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Whole-Genome Random Sequencing and Assembly of Haemophilus influenzae Rd

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Toward understanding the origin and evolution of cellular organisms

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KEGG: integrating viruses and cellular organisms

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Database resources of the national center for biotechnology information

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Virus taxonomy: the database of the International Committee on Taxonomy of Viruses (ICTV)

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Metabolomics: A New Tool to Reveal the Nature of Diabetic Kidney Disease

Huang, G., Li, M., Li, Y. J., & Mao, Y. (2022) · Laboratory Medicine · doi:10.1093/labmed/lmac041 · Cited by 933

KEGG mapping tools for uncovering hidden features in biological data

Kanehisa, M. I., Sato, Y., & Kawashima, M. (2021) · Protein Science · doi:10.1002/pro.4172 · Cited by 749

m 6 A RNA methylation drives kidney fibrosis by upregulating β-catenin signaling

Long, Y., Song, D., Xiao, L., Xiang, Y., Li, D., Sun, X., Hong, X., Hou, F. F., Fu, H., & Liu, Y. (2024) · International Journal of Biological Sciences · doi:10.7150/ijbs.96233 · Cited by 29

Integration of miRNA dynamics and drought tolerant QTLs in rice reveals the role of miR2919 in drought stress response

Kumar, D., Ramkumar, M. K., Dutta, B., Kumar, A., Pandey, R., Jain, P. K., Gaikwad, K., Mishra, D. C., Chaturvedi, K. K., Rai, A. K., et al. (2023) · BMC Genomics · doi:10.1186/s12864-023-09609-6 · Cited by 29

IMP: bridging the gap for medicinal plant genomics

Chen, T., Yang, M., Cui, G., Tang, J., Shen, Y., Liu, J., Yuan, Y., Guo, J., & Huang, L. (2023) · Nucleic Acids Research · doi:10.1093/nar/gkad898 · Cited by 29

Multimodal Data Integration Advances Longitudinal Prediction of the Naturalistic Course of Depression and Reveals a Multimodal Signature of Remission During 2-Year Follow-up

Habets, P. C., Thomas, R. M., Milaneschi, Y., Jansen, R., Pool, R., Peyrot, W. J., Penninx, B. W. J. H., Meijer, O. C., van Wingen, G. A., & Vinkers, C. H. (2023) · Biological Psychiatry · doi:10.1016/j.biopsych.2023.05.024 · Cited by 32

Mechanisms governing the impact of nitrogen stress on the formation of secondary metabolites in Artemisia argyi leaves

Wang, Z., Zhao, T., Ma, L., Chen, C., Miao, Y., Guo, L., & Liu, D. (2023) · Scientific Reports · doi:10.1038/s41598-023-40098-5 · Cited by 32

Clinical significance of TP53 alterations in advanced NSCLC patients treated with EGFR, ALK and ROS1 tyrosine kinase inhibitors: An update

Moes-Sosnowska, J., Szpechciński, A., & Chorostowska‐Wynimko, J. (2023) · Tumor Biology · doi:10.3233/tub-230034 · Cited by 29

Automatic annotation of the bHLH gene family in plants

Thoben, C., & Pucker, B. (2023) · BMC Genomics · doi:10.1186/s12864-023-09877-2 · Cited by 28

DCAF13 inhibits the p53 signaling pathway by promoting p53 ubiquitination modification in lung adenocarcinoma

Wei, S., Xing, J., Chen, J., Chen, L., Lv, J., Chen, X., Tang, L. Q., Yu, T., Wang, H., Wang, K., et al. (2024) · Journal of Experimental & Clinical Cancer Research · doi:10.1186/s13046-023-02936-2 · Cited by 28

Advancements in biotransformation pathway prediction: enhancements, datasets, and novel functionalities in enviPath

Hafner, J., Lorsbach, T., Schmidt, S., Brydon, L., Dost, K., Zhang, K., Fenner, K., & Wicker, J. S. (2024) · Journal of Cheminformatics · doi:10.1186/s13321-024-00881-6 · Cited by 28

BV-BRC: a unified bacterial and viral bioinformatics resource with expanded functionality and AI integration

