UniProt: the Universal Protein Knowledgebase in 2023

Cited by (1,020)

Items 401–500 of 1,020

1. Unbiased organism-agnostic and highly sensitive signal peptide predictor with deep protein language model
   Junbo Shen, Qinze Yu, Shenyang Chen, Qingxiong Tan, Jingchen Li, Yu Li · 2023 · Nature Computational Science
2. Advancing bioinformatics with language models: components, applications, and perspectives
   Jiajia Liu, Mengyuan Yang, Yankai Yu, Haixia Xu, Tiangang Wang, Kang Li, Xiaobo Zhou · 2026 · Briefings in Bioinformatics
3. Learnt representations of proteins can be used for accurate prediction of small molecule binding sites on experimentally determined and predicted protein structures
   Anna Carbery, Martin Buttenschoen, R. Skyner, F. von Delft, Charlotte Mary Deane · 2024 · Journal of Cheminformatics
4. VISH-Pred: an ensemble of fine-tuned ESM models for protein toxicity prediction
   Raghvendra Mall, Ankita Singh, Chirag Patel, Gregory G. Y. Guirimand, Filippo Castiglione · 2024 · Briefings in Bioinformatics
5. TemBERTure: advancing protein thermostability prediction with deep learning and attention mechanisms
   Chiara Rodella, Symela Lazaridi, Thomas Lemmin · 2024 · Bioinformatics Advances
6. Recent developments of topoisomerase inhibitors: Clinical trials, emerging indications, novel molecules and global sales
   Andrey D. Bondarev, Jörgen Jonsson, Vladimir N. Chubarev, Vadim V. Tarasov, Francisco Alejandro Lagunas‐Rangel, Helgi B. Schiöth · 2024 · Pharmacological Research
7. Identifying Sequence Effects on Chain Dimensions of Disordered Proteins by Integrating Experiments and Simulations
   Andrea Holla, Erik W. Martin, Thomas P. Dannenhoffer-Lafage, Kiersten M. Ruff, Sebastian L. B. König, Mark F. Nüesch, Aritra Chowdhury, John M. Louis, Andrea Soranno, Daniel Nettels et al. · 2024 · JACS Au
8. Completing the BASEL phage collection to unlock hidden diversity for systematic exploration of phage–host interactions
   Humolli, Dorentina, Piel, Damien, Maffei, Enea, Heyer, Yannik, Agustoni, Elia, Shaidullina, Aisylu, Willi, Luc, Imwinkelried, Patrick, Estermann, Fabienne, Cuénod, Aline et al. · 2025 · PLOS Biology
9. The structural basis for RNA slicing by human Argonaute2
   Mohamed, Abdallah A., Wang, Peter Y., Bartel, David P., Vos, Seychelle M. · 2025 · Cell Reports
10. Quorum quenching by a type IVA secretion system effector
    Jinxing Liao, Zihan Li, Dan Xiong, Danyu Shen, Limin Wang, Long Lin, Xiaolong Shao, Lisheng Liao, Peng Li, Li-Qun Zhang et al. · 2023 · The ISME Journal
11. SingPro: a knowledge base providing single-cell proteomic data
    Xichen Lian, Yintao Zhang, Ying Zhou, Xiuna Sun, Shijie Huang, Haibin Dai, Lianyi Han, Feng Zhu · 2023 · Nucleic Acids Research
12. Design of a redox-proficient Escherichia coli for screening terpenoids and modifying cytochrome P450s
    Geng-Min Lin, Christopher A. Voigt · 2023 · Nature Catalysis
13. Progress and future of the computational design of antimicrobial peptides (AMPs): bio-inspired functional molecules
    Miroslava Nedyalkova, Andrew S. Paluch, Diana Potes Vecini, Marco Lattuada · 2023 · Digital Discovery
14. Catabolic Network of the Fermentative Gut Bacterium Phocaeicola vulgatus (Phylum Bacteroidota) from a Physiologic-Proteomic Perspective
    Urte Clausen, Sören-Tobias Vital, Pia Lambertus, Martina Gehler, Sabine Scheve, Lars Wöhlbrand, Ralf Rabus · 2024 · Microbial Physiology
15. Combining machine learning with structure-based protein design to predict and engineer post-translational modifications of proteins
