GigaScience最新文献_第4页

A 3D printed plant model for accurate and reliable 3D plant phenotyping. 用于准确可靠的三维植物表型的三维打印植物模型。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae035

Jonas Bömer, Felix Esser, Elias Marks, Radu Alexandru Rosu, Sven Behnke, Lasse Klingbeil, Heiner Kuhlmann, Cyrill Stachniss, Anne-Katrin Mahlein, Stefan Paulus

{"title":"A 3D printed plant model for accurate and reliable 3D plant phenotyping.","authors":"Jonas Bömer, Felix Esser, Elias Marks, Radu Alexandru Rosu, Sven Behnke, Lasse Klingbeil, Heiner Kuhlmann, Cyrill Stachniss, Anne-Katrin Mahlein, Stefan Paulus","doi":"10.1093/gigascience/giae035","DOIUrl":"10.1093/gigascience/giae035","url":null,"abstract":"Background: This study addresses the importance of precise referencing in 3-dimensional (3D) plant phenotyping, which is crucial for advancing plant breeding and improving crop production. Traditionally, reference data in plant phenotyping rely on invasive methods. Recent advancements in 3D sensing technologies offer the possibility to collect parameters that cannot be referenced by manual measurements. This work focuses on evaluating a 3D printed sugar beet plant model as a referencing tool.Results: Fused deposition modeling has turned out to be a suitable 3D printing technique for creating reference objects in 3D plant phenotyping. Production deviations of the created reference model were in a low and acceptable range. We were able to achieve deviations ranging from -10 mm to +5 mm. In parallel, we demonstrated a high-dimensional stability of the reference model, reaching only ±4 mm deformation over the course of 1 year. Detailed print files, assembly descriptions, and benchmark parameters are provided, facilitating replication and benefiting the research community.Conclusion: Consumer-grade 3D printing was utilized to create a stable and reproducible 3D reference model of a sugar beet plant, addressing challenges in referencing morphological parameters in 3D plant phenotyping. The reference model is applicable in 3 demonstrated use cases: evaluating and comparing 3D sensor systems, investigating the potential accuracy of parameter extraction algorithms, and continuously monitoring these algorithms in practical experiments in greenhouse and field experiments. Using this approach, it is possible to monitor the extraction of a nonverifiable parameter and create reference data. The process serves as a model for developing reference models for other agricultural crops.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11186670/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141426681","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Deep learning links localized digital pathology phenotypes with transcriptional subtype and patient outcome in glioblastoma. 深度学习将局部数字病理表型与胶质母细胞瘤的转录亚型和患者预后联系起来。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae057

Thomas Roetzer-Pejrimovsky, Karl-Heinz Nenning, Barbara Kiesel, Johanna Klughammer, Martin Rajchl, Bernhard Baumann, Georg Langs, Adelheid Woehrer

{"title":"Deep learning links localized digital pathology phenotypes with transcriptional subtype and patient outcome in glioblastoma.","authors":"Thomas Roetzer-Pejrimovsky, Karl-Heinz Nenning, Barbara Kiesel, Johanna Klughammer, Martin Rajchl, Bernhard Baumann, Georg Langs, Adelheid Woehrer","doi":"10.1093/gigascience/giae057","DOIUrl":"10.1093/gigascience/giae057","url":null,"abstract":"Background: Deep learning has revolutionized medical image analysis in cancer pathology, where it had a substantial clinical impact by supporting the diagnosis and prognostic rating of cancer. Among the first available digital resources in the field of brain cancer is glioblastoma, the most common and fatal brain cancer. At the histologic level, glioblastoma is characterized by abundant phenotypic variability that is poorly linked with patient prognosis. At the transcriptional level, 3 molecular subtypes are distinguished with mesenchymal-subtype tumors being associated with increased immune cell infiltration and worse outcome.Results: We address genotype-phenotype correlations by applying an Xception convolutional neural network to a discovery set of 276 digital hematozylin and eosin (H&E) slides with molecular subtype annotation and an independent The Cancer Genome Atlas-based validation cohort of 178 cases. Using this approach, we achieve high accuracy in H&E-based mapping of molecular subtypes (area under the curve for classical, mesenchymal, and proneural = 0.84, 0.81, and 0.71, respectively; P < 0.001) and regions associated with worse outcome (univariable survival model P < 0.001, multivariable P = 0.01). The latter were characterized by higher tumor cell density (P < 0.001), phenotypic variability of tumor cells (P < 0.001), and decreased T-cell infiltration (P = 0.017).Conclusions: We modify a well-known convolutional neural network architecture for glioblastoma digital slides to accurately map the spatial distribution of transcriptional subtypes and regions predictive of worse outcome, thereby showcasing the relevance of artificial intelligence-enabled image mining in brain cancer.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11345537/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142055362","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

