Relevant bibliographies by topics / Meta-omics

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  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers

Academic literature on the topic 'Meta-omics'

Author: Grafiati
Published: 25 May 2024
Last updated: 25 July 2025

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Journal articles on the topic "Meta-omics"

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Rusk, Nicole. "A meta-network of -omics." Nature Methods 5, no. 1 (2008): 25. http://dx.doi.org/10.1038/nmeth1165.

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Mackelprang, Rachel, Scott R. Saleska, Carsten Suhr Jacobsen, Janet K. Jansson, and Neslihan Taş. "Permafrost Meta-Omics and Climate Change." Annual Review of Earth and Planetary Sciences 44, no. 1 (2016): 439–62. http://dx.doi.org/10.1146/annurev-earth-060614-105126.

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Sathyanarayanan, Anita, Rohit Gupta, Erik W. Thompson, Dale R. Nyholt, Denis C. Bauer, and Shivashankar H. Nagaraj. "A comparative study of multi-omics integration tools for cancer driver gene identification and tumour subtyping." Briefings in Bioinformatics 21, no. 6 (2019): 1920–36. http://dx.doi.org/10.1093/bib/bbz121.

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Abstract Oncogenesis and cancer can arise as a consequence of a wide range of genomic aberrations including mutations, copy number alterations, expression changes and epigenetic modifications encompassing multiple omics layers. Integrating genomic, transcriptomic, proteomic and epigenomic datasets via multi-omics analysis provides the opportunity to derive a deeper and holistic understanding of the development and progression of cancer. There are two primary approaches to integrating multi-omics data: multi-staged (focused on identifying genes driving cancer) and meta-dimensional (focused on e
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Tsoungos, Anastasios, Violeta Pemaj, Aleksandra Slavko, John Kapolos, Marina Papadelli, and Konstantinos Papadimitriou. "The Rising Role of Omics and Meta-Omics in Table Olive Research." Foods 12, no. 20 (2023): 3783. http://dx.doi.org/10.3390/foods12203783.

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Table olives are often the result of fermentation, a process where microorganisms transform raw materials into the final product. The microbial community can significantly impact the organoleptic characteristics and safety of table olives, and it is influenced by various factors, including the processing methods. Traditional culture-dependent techniques capture only a fraction of table olives’ intricate microbiota, prompting a shift toward culture-independent methods to address this knowledge gap. This review explores recent advances in table olive research through omics and meta-omics approac
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João, C. Sequeira, Rocha Miguel, Madalena Alves M., and F. Salvador Andreia. "UPIMAPI, reCOGnizer and KEGGCharter: Bioinformatics tools for functional annotation and visualization of (meta)-omics datasets." Computational and Structural Biotechnology Journal 20 (April 11, 2022): 1798–810. https://doi.org/10.1016/j.csbj.2022.03.042.

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Omics and meta-omics technologies are powerful approaches to explore microorganisms&rsquo; functions, but the sheer size and complexity of omics datasets often turn the analysis into a challenging task. Software developed for omics and&nbsp;<em>meta</em>-omics analyses, together with knowledgebases encompassing information on genes, proteins, taxonomic and functional annotation, among other types of information, are valuable resources for analyzing omics data. Although several&nbsp;bioinformatics&nbsp;resources are available for&nbsp;<em>meta</em>-omics analyses, many require significant compu
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Kemmo Tsafack, Ulrich Kemmo, Kwang Woo Ahn, Anne E. Kwitek, and Chien-Wei Lin. "Meta-Analytic Gene-Clustering Algorithm for Integrating Multi-Omics and Multi-Study Data." Bioengineering 11, no. 6 (2024): 587. http://dx.doi.org/10.3390/bioengineering11060587.

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Gene pathways and gene-regulatory networks are used to describe the causal relationship between genes, based on biological experiments. However, many genes are still to be studied to define novel pathways. To address this, a gene-clustering algorithm has been used to group correlated genes together, based on the similarity of their gene expression level. The existing methods cluster genes based on only one type of omics data, which ignores the information from other types. A large sample size is required to achieve an accurate clustering structure for thousands of genes, which can be challengi
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Mallick, Himel, Ali Rahnavard, Lauren J. McIver, et al. "Multivariable association discovery in population-scale meta-omics studies." PLOS Computational Biology 17, no. 11 (2021): e1009442. http://dx.doi.org/10.1371/journal.pcbi.1009442.