    Moritz Ertelt, Vikram Khipple Mulligan, Jack B. Maguire, Sergey Lyskov, Rocco Moretti, Torben Schiffner, Jens Meiler, Clara T. Schoeder · 2024 · PLoS Computational Biology
16. In situ analysis reveals the TRiC duty cycle and PDCD5 as an open-state cofactor
    Huaipeng Xing, Remus R. E. Rosenkranz, Piere Rodriguez-Aliaga, Ting-Ting Lee, Tomáš Majtner, Stefanie Böhm, Beata Turoňová, Judith Frydman, Martin Beck · 2024 · Nature
17. Robust proteome profiling of cysteine-reactive fragments using label-free chemoproteomics
    George S. Biggs, Emma E. Cawood, Aini Vuorinen, William J. McCarthy, Harry Wilders, Ioannis G. Riziotis, Antonie J. van der Zouwen, Jonathan Pettinger, Luke Nightingale, Peiling Chen et al. · 2025 · Nature Communications
18. deep-AMPpred: A Deep Learning Method for Identifying Antimicrobial Peptides and Their Functional Activities
    Jun Zhao, Hangcheng Liu, Leyao Kang, W J Gao, Quan Lu, Yuan Rao, Zhenyu Yue · 2025 · Journal of Chemical Information and Modeling
19. DeepMVP: deep learning models trained on high-quality data accurately predict PTM sites and variant-induced alterations
    Bo Wen, Chenwei Wang, Kai Li, Ping Han, Matthew Valle Holt, Sara R. Savage, Jonathan Thomas Lei, Yongchao Dou, Zhiao Shi, Yi Li et al. · 2025 · Nature Methods
20. Characterizing fenestration size in sodium channel subtypes and their accessibility to inhibitors
    Elaine Tao, Ben Corry · 2021 · Biophysical Journal
21. Pharmacological Chaperones and Protein Conformational Diseases: Approaches of Computational Structural Biology
    Daniela Grasso, Silvia Galderisi, Annalisa Santucci, Andrea Bernini · 2023 · International Journal of Molecular Sciences
22. The mechanisms and roles of mitochondrial dynamics in C. elegans
    Daniel Campbell, Steven Zuryn · 2023 · Seminars in Cell and Developmental Biology
23. Influence of the polymer type of a microplastic challenge on the reaction of murine cells
    Julia Jasinski, Matthias Völkl, Magdalena V. Wilde, Valérie Jérôme, Thomas Fröhlich, Ruth Freitag, Thomas Scheibel · 2023 · Journal of Hazardous Materials
24. Conversion of Phytochemicals by Lactobacilli: (Phospho)-β-glucosidases Are Specific for Glucosylated Phytochemicals Rather than Disaccharides
    Monika Dymarska, Anna Widenmann, Kristin E. Low, D. Wade Abbott, Leluo L. Guan, Michael G. Gänzle · 2024 · Journal of Agricultural and Food Chemistry
25. SpatialPPI: Three-dimensional space protein-protein interaction prediction with AlphaFold Multimer
    2024
26. Systematic Investigation of Dual-Target-Directed Ligands
    Vittorio Lembo, Giovanni Bottegoni · 2024 · Journal of Medicinal Chemistry
27. Novel strategies for predicting allergenicity: development of a ranking method and screening tools to assess the allergy risk of innovative proteins
    Elizabeth N. Clare Mills, Federica Orsenigo, Diana Salgado, Paul Michael Finglas, SIAN B. ASTLEY · 2024 · EFSA Supporting Publications
28. N-terminal cysteine acetylation and oxidation patterns may define protein stability
    Karen C. Heathcote, Thomas P. Keeley, Matti Myllykoski, Malin Lundekvam, Nina McTiernan, Mosammat Salma Akter, Norma Masson, Peter John Ratcliffe, Thomas Arnesen, Emily Flashman · 2024 · Nature Communications
29. Approaching Optimal pH Enzyme Prediction with Large Language Models
    Mark Zaretckii, Pavel Buslaev, Igor Kozlovskii, Alexander Morozov, Petr A. Popov · 2024 · ACS Synthetic Biology
30. Biomimetic CO2 Capture Unlocked through Enzyme Mining: Discovery of a Highly Thermo- and Alkali-Stable Carbonic Anhydrase