Shukla, M. P., Wattam, A. R., Aleman, A., Bhattacharya, R., Bowers, N., Brettin, T. S., Capria, A. L., Chia, N., Cucinell, C. A., Davis, J. J., et al. (2025) · Nucleic Acids Research · doi:10.1093/nar/gkaf1254 · Cited by 28

Different impacts of TP53 mutations on cell cycle-related gene expression among cancer types

Sasaki, K., Takahashi, S. I., Ouchi, K., Otsuki, Y., Wakayama, S., & Ishioka, C. (2023) · Scientific Reports · doi:10.1038/s41598-023-32092-8 · Cited by 28

Composition and function of the Galapagos penguin gut microbiome vary with age, location, and a putative bacterial pathogen

Rohrer, S. D., Jiménez-Uzcátegui, G., Parker, P. G., & Chubiz, L. M. (2023) · Scientific Reports · doi:10.1038/s41598-023-31826-y · Cited by 30

Centaurea triumfetii essential oil chemical composition, comparative analysis, and antimicrobial activity of selected compounds

Carev, I., Gelemanović, A., Glumac, M., Tutek, K., Dželalija, M., Paiardini, A., & Prosseda, G. (2023) · Scientific Reports · doi:10.1038/s41598-023-34058-2 · Cited by 28

Developing anti-microbial peptide database version 1 to provide comprehensive and exhaustive resource of manually curated AMPs

Mondal, R. K., Sen, D., Arya, A., & Samanta, S. K. (2023) · Scientific Reports · doi:10.1038/s41598-023-45016-3 · Cited by 28

Forecasting of potential anti-inflammatory targets of some immunomodulatory plants and their constituents using in vitro, molecular docking and network pharmacology-based analysis

Khairy, A., Ghareeb, D. A., Çeli̇k, İ., Hammoda, H. M., Zaatout, H. H., & Ibrahim, R. S. (2023) · Scientific Reports · doi:10.1038/s41598-023-36540-3 · Cited by 27

Modeling type 1 diabetes progression using machine learning and single-cell transcriptomic measurements in human islets

Patil, A. R., Schug, J., Liu, C., Lahori, D., Descamps, H. C., Naji, A., Kaestner, K. H., Faryabi, R. B., & Vahedi, G. (2024) · Cell Reports Medicine · doi:10.1016/j.xcrm.2024.101535 · Cited by 30

Integrated multi-omic approach reveals the effect of a Graminaceae-derived biostimulant and its lighter fraction on salt-stressed lettuce plants

Monterisi, S., Zhang, L., García-Pérez, P., Zuluaga, M. Y. A., Ciriello, M., El‐Nakhel, C., Buffagni, V., Cardarelli, M., Colla, G., Rouphael, Y., et al. (2024) · Scientific Reports · doi:10.1038/s41598-024-61576-4 · Cited by 30

Exploring the effects of naringin on oxidative stress-impaired osteogenic differentiation via the Wnt/β-catenin and PI3K/Akt pathways

Wang, H., Liang, J., Wang, Y., Zheng, J., Liu, Y., Zhao, Y., Ma, Y., Chen, P., & Yang, X. (2024) · Scientific Reports · doi:10.1038/s41598-024-64952-2 · Cited by 27

Quest for Orthologs in the Era of Biodiversity Genomics

Langschied, F., Bordin, N., Cosentino, S., Fuentes-Palacios, D., Glover, N., Hiller, M., Hu, Y., Huerta-Cepas, J., Coelho, L. P., Iwasaki, W., et al. (2024) · Genome Biology and Evolution · doi:10.1093/gbe/evae224 · Cited by 26

Two subtle problems with overrepresentation analysis

Ziemann, M., Schroeter, B., & Bora, A. (2024) · Bioinformatics Advances · doi:10.1093/bioadv/vbae159 · Cited by 29

Microbiota-dependent metabolites – New engine for T cell warriors

Tang, Y., Fu, A., Wang, L., & Ge, Q. (2025) · Gut Microbes · doi:10.1080/19490976.2025.2523815 · Cited by 29

Genome-wide association study of leaf-related traits in tea plant in Guizhou based on genotyping-by-sequencing