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It is challenging to associate features such as human health outcomes, diet, environmental conditions, or other metadata to microbial community measurements, due in part to their quantitative properties. Microbiome multi-omics are typically noisy, sparse (zero-inflated), high-dimensional, extremely non-normal, and often in the form of count or compositional measurements. Here we introduce an optimized combination of novel and established methodology to assess multivariable association of microbial community features with complex metadata in population-scale observational studies. Our approach,
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Johnson, David R., Damian E. Helbling, Yujie Men, and Kathrin Fenner. "Can meta-omics help to establish causality between contaminant biotransformations and genes or gene products?" Environmental Science: Water Research & Technology 1, no. 3 (2015): 272–78. http://dx.doi.org/10.1039/c5ew00016e.

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Adeleke, Bartholomew Saanu, and Olubukola Oluranti Babalola. "Meta-omics of endophytic microbes in agricultural biotechnology." Biocatalysis and Agricultural Biotechnology 42 (July 2022): 102332. http://dx.doi.org/10.1016/j.bcab.2022.102332.

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Darzi, Youssef, Gwen Falony, Sara Vieira-Silva, and Jeroen Raes. "Towards biome-specific analysis of meta-omics data." ISME Journal 10, no. 5 (2015): 1025–28. http://dx.doi.org/10.1038/ismej.2015.188.

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Dissertations / Theses on the topic "Meta-omics"

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Zandonà, Alessandro. "Predictive networks for multi meta-omics data integration." Doctoral thesis, Università degli studi di Trento, 2017. https://hdl.handle.net/11572/367893.

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The role of microbiome in disease onset and in equilibrium is being exposed by a wealth of high-throughput omics methods. All key research directions, e.g., the study of gut microbiome dysbiosis in IBD/IBS, indicate the need for bioinformatics methods that can model the complexity of the microbial communities ecology and unravel its disease-associated perturbations. A most promising direction is the “meta-omics†approach, that allows a profiling based on various biological molecules at the metagenomic scale (e.g., metaproteomics, metametabolomics) as well as different “microbial†omes
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Zandonà, Alessandro. "Predictive networks for multi meta-omics data integration." Doctoral thesis, University of Trento, 2017. http://eprints-phd.biblio.unitn.it/2547/1/zandona2017_phdthesis.pdf.

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The role of microbiome in disease onset and in equilibrium is being exposed by a wealth of high-throughput omics methods. All key research directions, e.g., the study of gut microbiome dysbiosis in IBD/IBS, indicate the need for bioinformatics methods that can model the complexity of the microbial communities ecology and unravel its disease-associated perturbations. A most promising direction is the “meta-omics” approach, that allows a profiling based on various biological molecules at the metagenomic scale (e.g., metaproteomics, metametabolomics) as well as different “microbial” omes (eukaryo
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Coves, Marion. "Les dynamiques hôte-virus dans les digesteurs anaérobies sous l'effet d'un stress abiotique." Electronic Thesis or Diss., université Paris-Saclay, 2024. http://www.theses.fr/2024UPASB040.

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Les virus des microbes sont des acteurs majeurs dans divers écosystèmes, affectant la structuration et la dynamique des communautés microbiennes. Cependant, ils restent peu explorés dans le domaine de la digestion anaérobie (DA). Les écosystèmes de ces processus sont très sensibles aux perturbations, entraînant inhibition et diminution de la production de méthane. Cette thèse aborde l'interaction entre des perturbations abiotiques, la composition des communautés microbienne et virale et la performance du procédé.La dynamique des populations virales a été étudiée dans des digesteurs anaérobies,
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Roy, Alexandra-Sophie [Verfasser]. "Response of Thalassiosira oceanica and natural microbial communities to ocean acidification : a meta-omics comparison from unialgal cultures to mesocosms / Alexandra-Sophie Roy." Kiel : Universitätsbibliothek Kiel, 2017. http://d-nb.info/1138979929/34.

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Da, Silva Ophélie. "Structure de l'écosystème planctonique : apport des données à haut débit de séquençage et d'imagerie." Electronic Thesis or Diss., Sorbonne université, 2021. http://www.theses.fr/2021SORUS183.

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Les organismes planctoniques, acteurs clés des écosystèmes, soutiennent les réseaux trophiques et ont un rôle majeur dans les cycles biogéochimiques et la régulation du climat. Tandis que la répartition spatio-temporelle de la diversité planctonique peut être étudiée à plusieurs niveaux, du gène jusqu’à l’écosystème, comprendre les mécanismes qui sous-tendent cette organisation est un défi. En effet, la structure de la diversité résulte de différents processus évolutifs et écologiques qui peuvent agir simultanément sur le vivant. Depuis le début du XXIème siècle, le milieu océanique fait l'obj
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Benoiston, Anne-Sophie. "Méta-omique et méta-données environnementales : vers une nouvelle compréhension de la pompe à carbone biologique." Electronic Thesis or Diss., Sorbonne université, 2019. https://accesdistant.sorbonne-universite.fr/login?url=https://theses-intra.sorbonne-universite.fr/2019SORUS182.pdf.