    Konstantinos Rigkos, Georgios Filis, Io Antonopoulou, Ayanne de Oliveira Maciel, Pavlos Saridis, Dimitra Zarafeta, Γεώργιος Σκρέτας · 2024 · Environmental Science & Technology
31. Emergent time scales of epistasis in protein evolution
    Leonardo Di Bari, Matteo Bisardi, Sabrina Cotogno, Martin Weigt, Francesco Zamponi · 2024 · Proceedings of the National Academy of Sciences
32. PTMD 2.0: an updated database of disease-associated post-translational modifications
    Xinhe Huang, Zihao Feng, Dan Liu, Yujie Gou, Miaomiao Chen, Dachao Tang, Cheng Han, Jianzhen Peng, Di Peng, Yu Xue · 2024 · Nucleic Acids Research
33. CUDASW++4.0: ultra-fast GPU-based Smith–Waterman protein sequence database search
    Bertil Schmidt, Felix Kallenborn, Alejandro Chacón, Christian Hundt · 2024 · BMC Bioinformatics
34. A chromosome-level genome assembly of a model conifer plant, the Japanese cedar, Cryptomeria japonica D. Don
    Takeshi Fujino, Katsushi Yamaguchi, Toshiyuki Yokoyama, Toshiya Hamanaka, Yoritaka Harazono, Hiroaki Kamada, Wataru Kobayashi, Tokuko Ujino‐Ihara, Kentaro Uchiyama, Asako Matsumoto et al. · 2024 · BMC Genomics
35. REDIportal: toward an integrated view of the A-to-I editing
    Pietro D’Addabbo, Roni Cohen‐Fultheim, Itamar Twersky, Adriano Fonzino, Domenico Alessandro Silvestris, Ananth Prakash, Pietro Luca Mazzacuva, Juan Antonio Vizcaíno, Andrew Green, Blake Sweeney et al. · 2024 · Nucleic Acids Research
36. Deciphering proteins in Alzheimer’s disease: A new Mendelian randomization method integrated with AlphaFold3 for 3D structure prediction
    Minhao Yao, Gary W. Miller, Badri Narayan Vardarajan, Andrea Baccarelli, Zijian Guo, Zhonghua Liu · 2024 · Cell Genomics
37. AlphaFold-based AI docking reveals AMPK/SIRT1-TFEB pathway modulation by traditional Chinese medicine in metabolic-associated fatty liver disease
    Lulu Zhang, Yi Zheng, Mingyan Shao, Aiping Chen, Meiyi Liu, Wenlong Sun, Tianxing Li, Yini Fang, Yini Fang, Zhao Shipeng et al. · 2025 · Pharmacological Research
38. Leveraging prior knowledge to infer gene regulatory networks from single-cell RNA-sequencing data
    Marco Stock, Corinna Losert, Matteo Zambon, Niclas Popp, Gabriele Lubatti, Eva Hörmanseder, Matthias Heinig, Antonio Scialdone · 2025 · Molecular Systems Biology
39. Mussel-inspired cross-linking mechanisms enhance gelation and adhesion of multifunctional mucin-derived hydrogels
    George D. Degen, Corey Alfred Stevens, Gerardo Cárcamo‐Oyarce, Jake Song, Raju Bej, Peng Tang, Katharina Ribbeck, Rainer Haag, Gareth H. McKinley · 2025 · Proceedings of the National Academy of Sciences
40. RGS3 acts as a tumor promoter by facilitating the regulation of the TGF-β signaling pathway and promoting EMT in ovarian cancer
    Zizhao Wang, Huating Sun, Shunpeng Zhu, Fang Wang, Quan Li, Jinhua Zhou · 2025 · Cell Death Discovery
41. Gaia: An AI-enabled genomic context–aware platform for protein sequence annotation
    Nishant Jha, Joshua Kravitz, Jacob West-Roberts, Cong Lu, Antônio Pedro Camargo, Simon Roux, Andre Cornman, Yunha Hwang · 2025 · Science Advances
42. A periplasmic phospholipase that maintains outer membrane lipid asymmetry in Pseudomonas aeruginosa
    Randi L. Guest, Michael J. Y. Lee, Wei Wang, Thomas J. Silhavy · 2023 · Proceedings of the National Academy of Sciences
43. Well-hidden methanogenesis in deep, organic-rich sediments of Guaymas Basin
    Diana P. Bojanova, Valerie De Anda, Mojhgan Haghnegahdar, Andreas Teske, Jeanine L. Ash, Edward Young, Brett J. Baker, Douglas Edward LaRowe, Jan P. Amend · 2023 · The ISME Journal