Chen, Y., Niu, S., Deng, X., Song, Q., He, L., Bai, D., & He, Y. (2023) · BMC Plant Biology · doi:10.1186/s12870-023-04192-0 · Cited by 29

Diarrhea accompanies intestinal inflammation and intestinal mucosal microbiota dysbiosis during fatigue combined with a high-fat diet

Liu, J., Qiao, B., Cai, Y., Tan, Z., & Deng, N. (2023) · BMC Microbiology · doi:10.1186/s12866-023-02896-9 · Cited by 27

Quantitative multiorgan proteomics of fatal COVID‐19 uncovers tissue‐specific effects beyond inflammation

Schweizer, L., Schaller, T., Zwiebel, M., Karayel, Ö., Müller, J., Zeng, W., Dintner, S., Nordmann, T. M., Hirschbühl, K., Märkl, B., et al. (2023) · EMBO Molecular Medicine · doi:10.15252/emmm.202317459 · Cited by 26

Enlightening the path to NSCLC biomarkers: Utilizing the power of XAI-guided deep learning

Dwivedi, K., Rajpal, A., Rajpal, S., Kumar, V., Agarwal, M., & Kumar, N., V (2023) · Computer Methods and Programs in Biomedicine · doi:10.1016/j.cmpb.2023.107864 · Cited by 28

Single-cell RNA sequencing revealed potential targets for immunotherapy studies in hepatocellular carcinoma

Xie, Z., Huang, J., Li, Y., Zhu, Q., Huang, X., Chen, J., Wei, C., Luo, S., Yang, S., & Gao, J. (2023) · Scientific Reports · doi:10.1038/s41598-023-46132-w · Cited by 29

Eomes expression identifies the early bone marrow precursor to classical NK cells

Liang, Z., Anderson, H. D., Locher, V., O’Leary, C. Y., Riesenfeld, S. J., Jabrì, B., McDonald, B. D., & Bendelac, A. S. (2024) · Nature Immunology · doi:10.1038/s41590-024-01861-6 · Cited by 29

ACSL4 serves as a novel prognostic biomarker correlated with immune infiltration in Cholangiocarcinoma

Liu, S., Fan, S., Wang, Y., Chen, R., Wang, Z., Zhang, Y., Jiang, W., Chen, Y., Xu, X., Yu, Y., et al. (2023) · BMC Cancer · doi:10.1186/s12885-023-10903-5 · Cited by 26

A pan-cancer analysis of the role of USP5 in human cancers

Yan, B., Guo, J., Deng, S. H., Chen, D., & Huang, M. (2023) · Scientific Reports · doi:10.1038/s41598-023-35793-2 · Cited by 26

Gut microbiome profile of Chinese hypertension patients with and without type 2 diabetes mellitus

Ding, H., Xu, Y., Cheng, Y., Zhou, H., Dong, S., Wu, J. F., Lv, J., Hu, X., & Tang, O. (2023) · BMC Microbiology · doi:10.1186/s12866-023-02967-x · Cited by 26

The effect of lipid metabolism disorder on patients with hyperuricemia using Multi-Omics analysis

Ma, L., Wang, J., Ma, L., Ge, Y., & Wang, X. M. (2023) · Scientific Reports · doi:10.1038/s41598-023-45564-8 · Cited by 26

Metabolomics perspectives of the ecotoxicological risks of polycyclic aromatic hydrocarbons: A scoping review

Monteiro, V., da Silva, D. D., Martins, M., de Pinho, P. G., & Pinto, J. (2024) · Environmental Research · doi:10.1016/j.envres.2024.118394 · Cited by 26

Altered immune pathways in patients of temporal lobe epilepsy with and without hippocampal sclerosis

Che, X., Zhan, S., Song, J.-J., Deng, Y.-L., WeiLiu, PengHuang, JingZhang, Sun, Z., Che, Z.-Q., & Liu, J. (2024) · Scientific Reports · doi:10.1038/s41598-024-63541-7 · Cited by 26

Proteogenomic network analysis reveals dysregulated mechanisms and potential mediators in Parkinson’s disease