FAIR data retrieval for sensitive clinical research data in Galaxy. 银河系统中敏感临床研究数据的 FAIR 数据检索。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giad099

Jasper Ouwerkerk, Helena Rasche, John D Spalding, Saskia Hiltemann, Andrew P Stubbs

{"title":"FAIR data retrieval for sensitive clinical research data in Galaxy.","authors":"Jasper Ouwerkerk, Helena Rasche, John D Spalding, Saskia Hiltemann, Andrew P Stubbs","doi":"10.1093/gigascience/giad099","DOIUrl":"10.1093/gigascience/giad099","url":null,"abstract":"Background: In clinical research, data have to be accessible and reproducible, but the generated data are becoming larger and analysis complex. Here we propose a platform for Findable, Accessible, Interoperable, and Reusable (FAIR) data access and creating reproducible findings. Standardized access to a major genomic repository, the European Genome-Phenome Archive (EGA), has been achieved with API services like PyEGA3. We aim to provide a FAIR data analysis service in Galaxy by retrieving genomic data from the EGA and provide a generalized \"omics\" platform for FAIR data analysis.Results: To demonstrate this, we implemented an end-to-end Galaxy workflow to replicate the findings from an RD-Connect synthetic dataset Beyond the 1 Million Genomes (synB1MG) available from the EGA. We developed the PyEGA3 connector within Galaxy to easily download multiple datasets from the EGA. We added the gene.iobio tool, a diagnostic environment for precision genomics, to Galaxy and demonstrate that it provides a more dynamic and interpretable view for trio analysis results. We developed a Galaxy trio analysis workflow to determine the pathogenic variants from the synB1MG trios using the GEMINI and gene.iobio tool. The complete workflow is available at WorkflowHub, and an associated tutorial was created in the Galaxy Training Network, which helps researchers unfamiliar with Galaxy to run the workflow.Conclusions: We showed the feasibility of reusing data from the EGA in Galaxy via PyEGA3 and validated the workflow by rediscovering spiked-in variants in synthetic data. Finally, we improved existing tools in Galaxy and created a workflow for trio analysis to demonstrate the value of FAIR genomics analysis in Galaxy.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10821763/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139570419","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Toward genome assemblies for all marine vertebrates: current landscape and challenges. 实现所有海洋脊椎动物的基因组组装：现状与挑战。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giad119

Emma de Jong, Lara Parata, Philipp E Bayer, Shannon Corrigan, Richard J Edwards

引用次数: 0

Deciphering spatial domains from spatially resolved transcriptomics with Siamese graph autoencoder. 利用连体图自动编码器从空间解析转录组学中解密空间域

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae003

Lei Cao, Chao Yang, Luni Hu, Wenjian Jiang, Yating Ren, Tianyi Xia, Mengyang Xu, Yishuai Ji, Mei Li, Xun Xu, Yuxiang Li, Yong Zhang, Shuangsang Fang

