SUBJECTS : Genome Analysis | Sequence Analysis | Phylogenetics | Gene Expression | Systems Biolog
Bioinformatics: 2023, vol: 39, issue: 12
- 1)- Rui Ren, Kuangnan Fang, Qingzhao Zhang, Shuangge Ma. FunctanSNP: an R package for functional analysis of dense SNP data (with interactions). Bioinformatics (Oxford, England). 2023, 39 (12):
Cited : 0Read More - 2)- Cuifang Xu, Jiating Huang, Yongqiang Gao, Weixing Zhao, Yiqi Shen, Feihong Luo, Gang Yu, Feng Zhu, Yan Ni. OBMeta: a comprehensive web server to analyze and validate gut microbial features and biomarkers for obesity-associated metabolic diseases. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 3)- . Correction to: GIL: a python package for designing custom indexing primers. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 4)- Dani Korpela, Emmi Jokinen, Alexandru Dumitrescu, Jani Huuhtanen, Satu Mustjoki, Harri Lähdesmäki. EPIC-TRACE: predicting TCR binding to unseen epitopes using attention and contextualized embeddings. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 5)- Hikmet Emre Kaya, Kevin J Naidoo. CytoCopasi: a chemical systems biology target and drug discovery visual data analytics platform. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 6)- Herve Emissah, Bengt Ljungquist, Giorgio A Ascoli. Bibliometric analysis of neuroscience publications quantifies the impact of data sharing. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 7)- Jian Liu, Fubin Ma, Yongdi Zhu, Naiqian Zhang, Lingming Kong, Jia Mi, Haiyan Cong, Rui Gao, Mingyi Wang, Yusen Zhang. MaxCLK: discovery of cancer driver genes via maximal clique and information entropy of modules. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 8)- Zi Hao Liu, João M C Teixeira, Oufan Zhang, Thomas E Tsangaris, Jie Li, Claudiu C Gradinaru, Teresa Head-Gordon, Julie D Forman-Kay. Local Disordered Region Sampling (LDRS) for ensemble modeling of proteins with experimentally undetermined or low confidence prediction segments. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 9)- Susan L Hoops, Dan Knights. LMdist: Local Manifold distance accurately measures beta diversity in ecological gradients. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 10)- Herui Liao, Jiayu Shang, Yanni Sun. GDmicro: classifying host disease status with GCN and deep adaptation network based on the human gut microbiome data. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 11)- Harshavardhan Khare, Nathaly Dongo Mendoza, Chiara Zurzolo. CellWalker: a user-friendly and modular computational pipeline for morphological analysis of microscopy images. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 12)- Emil Hägglund, Siv G E Andersson, Lionel Guy. TADA: taxonomy-aware dataset aggregator. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 13)- Jaskaran Singh, Yingzhou Edward Pan, Shunmoogum A Patten. NMJ Analyser: a novel method to quantify neuromuscular junction morphology in zebrafish. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 14)- Ze-Gang Wei, Peng-Yu Bu, Xiao-Dan Zhang, Fei Liu, Yu Qian, Fang-Xiang Wu. invMap: a sensitive mapping tool for long noisy reads with inversion structural variants. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 15)- Jose Espejo Valle-Inclán, Isidro Cortés-Ciriano. ReConPlot: an R package for the visualization and interpretation of genomic rearrangements. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 16)- Eszter Csibra, Guy-Bart Stan. Parsley: a web app for parsing data from plate readers. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 17)- Brendan S McConnell, Matthew W Parker. Protein intrinsically disordered regions have a non-random, modular architecture. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 18)- Duy T Pham, Kenneth E Westerman, Cong Pan, Ling Chen, Shylaja Srinivasan, Elvira Isganaitis, Mary Ellen Vajravelu, Fida Bacha, Steve Chernausek, Rose Gubitosi-Klug, Jasmin Divers, Catherine Pihoker, Santica M Marcovina, Alisa K Manning, Han Chen. Re-analysis and meta-analysis of summary statistics from gene-environment interaction studies. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 19)- Min Zeng, Yifan Wu, Yiming Li, Rui Yin, Chengqian Lu, Junwen Duan, Min Li. LncLocFormer: a Transformer-based deep learning model for multi-label lncRNA subcellular localization prediction by using localization-specific attention mechanism. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 2Read More