Torshizi, A. D., Truong, D. T., Hou, L., Smets, B., Whelan, C. D., & Li, S. (2024) · Nature Communications · doi:10.1038/s41467-024-50718-x · Cited by 27

From inflammation to depression: key biomarkers for IBD-related major depressive disorder

Hu, C., Ge, M., Liu, Y., Tan, W., Zhang, Y., Zou, M., Xiang, L., Song, X., & Guo, H. (2024) · Journal of Translational Medicine · doi:10.1186/s12967-024-05758-8 · Cited by 26

Differentially expressed discriminative genes and significant meta-hub genes based key genes identification for hepatocellular carcinoma using statistical machine learning

Hasan, M. A. M., Maniruzzaman, M., & Shin, J. (2023) · Scientific Reports · doi:10.1038/s41598-023-30851-1 · Cited by 25

Viral community structure and functional potential vary with lifestyle and altitude in soils of Mt. Everest

Zhu, Y., Zhang, Y., Yan, S., Chen, X., & Xie, S. (2023) · Environment International · doi:10.1016/j.envint.2023.108055 · Cited by 26

Time-resolved, deuterium-based fluxomics uncovers the hierarchy and dynamics of sugar processing by Pseudomonas putida

Volke, D. C., Gurdo, N., Milanesi, R., & Nikel, P. I. (2023) · Metabolic Engineering · doi:10.1016/j.ymben.2023.07.004 · Cited by 25

Fecal microbiota transplanted from old mice promotes more colonic inflammation, proliferation, and tumor formation in azoxymethane-treated A/J mice than microbiota originating from young mice

Crossland, N. A., Beck, S., Tan, W. Y., Lo, M., Mason, J. B., Zhang, C., Guo, W., & Crott, J. W. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2288187 · Cited by 25

Type II collagen scaffolds repair critical-sized osteochondral defects under induced conditions of osteoarthritis in rat knee joints via inhibiting TGF-β-Smad1/5/8 signaling pathway

Hu, X., Jin, M. Y., Sun, K., Zhang, Z., Wu, Z., Shi, J., Liu, P., Yao, H., & Wang, D. (2024) · Bioactive Materials · doi:10.1016/j.bioactmat.2024.02.008 · Cited by 26

Physiological and proteomic changes of Castanopsis fissa in response to drought stress

Li, C., Chen, S., & Wang, Y. (2023) · Scientific Reports · doi:10.1038/s41598-023-39235-x · Cited by 26

Possible melatonin-induced salt stress tolerance pathway in Phaseolus vulgaris L. using transcriptomic and metabolomic analyses

Yang, X., Liu, D., Liu, C., Li, M., Yan, Z., Zhang, Y., & Feng, G. (2024) · BMC Plant Biology · doi:10.1186/s12870-023-04705-x · Cited by 25

Keystone taxa enhance the stability of soil bacterial communities and multifunctionality under steelworks disturbance

Chao, H., Cai, A., Heimburger, B., Wu, Y., Zhao, D., Sun, M., & Hu, F. (2024) · Journal of Environmental Management · doi:10.1016/j.jenvman.2024.120664 · Cited by 25

SubGE-DDI: A new prediction model for drug-drug interaction established through biomedical texts and drug-pairs knowledge subgraph enhancement

Shi, Y., He, M., Chen, J., Han, F., & Cai, Y. (2024) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1011989 · Cited by 26

Genome-wide analysis reveals genomic diversity and signatures of selection in Qinchuan beef cattle

Yu, H., Zhang, K., Cheng, G., Mei, C., Wang, H., & Zan, L. (2024) · BMC Genomics · doi:10.1186/s12864-024-10482-0 · Cited by 25

Molecular insights into chronic atrophic gastritis treatment: Coptis chinensis Franch studied via network pharmacology, molecular dynamics simulation and experimental analysis

Hu, C., Cao, F., Jiang, Y., Liu, K., Li, T., Gao, Y. H., Li, W., & Han, W. (2024) · Computers in Biology and Medicine · doi:10.1016/j.compbiomed.2024.108804 · Cited by 25