44. Detection of the Arabidopsis Proteome and Its Post-translational Modifications and the Nature of the Unobserved (Dark) Proteome in PeptideAtlas
    Klaas Jan van Wijk, Tami Leppert, Zhi Sun, Alyssa Kearly, Margaret Li, Luis Mendoza, Isabell Guzchenko, Erica L. Debley, Georgia Sauermann, Pratyush Routray et al. · 2023 · Journal of Proteome Research
45. Benchmarking bacterial taxonomic classification using nanopore metagenomics data of several mock communities
    Alexander Van Uffelen, Andrés Posadas, Nancy H. C. Roosens, Kathleen Marchal, Sigrid C. J. De Keersmaecker, Kevin Vanneste · 2024 · Scientific Data
46. TAG-DTA: Binding-region-guided strategy to predict drug-target affinity using transformers
    Nelson R. C. Monteiro, José Luís Oliveira, Joel Perdiz Arrais · 2023 · Expert Systems with Applications
47. Unraveling immunotherapeutic targets for endometriosis: a transcriptomic and single-cell analysis
    Cankun Zhou, Minqing Feng, Yonglian Chen, Side Lv, Yifan Zhang, Jiebo Chen, Rujian Zhang, Xiaobin Huang · 2023 · Frontiers in Immunology
48. Multiple micronutrient deficiencies in early life cause multi-kingdom alterations in the gut microbiome and intrinsic antibiotic resistance genes in mice
    Paula T. Littlejohn, Avril Metcalfe‐Roach, Erick Cardenas, Ravi Holani, Haggai Bar‐Yoseph, Yiyun Michelle Fan, Sarah E. Woodward, B. Brett Finlay · 2023 · Nature Microbiology
49. Tryptophan-Centric Bioinformatics Identifies New Lasso Peptide Modifications
    Lonnie A. Harris, Hamada H. Saad, Kyle E. Shelton, Lingyang Zhu, Xiaorui Guo, Douglas A. Mitchell · 2024 · Biochemistry
50. Alternative molecular mechanisms for force transmission at adherens junctions via β-catenin-vinculin interaction
    Nicole Morales Camilo, Jingzhun Liu, Manuel J. Ramírez, Patricio Canales-Salgado, Juan José Alegría, Xuyao Liu, Hui Ting Ong, Nelson P. Barrera, Angélica Fierro, Yusuke Toyama et al. · 2024 · Nature Communications
51. Cytochrome P450 monooxygenase systems: Diversity and plasticity for adaptive stress response
    Innokenty M. Mokhosoev, Dmitry V. Astakhov, Alexander A. Terentiev, Nurbubu T. Moldogazieva · 2024 · Progress in Biophysics and Molecular Biology
52. A pan-cancer dye for solid-tumour screening, resection and wound monitoring via short-wave and near-infrared fluorescence imaging
    Mc Larney, Benedict Edward, Sonay, Ali Yasin, Apfelbaum, Elana, Mostafa, Nermin, Monette, Sébastien, Goerzen, Dana, Aguirre, Nicole, Exner, Rüdiger M., Habjan, Christine, Isaac, Elizabeth et al. · 2024 · Nature Biomedical Engineering
53. Fundamentals and Exceptions of the LysR-type Transcriptional Regulators
    Wouter Demeester, Brecht De Paepe, Marjan De Mey · 2024 · ACS Synthetic Biology
54. Segatella clades adopt distinct roles within a single individual’s gut
    Xieyue Xiao, Adarsh Singh, Andrea Giometto, Ilana Brito · 2024 · npj Biofilms and Microbiomes
55. ToxGIN: an In silico prediction model for peptide toxicity via graph isomorphism networks integrating peptide sequence and structure information
    Qi Yu, Zhixing Zhang, Guixia Liu, Weihua Li, Yun Tang · 2024 · Briefings in Bioinformatics
56. The Balbiani body is formed by microtubule-controlled molecular condensation of Buc in early oogenesis
    Swastik Kar, Rachael Deis, Adam Ahmad, Yoel Bogoch, Avichai Dominitz, Gal Shvaizer, Esther Sasson, Avishag Mytlis, Ayal Ben‐Zvi, Yaniv M. Elkouby · 2025 · Current Biology
57. Contextual computation by competitive protein dimerization networks
    Jacob Parres-Gold, Matthew E. Levine, Benjamin L. Emert, Andrew M. Stuart, Michael B. Elowitz · 2025 · Cell