- 20)- . Correction to: Snapper: high-sensitive detection of methylation motifs based on Oxford Nanopore reads. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 21)- . Correction to: KR4SL: knowledge graph reasoning for explainable prediction of synthetic lethality. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 22)- . Correction to: NeoFox: annotating neoantigen candidates with neoantigen features. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 23)- . Correction to: DeepFold: enhancing protein structure prediction through optimized loss functions, improved template features, and re-optimized energy function. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 24)- . Correction to: PEMT: a patent enrichment tool for drug discovery. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 25)- Wunna Kyaw, Ryan C Chai, Weng Hua Khoo, Leonard D Goldstein, Peter I Croucher, John M Murray, Tri Giang Phan. ENTRAIN: integrating trajectory inference and gene regulatory networks with spatial data to co-localize the receptor-ligand interactions that specify cell fate. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 26)- Nima Nouri, Andre H Kurlovs, Giorgio Gaglia, Emanuele de Rinaldis, Virginia Savova. Scaling up single-cell RNA-seq data analysis with CellBridge workflow. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 27)- Anisha Haldar, Vishal H Oza, Nathaniel S DeVoss, Amanda D Clark, Brittany N Lasseigne. CoSIA: an R Bioconductor package for CrOss Species Investigation and Analysis. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 28)- . Correction to: Prediction of gene co-expression from chromatin contacts with graph attention network. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 29)- Steve Ma, Longxuan Fan, Sai Anish Konanki, Eva Liu, John H Gennari, Lucian P Smith, Joseph L Hellerstein, Herbert M Sauro. VSCode-Antimony: a source editor for building, analyzing, and translating antimony models. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 30)- William DeGroat, Dinesh Mendhe, Atharva Bhusari, Habiba Abdelhalim, Saman Zeeshan, Zeeshan Ahmed. IntelliGenes: a novel machine learning pipeline for biomarker discovery and predictive analysis using multi-genomic profiles. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 3Read More
- 31)- Marcos Díaz-Gay, Raviteja Vangara, Mark Barnes, Xi Wang, S M Ashiqul Islam, Ian Vermes, Stephen Duke, Nithish Bharadhwaj Narasimman, Ting Yang, Zichen Jiang, Sarah Moody, Sergey Senkin, Paul Brennan, Michael R Stratton, Ludmil B Alexandrov. Assigning mutational signatures to individual samples and individual somatic mutations with SigProfilerAssignment. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 2Read More
- 32)- Jacob Morrison, Wanding Zhou, Benjamin K Johnson, Hui Shen. Dupsifter: a lightweight duplicate marking tool for whole genome bisulfite sequencing. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 1Read More
- 33)- Gianluca Vozza, Emanuele Bonetti, Giulia Tini, Valentina Favalli, Gianmaria Frigè, Gabriele Bucci, Simona De Summa, Mario Zanfardino, Francesco Zapelloni, Luca Mazzarella. Benchmarking and improving the performance of variant-calling pipelines with RecallME. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 34)- Kaspar Märtens, Michele Bortolomeazzi, Lucia Montorsi, Jo Spencer, Francesca Ciccarelli, Christopher Yau. Rarity: discovering rare cell populations from single-cell imaging data. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
- 35)- Adam Midlik, Sreenath Nair, Stephen Anyango, Mandar Deshpande, David Sehnal, Mihaly Varadi, Sameer Velankar. PDBImages: a command-line tool for automated macromolecular structure visualization. Bioinformatics (Oxford, England). 2023, 39 (12): Cited : 0Read More