Investigation of Peroxisome Proliferator-Activated Receptor Genes as Requirements for Visual Startle Response Hyperactivity in Larval Zebrafish Exposed to Structurally Similar Per- and Polyfluoroalkyl Substances (PFAS)

Gutsfeld, S., Wehmas, L. C., Omoyeni, I., Schweiger, N., Leuthold, D., Michaelis, P., Howey, X. M., Gaballah, S., Herold, N. K., Vogs, C., et al. (2024) · Environmental Health Perspectives · doi:10.1289/ehp13667 · Cited by 25

Uncovering novel functions of the enigmatic, abundant, and active Anaerolineae in a salt marsh ecosystem

Payne, P. E., Knobbe, L. N., Chanton, P., Zaugg, J., Mortazavi, B., & Mason, O. U. (2024) · mSystems · doi:10.1128/msystems.01162-24 · Cited by 30

The alteration of N6-methyladenosine (m6A) modification at the transcriptome-wide level in response of heat stress in bovine mammary epithelial cells

Qi, Y., Zhang, Y., Zhang, J., Wang, J., & Li, Q. (2022) · BMC Genomics · doi:10.1186/s12864-022-09067-6 · Cited by 25

Analysis of the oral microbiome during hormonal cycle and its alterations in menopausal women: the “AMICA” project

Tramice, A., Paris, D., Manca, A., Agudelo, F. A. G., Petrosino, S., Siracusa, L., Carbone, M., Melck, D. J., Raymond, F., & Piscitelli, F. (2022) · Scientific Reports · doi:10.1038/s41598-022-26528-w · Cited by 25

High-quality genome-scale metabolic network reconstruction of probiotic bacterium Escherichia coli Nissle 1917

Hof, M. V. ‘., Mohite, O. S., Monk, J. M., Weber, T., Palsson, B. Ø., & Sommer, M. O. A. (2022) · BMC Bioinformatics · doi:10.1186/s12859-022-05108-9 · Cited by 24

The identification of metabolites from gut microbiota in NAFLD via network pharmacology

Oh, K., Gupta, H., Min, B. H., Ganesan, R., Sharma, S. P., Won, S. M., Jeong, J., Lee, S. B., Cha, M. G., Kwon, G.-H., et al. (2023) · Scientific Reports · doi:10.1038/s41598-023-27885-w · Cited by 25

Identification of gene profiles related to the development of oral cancer using a deep learning technique

Tapak, L., Ghasemi, M. K., Afshar, S., Mahjub, H., Soltanian, A. R., & Khotanlou, H. (2023) · BMC Medical Genomics · doi:10.1186/s12920-023-01462-6 · Cited by 27

Steroidal saponin profiles and their key genes for synthesis and regulation in Asparagus officinalis L. by joint analysis of metabolomics and transcriptomics

Cheng, Q., Zeng, L., Wen, H. Y., Brown, S. E., Wu, H., Li, X., Lin, C., Liu, Z., & Mao, Z. (2023) · BMC Plant Biology · doi:10.1186/s12870-023-04222-x · Cited by 25

Widely Targeted Volatilomics and Metabolomics Analysis Reveal the Metabolic Composition and Diversity of Zingiberaceae Plants

Zhang, Y., Su, R., Yuan, H., Zhou, H., Jiangfang, Y., Liu, X., & Luo, J. (2023) · Metabolites · doi:10.3390/metabo13060700 · Cited by 25

A whole transcriptome profiling analysis for antidepressant mechanism of Xiaoyaosan mediated synapse loss via BDNF/trkB/PI3K signal axis in CUMS rats

Meng, P., Zhang, X., Liu, T., Liu, J., Luo, Y., Xie, M.-X., Yang, H., Fang, R. M., Guo, D., Zhong, Z., et al. (2023) · BMC Complementary Medicine and Therapies · doi:10.1186/s12906-023-04000-0 · Cited by 26

Exploring Extracellular Vesicles of Probiotic Yeast as Carriers of Biologically Active Molecules Transferred to Human Intestinal Cells

Mierzejewska, J., Kowalska, P. D., Marlicka, K., Dworakowska, S., Sitkiewicz, E., Trzaskowski, M., Głuchowska, A., Mosieniak, G., & Milner‐Krawczyk, M. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms241411340 · Cited by 25