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La pompe à carbone biologique comprend la production primaire de matière organique dans la zone euphotique, son export vers les profondeurs et sa reminéralisation. Les acteurs les plus fréquemment cités sont les diatomées en raison de leur contribution à la production primaire et à l’export de carbone et les copépodes pour la production de pelotes fécales. Cependant, la pompe biologique est le résultat d'interactions complexes entre organismes plutôt que de leurs actions indépendantes. En outre, bien qu'il ait été montré que la distribution de taille et la composition minérale du phytoplancton
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Costa, João Carlos Sequeira. "Development of an automated pipeline for meta-omics data analysis." Master's thesis, 2017. http://hdl.handle.net/1822/56113.

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Dissertação de mestrado em Computer Science<br>Knowing what lies around us has been a goal for many decades now, and the new advances in sequencing technologies and in meta-omics approaches have permitted to start answering some of the main questions of microbiology - what is there, and what is it doing? The exponential growth of omics studies has been answered by the development of some bioinformatic tools capable of handling Metagenomics (MG) analysis, with a scarce few integrating such analysis with Metatranscriptomics (MT) or Metaproteomics (MP) studies. Furthermore, the existing tools
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Annavajhala, Medini. "Meta-omics-derived structure, function, and activity of mixed microbial communities driving biological nutrient removal and recovery." Thesis, 2017. https://doi.org/10.7916/D864023F.

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Improved process design and operation of systems engineered for the biological removal and recovery of carbon, nitrogen, and phosphorus from waste streams requires an understanding of the mixed microbial communities employed. While traditional microbiology techniques have been used to characterize the metabolic capability and activity of some organisms responsible for nutrient cycling, the metabolism of novel organisms and dynamics of complex microbial communities have been insufficiently revealed. The development and increased commercial availability of next-generation sequencing technology o
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Park, Mee Rye. "Elucidating Microbial Community Structure, Function and Activity in Engineered Biological Nitrogen Removal Processes using Meta-omics Approaches." Thesis, 2017. https://doi.org/10.7916/D8BR94RN.

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Biological nitrogen removal (BNR) has been applied for more than a century in the interests of preserving and enhancing public health and the environment. But only during the last few decades has the development of molecular techniques using biomolecules such as nucleic acids (DNA and RNA) and proteins allowed the accurate description and characterization of the phylogenetic and functional diversity of microbial communities. Moreover, thanks to recent advances in genomics and next-generation sequencing technologies, microbial community analyses have initiated a new era of microbial ecology. No
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Books on the topic "Meta-omics"

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Annavajhala, Medini. Meta-omics-derived structure, function, and activity of mixed microbial communities driving biological nutrient removal and recovery. [publisher not identified], 2017.

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Park, Mee Rye. Elucidating Microbial Community Structure, Function and Activity in Engineered Biological Nitrogen Removal Processes using Meta-omics Approaches. [publisher not identified], 2017.

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Kirchman, David L. Genomes and meta-omics for microbes. Oxford University Press, 2018. http://dx.doi.org/10.1093/oso/9780198789406.003.0005.

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The sequencing of entire genomes of microbes grown in pure cultures is now routine. The sequence data from cultivated microbes have provided insights into these microbes and their uncultivated relatives. Sequencing studies have found that bacterial genomes range from 0.18 Mb (intracellular symbiont) to 13 Mb (a soil bacterium), whereas genomes of eukaryotes are much bigger. Genomes from eukaryotes and prokaryotes are organized quite differently. While bacteria and their small genomes often grow faster than eukaryotes, there is no correlation between genome size and growth rates among the bacte
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Unlocking the Potential of Carbonaceous Resource Recovery from the Arrested Anaerobic Digestion of Food Waste: Engineering Design and Meta-omics Analysis. [publisher not identified], 2022.

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Integrating Omics Data. Cambridge University Press, 2015.

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Tseng, George, Debashis Ghosh, and Xianghong Jasmine Zhou. Integrating Omics Data. Cambridge University Press, 2015.

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Tseng, George C., Debashis Ghosh, and Xianghong Jasmine Zhou. Integrating Omics Data. Cambridge University Press, 2015.

