Zidane, Ahmad Makky, Matthias Bruhns, Alexander Rochwarger, Sepideh Babaei, Manfred Claassen, Christian M Schürch. Corrigendum: A review on deep learning applications in highly multiplexed tissue imaging data analysis. Frontiers in bioinformatics. 2023, 3: 1287407Cited : 0Read More
- 47)- Giorgio Valentini, Dario Malchiodi, Jessica Gliozzo, Marco Mesiti, Mauricio Soto-Gomez, Alberto Cabri, Justin Reese, Elena Casiraghi, Peter N Robinson. The promises of large language models for protein design and modeling. Frontiers in bioinformatics. 2023, 3: 1304099Cited : 8Read More
- 48)- Joan Segura, Yana Rose, Chunxiao Bi, Jose Duarte, Stephen K Burley, Sebastian Bittrich. RCSB Protein Data Bank: visualizing groups of experimentally determined PDB structures alongside computed structure models of proteins. Frontiers in bioinformatics. 2023, 3: 1311287Cited : 3Read More
- 49)- Paul Klemm, Peter F Stadler, Marcus Lechner. Proteinortho6: pseudo-reciprocal best alignment heuristic for graph-based detection of (co-)orthologs. Frontiers in bioinformatics. 2023, 3: 1322477Cited : 3Read More
- 50)- Elizabeth A Heron, Giorgio Valle, Anna Bernasconi. Editorial: Identification of phenotypically important genomic variants. Frontiers in bioinformatics. 2023, 3: 1328945Cited : 0Read More