Sericin coated thin polymeric films reduce keratinocyte proliferation via the mTOR pathway and epidermal inflammation through IL17 signaling in psoriasis rat model

Aramwit, P., Fongsodsri, K., Tuentam, K., Reamtong, O., Thiangtrongjit, T., Kanjanapruthipong, T., Yadavalli, V. K., & Ampawong, S. (2023) · Scientific Reports · doi:10.1038/s41598-023-39218-y · Cited by 28

Integrated bioinformatics and network pharmacology to explore the therapeutic target and molecular mechanisms of Bailing capsule on polycystic ovary syndrome

Guan, H.-R., Li, B., Zhang, Z.-H., Wu, H.-S., He, X., Dong, Y., Su, J., Lv, G., & Chen, S. (2023) · BMC Complementary Medicine and Therapies · doi:10.1186/s12906-023-04280-6 · Cited by 27

Aged breast matrix bound vesicles promote breast cancer invasiveness

Yang, J., Bahçecioğlu, G., Ronan, G., & Zorlutuna, P. (2024) · Biomaterials · doi:10.1016/j.biomaterials.2024.122493 · Cited by 24

Protein Phosphorylation Orchestrates Acclimations of Arabidopsis Plants to Environmental pH

Jain, D., & Schmidt, W. (2023) · Molecular & Cellular Proteomics · doi:10.1016/j.mcpro.2023.100685 · Cited by 24

Enhancing pathological complete response prediction in breast cancer: the role of dynamic characterization of DCE-MRI and its association with tumor heterogeneity

Zhang, X., Teng, X., Zhang, J., Lai, Q., & Cai, J. (2024) · Breast Cancer Research · doi:10.1186/s13058-024-01836-3 · Cited by 24

Deciphering the pharmacological mechanism of Radix astragali for allergic rhinitis through network pharmacology and experimental validation

Hua, Y., Tan, X., Zhang, J., Xu, N., Chen, R., Zhou, S., Liu, S., Li, K., Chen, W., Luo, Q., et al. (2024) · Scientific Reports · doi:10.1038/s41598-024-80101-1 · Cited by 24

SKI complex loss renders 9p21.3-deleted or MSI-H cancers dependent on PELO

Borck, P. C., Boyle, I., Janković, K., Bick, N. R., Foster, K. J., Lau, A. C., Parker-Burns, L., Lubicki, D. A., Li, T., Borah, A. A., et al. (2025) · Nature · doi:10.1038/s41586-024-08509-3 · Cited by 25

Defining lipedema's molecular hallmarks by multi-omics approach for disease prediction in women

Straub, L. G., Funcke, J., Joffin, N., Joung, C., Al-Ghadban, S. I., Zhao, S., Zhu, Q., Kruglikov, I. L., Zhu, Y., Langlais, P. R., et al. (2025) · Metabolism · doi:10.1016/j.metabol.2025.156191 · Cited by 27

Immune perturbations in human pancreas lymphatic tissues prior to and after type 1 diabetes onset

Golden, G. J., Wu, V. H., Hamilton, J. T., Amses, K. R., Shapiro, M. R., Japp, A. S., Liu, C., Pampena, M. B., Kuri-Cervantes, L., Knox, J. J., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-59626-0 · Cited by 27

Body-wide multi-omic counteraction of aging with GLP-1R agonism

Huang, J., Kwok, A. J., Li, J. C. Y., Chiu, C. L. H., Ip, B. Y. M., Tung, L. Y., Chan, R. C. H., Chan, D. T.-M., Wang, Z., Zheng, X., et al. (2025) · Cell Metabolism · doi:10.1016/j.cmet.2025.10.014 · Cited by 31

Comprehensive analysis of the metabolic and genomic features of tannin-transforming Lactiplantibacillus plantarum strains

Pulido-Mateos, E. C., Lessard‐Lord, J., Guyonnet, D., Desjardins, Y., & Roy, D. (2022) · Scientific Reports · doi:10.1038/s41598-022-26005-4 · Cited by 26