{"title":"Deciphering spatial domains from spatially resolved transcriptomics with Siamese graph autoencoder.","authors":"Lei Cao, Chao Yang, Luni Hu, Wenjian Jiang, Yating Ren, Tianyi Xia, Mengyang Xu, Yishuai Ji, Mei Li, Xun Xu, Yuxiang Li, Yong Zhang, Shuangsang Fang","doi":"10.1093/gigascience/giae003","DOIUrl":"10.1093/gigascience/giae003","url":null,"abstract":"Background: Cell clustering is a pivotal aspect of spatial transcriptomics (ST) data analysis as it forms the foundation for subsequent data mining. Recent advances in spatial domain identification have leveraged graph neural network (GNN) approaches in conjunction with spatial transcriptomics data. However, such GNN-based methods suffer from representation collapse, wherein all spatial spots are projected onto a singular representation. Consequently, the discriminative capability of individual representation feature is limited, leading to suboptimal clustering performance.Results: To address this issue, we proposed SGAE, a novel framework for spatial domain identification, incorporating the power of the Siamese graph autoencoder. SGAE mitigates the information correlation at both sample and feature levels, thus improving the representation discrimination. We adapted this framework to ST analysis by constructing a graph based on both gene expression and spatial information. SGAE outperformed alternative methods by its effectiveness in capturing spatial patterns and generating high-quality clusters, as evaluated by the Adjusted Rand Index, Normalized Mutual Information, and Fowlkes-Mallows Index. Moreover, the clustering results derived from SGAE can be further utilized in the identification of 3-dimensional (3D) Drosophila embryonic structure with enhanced accuracy.Conclusions: Benchmarking results from various ST datasets generated by diverse platforms demonstrate compelling evidence for the effectiveness of SGAE against other ST clustering methods. Specifically, SGAE exhibits potential for extension and application on multislice 3D reconstruction and tissue structure investigation. The source code and a collection of spatial clustering results can be accessed at https://github.com/STOmics/SGAE/.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10939418/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139905504","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Exploring the role of polymorphic interspecies structural variants in reproductive isolation and adaptive divergence in Eucalyptus. 探索多态种间结构变异在桉树生殖隔离和适应性分化中的作用。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae029

Scott Ferguson, Ashley Jones, Kevin Murray, Rose L Andrew, Benjamin Schwessinger, Helen Bothwell, Justin Borevitz

{"title":"Exploring the role of polymorphic interspecies structural variants in reproductive isolation and adaptive divergence in Eucalyptus.","authors":"Scott Ferguson, Ashley Jones, Kevin Murray, Rose L Andrew, Benjamin Schwessinger, Helen Bothwell, Justin Borevitz","doi":"10.1093/gigascience/giae029","DOIUrl":"10.1093/gigascience/giae029","url":null,"abstract":"Structural variations (SVs) play a significant role in speciation and adaptation in many species, yet few studies have explored the prevalence and impact of different categories of SVs. We conducted a comparative analysis of long-read assembled reference genomes of closely related Eucalyptus species to identify candidate SVs potentially influencing speciation and adaptation. Interspecies SVs can be either fixed differences or polymorphic in one or both species. To describe SV patterns, we employed short-read whole-genome sequencing on over 600 individuals of Eucalyptus melliodora and Eucalyptus sideroxylon, along with recent high-quality genome assemblies. We aligned reads and genotyped interspecies SVs predicted between species reference genomes. Our results revealed that 49,756 of 58,025 and 39,536 of 47,064 interspecies SVs could be typed with short reads in E. melliodora and E. sideroxylon, respectively. Focusing on inversions and translocations, symmetric SVs that are readily genotyped within both populations, 24 were found to be structural divergences, 2,623 structural polymorphisms, and 928 shared structural polymorphisms. We assessed the functional significance of fixed interspecies SVs by examining differences in estimated recombination rates and genetic differentiation between species, revealing a complex history of natural selection. Shared structural polymorphisms displayed enrichment of potentially adaptive genes. Understanding how different classes of genetic mutations contribute to genetic diversity and reproductive barriers is essential for understanding how organisms enhance fitness, adapt to changing environments, and diversify. Our findings reveal the prevalence of interspecies SVs and elucidate their role in genetic differentiation, adaptive evolution, and species divergence within and between populations.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11170218/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141310458","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Generalized open-source workflows for atomistic molecular dynamics simulations of viral helicases. 用于病毒螺旋酶原子分子动力学模拟的通用开源工作流程。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae026