58. Quantifying compatibility mechanisms in traditional Chinese medicine with interpretable graph neural networks
    Jingqi Zeng, Xiao‐Bin Jia · 2025 · Journal of Pharmaceutical Analysis
59. The role of metabolism in shaping enzyme structures over 400 million years
    2025
60. Challenges in AI-driven multi-omics data analysis for Oncology: Addressing dimensionality, sparsity, transparency and ethical considerations
    Maryem Ouhmouk, Shakuntala Baichoo, Mounia Abık · 2025 · Informatics in Medicine Unlocked
61. A host-directed adjuvant sensitizes intracellular bacterial persisters to antibiotics
    Kuan‐Yi Lu, Xiangbo Yang, Matthew J. G. Eldridge, Rongfeng Sun, Rachel T. Giorgio, Benjamin I. Morris, Nikki J. Wagner, Brian P. Hardy, Matthew Axtman, Sarah E. Rowe et al. · 2025 · Nature Microbiology
62. All DACs in a Row: Domain Architectures of Bacterial and Archaeal Diadenylate Cyclases
    Michael Y. Galperin · 2023 · Journal of Bacteriology
63. Nisin S, a Novel Nisin Variant Produced by Ligilactobacillus salivarius P1CEA3
    Ester Sevillano, Nuria Peña, Irene Lafuente, Luis M. Cintas, Estefanía Muñoz-Atienza, Pablo E. Hernández, Juan Borrero · 2023 · International Journal of Molecular Sciences
64. The Application of Artificial Intelligence Accelerates G Protein-Coupled Receptor Ligand Discovery
    Wei Chen, Chi Song, Liang Leng, Sanyin Zhang, Shilin Chen · 2023 · Engineering
65. IDR-targeting compounds suppress HPV genome replication via disruption of phospho-BRD4 association with DNA damage response factors
    Shwu-Yuan Wu, Hsien‐Tsung Lai, Nilam Sanjib Banerjee, Zonghui Ma, Juan F. Santana, Shuguang Wei, Xisheng Liu, Meirong Zhang, Jian Zhan, Haiying Chen et al. · 2023 · Molecular Cell
66. Peptipedia v2.0: a peptide sequence database and user-friendly web platform. A major update
    Cabas-Mora, Gabriel, Daza, Anamaría, Soto-García, Nicole, Garrido, Valentina, Alvarez, Diego, Navarrete, Marcelo, Sarmiento-Varón, Lindybeth, Sepúlveda Yañez, Julieta H, Davari, Mehdi D, Cadet, Frederic et al. · 2024 · Database
67. State of the interactomes: an evaluation of molecular networks for generating biological insights
    Wright, Sarah N, Colton, Scott, Schaffer, Leah V, Pillich, Rudolf T, Churas, Christopher, Pratt, Dexter, Ideker, Trey · 2024 · Molecular Systems Biology
68. The Vibrio cholerae CBASS phage defence system modulates resistance and killing by antifolate antibiotics
    Brenzinger, Susanne, Airoldi, Martina, Ogunleye, Adewale Joseph, Jugovic, Karl, Amstalden, Martin Krähenbühl, Brochado, Ana Rita · 2024 · Nature Microbiology
69. Everything OLD is new again: How structural, functional, and bioinformatic advances have redefined a neglected nuclease family
    Elena Wanvig i Dot, Lynn C. Thomason, Joshua S. Chappie · 2023 · Molecular Microbiology
70. VarCards2: an integrated genetic and clinical database for ACMG-AMP variant-interpretation guidelines in the human whole genome
    Zheng Wang, Guihu Zhao, Zhaopo Zhu, Yijing Wang, Xudong Xiang, Shiyu Zhang, Tengfei Luo, Qiao Zhou, Jian Hua Qiu, Beisha Tang et al. · 2023 · Nucleic Acids Research
71. Viper Venom Phospholipase A2 Database: The Structural and Functional Anatomy of a Primary Toxin in Envenomation
    Ana L. Novo de Oliveira, Miguel T. Lacerda, Maria João Ramos, Pedro Alexandrino Fernandes · 2024 · Toxins
72. Databases of ligand-binding pockets and protein-ligand interactions
    Kristy A. Carpenter, Russ Biagio Altman · 2024 · Computational and Structural Biotechnology Journal