Identification of diagnostic biomarks and immune cell infiltration in ulcerative colitis

Chen, Q., Bei, S., Zhang, Z., Wang, X., & Zhu, Y. (2023) · Scientific Reports · doi:10.1038/s41598-023-33388-5 · Cited by 24

Characterization of oral bacterial and fungal microbiome in recovered COVID-19 patients

Wei, N., Zhu, G., Zhao, T., Wang, Y., Lou, H., Li, H., Yang, Z., Zhang, Z., Wang, Q., Han, M., et al. (2023) · BMC Microbiology · doi:10.1186/s12866-023-02872-3 · Cited by 24

Identification of unique transcriptomic signatures through integrated multispecies comparative analysis and WGCNA in bovine oocyte development

Zhang, F., Li, W., Zhang, G., Zhang, M., Liu, Z.-J., Zhu, K., Liu, Q., Zhang, S.-E., Shen, W., & Zhang, X. (2023) · BMC Genomics · doi:10.1186/s12864-023-09362-w · Cited by 24

Genome-wide systematic characterization of the NRT2 gene family and its expression profile in wheat (Triticum aestivum L.) during plant growth and in response to nitrate deficiency

Deng, Q., Luo, J., Zheng, J., Tan, W., Pu, Z., & Wang, F. (2023) · BMC Plant Biology · doi:10.1186/s12870-023-04333-5 · Cited by 24

Assessment of Drug-Induced Liver Injury through Cell Morphology and Gene Expression Analysis

Lejal, V., Cerisier, N., Rouquié, D., & Taboureau, O. (2023) · Chemical Research in Toxicology · doi:10.1021/acs.chemrestox.2c00381 · Cited by 24

Gut microbiota signature in children with autism spectrum disorder who suffered from chronic gastrointestinal symptoms

Wang, H., Liu, S., Xie, L., & Wang, J. (2023) · BMC Pediatrics · doi:10.1186/s12887-023-04292-8 · Cited by 27

Protein language models can capture protein quaternary state

Avraham, O., Tsaban, T., Ben-Aharon, Z., Tsaban, L., & Schueler‐Furman, O. (2023) · BMC Bioinformatics · doi:10.1186/s12859-023-05549-w · Cited by 24

Knockdown of SLC39A14 inhibits glioma progression by promoting erastin-induced ferroptosis SLC39A14 knockdown inhibits glioma progression

Zhang, Y., Wu, X., Zhu, J., Lu, R., & Ouyang, Y. (2023) · BMC Cancer · doi:10.1186/s12885-023-11637-0 · Cited by 25

Metaproteomic assessment of gut microbial and host functional perturbations in Helicobacter pylori -infected patients subjected to an antimicrobial protocol

Abbondio, M., Tanca, A., Diego, L. D., Sau, R., Bibbò, S., Pes, G. M., Dore, M. P., & Uzzau, S. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2291170 · Cited by 24

Genome-wide analysis of long noncoding RNAs in response to salt stress in Nicotiana tabacum

Li, Z., Zhou, H., Xu, G., Zhang, P., Zhai, N., Zheng, Q., Liu, P., Jin, L., Bai, G., & Zhang, H. (2023) · BMC Plant Biology · doi:10.1186/s12870-023-04659-0 · Cited by 24

Expression profile analysis of LncRNAs and mRNAs in pre-receptive endometrium of women with polycystic ovary syndrome undergoing in vitro fertilization-embryo transfer

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A chromosome level genome assembly of Pseudoroegneria Libanotica reveals a key Kcs gene involves in the cuticular wax elongation for drought resistance

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Machine learning enables identification of an alternative yeast galactose utilization pathway

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Aging and comprehensive molecular profiling in acute myeloid leukemia

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The prowess of metabolomics in cancer research: current trends, challenges and future perspectives

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A Novel AMPK Inhibitor Sensitizes Pancreatic Cancer Cells to Ferroptosis Induction