Bryan Raubenolt, Daniel Blankenberg

引用次数: 0

Omada: robust clustering of transcriptomes through multiple testing. Omada：通过多重测试对转录组进行稳健聚类。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae039

Sokratis Kariotis, Pei Fang Tan, Haiping Lu, Christopher J Rhodes, Martin R Wilkins, Allan Lawrie, Dennis Wang

{"title":"Omada: robust clustering of transcriptomes through multiple testing.","authors":"Sokratis Kariotis, Pei Fang Tan, Haiping Lu, Christopher J Rhodes, Martin R Wilkins, Allan Lawrie, Dennis Wang","doi":"10.1093/gigascience/giae039","DOIUrl":"10.1093/gigascience/giae039","url":null,"abstract":"Background: Cohort studies increasingly collect biosamples for molecular profiling and are observing molecular heterogeneity. High-throughput RNA sequencing is providing large datasets capable of reflecting disease mechanisms. Clustering approaches have produced a number of tools to help dissect complex heterogeneous datasets, but selecting the appropriate method and parameters to perform exploratory clustering analysis of transcriptomic data requires deep understanding of machine learning and extensive computational experimentation. Tools that assist with such decisions without prior field knowledge are nonexistent. To address this, we have developed Omada, a suite of tools aiming to automate these processes and make robust unsupervised clustering of transcriptomic data more accessible through automated machine learning-based functions.Findings: The efficiency of each tool was tested with 7 datasets characterized by different expression signal strengths to capture a wide spectrum of RNA expression datasets. Our toolkit's decisions reflected the real number of stable partitions in datasets where the subgroups are discernible. Within datasets with less clear biological distinctions, our tools either formed stable subgroups with different expression profiles and robust clinical associations or revealed signs of problematic data such as biased measurements.Conclusions: In conclusion, Omada successfully automates the robust unsupervised clustering of transcriptomic data, making advanced analysis accessible and reliable even for those without extensive machine learning expertise. Implementation of Omada is available at http://bioconductor.org/packages/omada/.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11238428/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141590107","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A ghost moth olfactory prototype of the lepidopteran sex communication. 鳞翅目性传播的鬼蛾嗅觉原型。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae044

Rui Tang, Cong Huang, Jun Yang, Zhong-Chen Rao, Li Cao, Peng-Hua Bai, Xin-Cheng Zhao, Jun-Feng Dong, Xi-Zhong Yan, Fang-Hao Wan, Nan-Ji Jiang, Ri-Chou Han