73. Structural basis for selectivity and antagonism in extracellular GPCR-nanobodies
    Roman R. Schlimgen, Francis C. Peterson, Raimond Heukers, Martine J. Smit, John D. McCorvy, Brian F. Volkman · 2024 · Nature Communications
74. Protein embeddings predict binding residues in disordered regions
    2024
75. m6A modification of VEGFA mRNA by RBM15/YTHDF2/IGF2BP3 contributes to angiogenesis of hepatocellular carcinoma
    Xiaoxin Xu, Shuxiang Wu, Yi Zhang, Weijie Fan, Xinjian Lin, Kunqi Chen, Xu Lin · 2024 · Molecular Carcinogenesis
76. Structure-Based Approaches for Protein–Protein Interaction Prediction Using Machine Learning and Deep Learning
    Despoina P. Kiouri, Georgios Batsis, Christos T. Chasapis · 2025 · Biomolecules
77. Complexity of the lichen symbiosis revealed by metagenome and transcriptome analysis of Xanthoria parietina
    Gulnara M. Tagirdzhanova, Klara Scharnagl, Neha Sahu, Yan Xia, Angus Bucknell, Adam R. Bentham, Clara Jégousse, Sandra Lorena Ament‐Velásquez, Ioana Onut Brännström, Hanna Johannesson et al. · 2025 · Current Biology
78. Seq2Topt: a sequence-based deep learning predictor of enzyme optimal temperature
    Sizhe Qiu, Bozhen Hu, Jing Zhao, XU Wei-ren, Aidong Yang · 2025 · Briefings in Bioinformatics
79. Metatranscriptomics uncovers diurnal functional shifts in bacterial transgenes with profound metabolic effects
    Stephany Flores Ramos, Nicole Siguenza, Wuling Zhong, Ipsita Mohanty, Amulya Lingaraju, R. Alexander Richter, Smruthi Karthikeyan, April L. Lukowski, Qiyun Zhu, Wilhan Donizete Gonçalves Nunes et al. · 2025 · Cell Host & Microbe
80. AAA+ protease-adaptor structures reveal altered conformations and ring specialization
    Sora Kim, Fei X, Robert T. Sauer, Tania A. Baker · 2022 · Nature Structural & Molecular Biology
81. Understudied proteins and understudied functions in the model bacterium Bacillus subtilis—A major challenge in current research
    Dennis Wicke, Janek Meißner, Robert Warneke, Christoph Elfmann, Jörg Stülke · 2023 · Molecular Microbiology
82. Benzenesulfonamide derivatives as Vibrio cholerae carbonic anhydrases inhibitors: a computational-aided insight in the structural rigidity-activity relationships
    Marialuigia Fantacuzzi, Ilaria D’Agostino, Simone Carradori, Francesco Liguori, Fabrizio Carta, Mariangela Agamennone, Andrea Angeli, Filomena Sannio, Jean‐Denis Docquier, Clemente Capasso et al. · 2023 · Journal of Enzyme Inhibition and Medicinal Chemistry
83. Staphylococcus aureus adapts to the immunometabolite itaconic acid by inducing acid and oxidative stress responses including S-bacillithiolations and S-itaconations
    Vu Van Loi, Tobias Busche, Benno Kuropka, Susanne Müller, Karen Methling, Michael Lalk, Jörn Kalinowski, Haike Antelmann · 2023 · Free Radical Biology and Medicine
84. Enlightening the path to NSCLC biomarkers: Utilizing the power of XAI-guided deep learning
    Kountay Dwivedi, Ankit Rajpal, Sheetal Rajpal, Virendra Kumar, Manoj Agarwal, Naveen Kumar V · 2023 · Computer Methods and Programs in Biomedicine
85. Discovering microproteins: making the most of ribosome profiling data
    Sonia Pankaj Chothani, Lena Ho, Sebastian Schäfer, Owen J. L. Rackham · 2023 · RNA Biology
86. The 2024Nucleic Acids Researchdatabase issue and the online molecular biology database collection
    Daniel John Rigden, Xosé M. Fernández · 2023 · Nucleic Acids Research
87. Explorative Meta-Analysis of 377 Extant Fungal Genomes Predicted a Total Mycobiome Functionality of 42.4 Million KEGG Functions
    Robert Starke, Petr Čapek, Daniel Morais, Stephen Callister, Nico Jehmlich · 2019 · Frontiers in Microbiology