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Molecular pathology, developmental changes and synaptic dysfunction in (pre-) symptomatic human C9ORF72-ALS/FTD cerebral organoids

van der Geest, A. T., Jakobs, C. E., Ljubikj, T., Huffels, C. F. M., Luna, M. C., de Sá, R. V., Adolfs, Y., de Wit, M., Rutten, D. H., Kaal, M., et al. (2024) · Acta Neuropathologica Communications · doi:10.1186/s40478-024-01857-1 · Cited by 26

Target identification and assessment in the era of AI

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Adipose Tissue-Derived Stem Cell Extracellular Vesicles Suppress Glioblastoma Proliferation, Invasiveness and Angiogenesis

Gečys, D., Skredėnienė, R., Gečytė, E., Kazlauskas, A., Balnytė, I., & Jekabsone, A. (2023) · Cells · doi:10.3390/cells12091247 · Cited by 23

OpenXGR: a web-server update for genomic summary data interpretation

Bao, C., Wang, S., Jiang, L., Fang, Z., Zou, K., Lin, J. C.-J., Chen, S., & Fang, H. (2023) · Nucleic Acids Research · doi:10.1093/nar/gkad357 · Cited by 22

Microbes with higher metabolic independence are enriched in human gut microbiomes under stress

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Exogenous spraying of IAA improved the efficiency of microspore embryogenesis in Wucai (Brassica campestris L.) by affecting the balance of endogenous hormones, energy metabolism, and cell wall degradation

Wang, C., Zhang, P., Li, H., He, Y., Huang, F., Wang, X., Zhu, S., Yuan, L., Hou, J., Chen, G., et al. (2023) · BMC Genomics · doi:10.1186/s12864-023-09483-2 · Cited by 23

Phenotypic and genomic characterization of Bathyarchaeum tardum gen. nov., sp. nov., a cultivated representative of the archaeal class Bathyarchaeia

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Orosomucoid 1 promotes colorectal cancer progression and liver metastasis by affecting PI3K/AKT pathway and inducing macrophage M2 polarization

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Metabolome and Transcriptome Analysis of Sulfur-Induced Kiwifruit Stem Laccase Gene Involved in Syringyl Lignin Synthesis against Bacterial Canker

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Molecular characteristics and therapeutic implications of Toll-like receptor signaling pathway in melanoma

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INTEDE 2.0: the metabolic roadmap of drugs

Zhang, Y., Liu, X., Li, F., Yin, J., Yang, H., Li, X., Liu, X., Chai, X., Niu, T., Zeng, S., et al. (2023) · Nucleic Acids Research · doi:10.1093/nar/gkad1013 · Cited by 23

Mediating oxidative stress through the Palbociclib/miR-141-3p/STAT4 axis in osteoporosis: a bioinformatics and experimental validation study

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Statistical prediction of microbial metabolic traits from genomes

Li, Z., Selim, A., & Kuehn, S. (2023) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1011705 · Cited by 24

Advances in Computational Methods for Protein–Protein Interaction Prediction

Xian, L., & Wang, Y. (2024) · Electronics · doi:10.3390/electronics13061059 · Cited by 24

ChIP-DIP maps binding of hundreds of proteins to DNA simultaneously and identifies diverse gene regulatory elements

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Cuproptosis related gene PDHB is identified as a biomarker inversely associated with the progression of clear cell renal cell carcinoma

Wang, H., Yang, Z., He, X., Guo, F., Sun, H., Xu, S., Xu, C., Wang, Z., Wen, H., Teng, Z., et al. (2023) · BMC Cancer · doi:10.1186/s12885-023-11324-0 · Cited by 22

KEGG: biological systems database as a model of the real world

Kanehisa, M. I., Furumichi, M., Sato, Y., Matsuura, Y., & Ishiguro-Watanabe, M. (2024) · Nucleic Acids Research · doi:10.1093/nar/gkae909 · Cited by 2,634

Overview of KEGG applications to omics-related research

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Gene Annotation and Pathway Mapping in KEGG

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KEGG mapping tools for uncovering hidden features in biological data

Kanehisa, M. I., Sato, Y., & Kawashima, M. (2021) · Protein Science · doi:10.1002/pro.4172 · Cited by 749

KEGG: Kyoto Encyclopedia of Genes and Genomes

Kanehisa, M. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.1.27 · Cited by 37,077