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Book chapters on the topic "Meta-omics"

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Srivastava, Nidhi, and Indira P. Sarethy. "Rhizosphere Fingerprints: Novel Biomolecules Via Meta-Omics Technology." In Omics Science for Rhizosphere Biology. Springer Singapore, 2021. http://dx.doi.org/10.1007/978-981-16-0889-6_10.

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Alisoltani, Arghavan, Akebe Luther King Abia, and Linda Bester. "Shared Microbiome in Different Ecosystems: A Meta-Omics Perspective." In Microbial Genomics in Sustainable Agroecosystems. Springer Singapore, 2019. http://dx.doi.org/10.1007/978-981-32-9860-6_1.

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Ponnusamy, Mohanraj, Chinnan Velmurugan Karthikeyan, and Babu Ramanathan. "Meta-omics in Detection of Silkworm Gut Microbiome Diversity." In Microbial Genomics in Sustainable Agroecosystems. Springer Singapore, 2019. http://dx.doi.org/10.1007/978-981-32-9860-6_17.

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Panicker, Suneeta. "Meta-Omics to Understand the Behavior of Multispecies Microbial Communities." In Progress in Soil Science. Springer Nature Switzerland, 2024. http://dx.doi.org/10.1007/978-3-031-71487-0_13.

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Gahoi, Shachi, and Budhayash Gautam. "Exploring RNAi Mechanisms: Computational Approaches and Meta-Analysis in OMICS Studies." In Non-coding RNAs for Crop Improvement. Springer Nature Singapore, 2025. https://doi.org/10.1007/978-981-97-7213-1_7.

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Wani, Atif Khurshid, Daljeet Singh Dhanjal, Nahid Akhtar, Chirag Chopra, Abhineet Goyal, and Reena Singh. "Role of Genomics, Metagenomics, and Other Meta-Omics Approaches for Expunging the Environmental Contaminants by Bioremediation." In Omics for Environmental Engineering and Microbiology Systems. CRC Press, 2022. http://dx.doi.org/10.1201/9781003247883-2.

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Hassan, Muhammad Jawad, Muhammad Faheem, and Sabba Mehmood. "Emerging OMICS and Genetic Disease." In Omics Technologies for Clinical Diagnosis and Gene Therapy: Medical Applications in Human Genetics. BENTHAM SCIENCE PUBLISHERS, 2022. http://dx.doi.org/10.2174/9789815079517122010010.

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Multiomics also described as integrative omics is an analytical approach that combines data from multiple ‘omics’ approaches including genomics, transcriptomics, proteomics, metabolomics, epigenomics, metagenomics and Meta transcriptomics to answer the complex biological processes involved in rare genetic disorders. This omics approach is particularly helpful since it identifies biomarkers of disease progression and treatment progress by collective characterization and quantification of pools of biological molecules within and among the various types of cells to better understand and categoriz
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Tripathi, Lokesh Kumar, and Tapan Kumar Nailwal. "Metagenomics: Applications of functional and structural approaches and meta-omics." In Recent Advancements in Microbial Diversity. Elsevier, 2020. http://dx.doi.org/10.1016/b978-0-12-821265-3.00020-7.

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Tilgam, Jyotsana, Deepanshu Jayaswal, Mushineni Ashajyothi, Jyoti Prakash Singh, Adarsh Kumar, and Hillol Chakdar. "Meta-omics approaches for understanding and exploring soil microbial communities for sustainable agriculture." In Applications of Metagenomics. Elsevier, 2024. http://dx.doi.org/10.1016/b978-0-323-98394-5.00013-4.

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Margret, Arockiya Anita, S. Aishwarya, A. Arun, and R. Jasmine. "Interface of ‘meta-omics’ in gut biome remediation to unravel the complications of environmental pollutants." In Metagenomics to Bioremediation. Elsevier, 2023. http://dx.doi.org/10.1016/b978-0-323-96113-4.00024-x.

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Conference papers on the topic "Meta-omics"

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Bernier-Latmani, Rizlan, Karen Viacava, Jiangtao Qiao, et al. "Identification of active arsenic-methylating organisms in anaerobic soil enrichment cultures using meta-omics." In Goldschmidt2021. European Association of Geochemistry, 2021. http://dx.doi.org/10.7185/gold2021.7580.

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Gui, H., D. Hu, P. Sleiman, et al. "Whole-Genome Sequencing Based Meta-Analysis of Asthma Exacerbations from the Asthma Translational Genomic Collaborative (ATGC) of the Trans-Omics for Precision Medicine (TOPMed) Program." In American Thoracic Society 2021 International Conference, May 14-19, 2021 - San Diego, CA. American Thoracic Society, 2021. http://dx.doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a1382.

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