88. Computing the Human Interactome
    Jing Zhang, Ian R. Humphreys, Jimin Pei, Jinuk Kim, Chulwon Choi, Rongqing Yuan, Jesse Durham, Siqi Liu, Hee‐Jung Choi, Minkyung Baek et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
89. Metapredict Enables Accurate Disorder Prediction Across the Tree of Life
    Jeffrey M. Lotthammer, Jorge Hernández‐García, Daniel Griffith, Dolf Weijers, Alex S. Holehouse, Ryan J. Emenecker · 2024 · SSRN Electronic Journal
90. Comprehensive detection and characterization of human druggable pockets through binding site descriptors
    2024
91. TransEFVP: A Two-Stage Approach for the Prediction of Human Pathogenic Variants Based on Protein Sequence Embedding Fusion
    Zihao Yan, Fang Ge, Yan Liu, Yumeng Zhang, Fuyi Li, Jiangning Song, Dong‐Jun Yu · 2024 · Journal of Chemical Information and Modeling
92. Trade-offs, trade-ups, and high mutational parallelism underlie microbial adaptation during extreme cycles of feast and famine
    Megan G. Behringer, Wei-Chin Ho, Samuel F. Miller, Sarah B. Worthan, Zeer Cen, Ryan Stikeleather, Michael Lynch · 2024 · Current Biology
93. Circadian Clock and Hypoxia
    Francesca Sartor, Borja Ferrero‐Bordera, Jeffrey A. Haspel, Markus Sperandio, Paul M. Holloway, Martha W. Merrow · 2024 · Circulation Research
94. Tyr352 as a Predominant Phosphosite in the Understudied Kinase and Molecular Target, HIPK1: Implications for Cancer Therapy
    Diya Sanjeev, Mejo George, Levin John, Athira Perunelly Gopalakrishnan, Pahal Priyanka, Spoorthi Mendon, Tanuja Yandigeri, Mahammad Nisar, Muhammad Nisar, Saptami Kanekar et al. · 2024 · OMICS A Journal of Integrative Biology
95. Exposure to PFAS chemicals induces sex-dependent alterations in key rate-limiting steps of lipid metabolism in liver steatosis
    Archana Hari, Mohamed Diwan M. AbdulHameed, Michele R. Balik-Meisner, Deepak Mav, Dhiral P. Phadke, Elizabeth H. Scholl, Ruchir Shah, Warren Casey, Scott S. Auerbach, Anders Wallqvist et al. · 2024 · Frontiers in Toxicology
96. ACVPred: Enhanced prediction of anti-coronavirus peptides by transfer learning combined with data augmentation
    Yi Xu, Tianyuan Liu, Yu Yang, Juanjuan Kang, Liping Ren, Hui Ding, Yang Zhang · 2024 · Future Generation Computer Systems
97. TENT5-mediated polyadenylation of mRNAs encoding secreted proteins is essential for gametogenesis in mice
    Michał Brouze, Agnieszka Czarnocka-Cieciura, Olga Gewartowska, Monika Kusio-Kobiałka, Kamil Jachacy, Marcin Szpila, Bartosz Tarkowski, Jakub Gruchota, Paweł Szczepan Krawczyk, Seweryn Mroczek et al. · 2024 · Nature Communications
98. Exploring the environmental contamination toxicity and potential carcinogenic pathways of perfluorinated and polyfluoroalkyl substances (PFAS): An integrated network toxicology and molecular docking strategy
    Zhi Lin, Yvmo Li, Jiarui Zhao, Jun Li, Shuang Pan, Xinhe Wang, Lin He, Zhe Lin · 2024 · Heliyon
99. Uncovering the small proteome of Methanosarcina mazei using Ribo-seq and peptidomics under different nitrogen conditions
    Muhammad Aammar Tufail, Britta Jordan, Lydia Hadjeras, Rick Gelhausen, Liam Cassidy, Tim Habenicht, Miriam Gutt, Lisa Hellwig, Rolf Backofen, Andreas Tholey et al. · 2024 · Nature Communications
100. Machine learning-assisted amidase-catalytic enantioselectivity prediction and rational design of variants for improving enantioselectivity
     Zilin Li, Shuxin Pei, Ziying Chen, Teng-Yu Huang, Xudong Wang, Lin Fang Shen, Xuebo Chen, Qi‐Qiang Wang, De‐Xian Wang, Yu‐Fei Ao · 2024 · Nature Communications