{"title":"A ghost moth olfactory prototype of the lepidopteran sex communication.","authors":"Rui Tang, Cong Huang, Jun Yang, Zhong-Chen Rao, Li Cao, Peng-Hua Bai, Xin-Cheng Zhao, Jun-Feng Dong, Xi-Zhong Yan, Fang-Hao Wan, Nan-Ji Jiang, Ri-Chou Han","doi":"10.1093/gigascience/giae044","DOIUrl":"10.1093/gigascience/giae044","url":null,"abstract":"Sex role differentiation is a widespread phenomenon. Sex pheromones are often associated with sex roles and convey sex-specific information. In Lepidoptera, females release sex pheromones to attract males, which evolve sophisticated olfactory structures to relay pheromone signals. However, in some primitive moths, sex role differentiation becomes diverged. Here, we introduce the chromosome-level genome assembly from ancestral Himalaya ghost moths, revealing a unique olfactory evolution pattern and sex role parity among Lepidoptera. These olfactory structures of the ghost moths are characterized by a dense population of trichoid sensilla, both larger male and female antennal entry parts of brains, compared to the evolutionary later Lepidoptera. Furthermore, a unique tandem of 34 odorant receptor 19 homologs in Thitarodes xiaojinensis (TxiaOr19) has been identified, which presents overlapped motifs with pheromone receptors (PRs). Interestingly, the expanded TxiaOr19 was predicted to have unconventional tuning patterns compared to canonical PRs, with nonsexual dimorphic olfactory neuropils discovered, which contributes to the observed equal sex roles in Thitarodes adults. Additionally, transposable element activity bursts have provided traceable loci landscapes where parallel diversifications occurred between TxiaOr19 and PRs, indicating that the Or19 homolog expansions were diversified to PRs during evolution and thus established the classic sex roles in higher moths. This study elucidates an olfactory prototype of intermediate sex communication from Himalaya ghost moths.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11258902/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141727097","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Mechanisms of hepatic steatosis in chickens: integrated analysis of the host genome, molecular phenomics and gut microbiome. 鸡肝脏脂肪变性的机制：宿主基因组、分子表型组学和肠道微生物组的综合分析。

IF 11.8 2区生物学

GigaScience Pub Date : 2024-01-02 DOI: 10.1093/gigascience/giae023

Congjiao Sun, Fangren Lan, Qianqian Zhou, Xiaoli Guo, Jiaming Jin, Chaoliang Wen, Yanxin Guo, Zhuocheng Hou, Jiangxia Zheng, Guiqin Wu, Guangqi Li, Yiyuan Yan, Junying Li, Qiugang Ma, Ning Yang

{"title":"Mechanisms of hepatic steatosis in chickens: integrated analysis of the host genome, molecular phenomics and gut microbiome.","authors":"Congjiao Sun, Fangren Lan, Qianqian Zhou, Xiaoli Guo, Jiaming Jin, Chaoliang Wen, Yanxin Guo, Zhuocheng Hou, Jiangxia Zheng, Guiqin Wu, Guangqi Li, Yiyuan Yan, Junying Li, Qiugang Ma, Ning Yang","doi":"10.1093/gigascience/giae023","DOIUrl":"10.1093/gigascience/giae023","url":null,"abstract":"Hepatic steatosis is the initial manifestation of abnormal liver functions and often leads to liver diseases such as nonalcoholic fatty liver disease in humans and fatty liver syndrome in animals. In this study, we conducted a comprehensive analysis of a large chicken population consisting of 705 adult hens by combining host genome resequencing; liver transcriptome, proteome, and metabolome analysis; and microbial 16S ribosomal RNA gene sequencing of each gut segment. The results showed the heritability (h2 = 0.25) and duodenal microbiability (m2 = 0.26) of hepatic steatosis were relatively high, indicating a large effect of host genetics and duodenal microbiota on chicken hepatic steatosis. Individuals with hepatic steatosis had low microbiota diversity and a decreased genetic potential to process triglyceride output from hepatocytes, fatty acid β-oxidation activity, and resistance to fatty acid peroxidation. Furthermore, we revealed a molecular network linking host genomic variants (GGA6: 5.59-5.69 Mb), hepatic gene/protein expression (PEMT, phosphatidyl-ethanolamine N-methyltransferase), metabolite abundances (folate, S-adenosylmethionine, homocysteine, phosphatidyl-ethanolamine, and phosphatidylcholine), and duodenal microbes (genus Lactobacillus) to hepatic steatosis, which could provide new insights into the regulatory mechanism of fatty liver development.","PeriodicalId":12581,"journal":{"name":"GigaScience","volume":null,"pages":null},"PeriodicalIF":11.8,"publicationDate":"2024-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11152177/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141261606","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0