KEGG: Kyoto Encyclopedia of Genes and Genomes

Cited by (442)

Items 301–400 of 442

1. Sources of variation in baseline gene expression levels from toxicogenomics study control animals across multiple laboratories
   Boedigheimer, Michael J, Wolfinger, Russell D, Bass, Michael B, Bushel, Pierre R, Chou, Jeff W, Cooper, Matthew, Corton, J Christopher, Fostel, Jennifer, Hester, Susan, Lee, Janice S et al. · 2008 · BMC Genomics
2. A Strategy for Discovery of Endocrine Interactions with Application to Whole-Body Metabolism
   Seldin, Marcus M., Koplev, Simon, Rajbhandari, Prashant, Vergnes, Laurent, Rosenberg, Gregory M., Meng, Yonghong, Pan, Calvin, Phuong, Thuy M.N., Gharakhanian, Raffi, Che, Nam et al. · 2018 · Cell Metabolism
3. Functional gene groups are concentrated within chromosomes, among chromosomes and in the nuclear space of the human genome
   Thévenin, Annelyse, Ein-Dor, Liat, Ozery-Flato, Michal, Shamir, Ron · 2014 · Nucleic Acids Research
4. Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
   Calabrese, Francesco Maria, Ameur, Hana, Nikoloudaki, Olga, Celano, Giuseppe, Vacca, Mirco, Junior, Wilson JFLemos, Manzari, Caterina, Vertè, Fabienne, Di Cagno, Raffaella, Pesole, Graziano et al. · 2022 · Microbiome
5. Mapping posttranscriptional regulation of the human glycome uncovers microRNA defining the glycocode
   Agrawal, Praveen, Kurcon, Tomasz, Pilobello, Kanoelani T., Rakus, John F., Koppolu, Sujeethraj, Liu, Zhongyin, Batista, Bianca S., Eng, William S., Hsu, Ku-Lung, Liang, Yaxuan et al. · 2014 · Proceedings of the National Academy of Sciences
6. Blood‐based gene‐expression predictors of PTSD risk and resilience among deployed marines: A pilot study
   Glatt, Stephen J., Tylee, Daniel S., Chandler, Sharon D., Pazol, Joel, Nievergelt, Caroline M., Woelk, Christopher H., Baker, Dewleen G., Lohr, James B., Kremen, William S., Litz, Brett T. et al. · 2013 · American Journal of Medical Genetics Part B: Neuropsychiatric Genetics
7. Cancer cells depend on environmental lipids for proliferation when electron acceptors are limited
   Li, Zhaoqi, Ji, Brian W., Dixit, Purushottam D., Tchourine, Konstantine, Lien, Evan C., Hosios, Aaron M., Abbott, Keene L., Rutter, Justine C., Westermark, Anna M., Gorodetsky, Elizabeth F. et al. · 2022 · Nature Metabolism
8. Proteomic characterization of gastric cancer response to chemotherapy and targeted therapy reveals potential therapeutic strategies
   Li, Yan, Xu, Chen, Wang, Bing, Xu, Fujiang, Ma, Fahan, Qu, Yuanyuan, Jiang, Dongxian, Li, Kai, Feng, Jinwen, Tian, Sha et al. · 2022 · Nature Communications
9. Model identification of signal transduction networks from data using a state regulator problem.
   Gadkar, K.G., Doyle III, F.J., Varner, J. · 2005 · Systems Biology
10. Composite genome sequence of Bacillus clausii, a probiotic commercially available as Enterogermina®, and insights into its probiotic properties
    Khatri, Indu, Sharma, Gaurav, Subramanian, Srikrishna · 2019 · BMC Microbiology
11. LRRK2 mediates microglial neurotoxicity via NFATc2 in rodent models of synucleinopathies
    Kim, Changyoun, Beilina, Alexandria, Smith, Nathan, Li, Yan, Kim, Minhyung, Kumaran, Ravindran, Kaganovich, Alice, Mamais, Adamantios, Adame, Anthony, Iba, Michiyo et al. · 2020 · Science Translational Medicine
12. Microbiota-Derived Short-Chain Fatty Acids Promote LAMTOR2-Mediated Immune Responses in Macrophages
    Wu, Ting, Li, Hongru, Su, Cong, Xu, Fangming, Yang, Guangwei, Sun, Kaili, Xu, Mengran, Lv, Na, Meng, Bao, Liu, Yanyan et al. · 2020 · mSystems
13. De novo mutations from whole exome sequencing in neurodevelopmental and psychiatric disorders: From discovery to application
    Wang, Weidi, Corominas, Roser, Lin, Guan Ning · 2019 · Frontiers in Genetics
14. Mechanistic Target of Rapamycin Complex 1 Promotes the Expression of Genes Encoding Electron Transport Chain Proteins and Stimulates Oxidative Phosphorylation in Primary Human Trophoblast Cells by Regulating Mitochondrial Biogenesis
    Rosario, Fredrick J., Gupta, Madhulika B., Myatt, Leslie, Powell, Theresa L., Glenn, Jeremy P., Cox, Laura, Jansson, Thomas · 2019 · Scientific Reports
15. Consistency, comprehensiveness, and compatibility of pathway databases
    Soh, Donny, Dong, Difeng, Guo, Yike, Wong, Limsoon · 2010 · BMC Bioinformatics
16. Coordinate changes in histone modifications, mRNA levels, and metabolite profiles in clonal INS-1 832/13 β-cells accompany functional adaptations to lipotoxicity
    Malmgren, Siri, Spégel, Peter, Danielsson, Anders P.H., Nagorny, Cecilia L., Andersson, Lotta E., Nitert, Marloes Dekker, Ridderstråle, Martin, Mulder, Hindrik, Ling, Charlotte · 2013 · Journal of Biological Chemistry
17. Metabolic switching of human myotubes is improved by n-3 fatty acids
    Hessvik, N.P., Bakke, S.S., Fredriksson, K., Boekschoten, M.V., Fj⊘rkenstad, A., Koster, G., Hesselink, M.K., Kersten, S., Kase, E.T., Rustan, A.C. et al. · 2010 · Journal of Lipid Research
18. Parallel social information processing circuits are differentially impacted in autism
    Lewis, Eastman M., Stein-O’Brien, Genevieve L., Patino, Alejandra V., Nardou, Romain, Grossman, Cooper D., Brown, Matthew, Bangamwabo, Bidii, Ndiaye, Ndeye, Giovinazzo, Daniel, Dardani, Ian et al. · 2020 · Neuron
19. Pathway-Guided Deep Neural Network toward Interpretable and Predictive Modeling of Drug Sensitivity
    Deng, Lei, Cai, Yideng, Zhang, Wenhao, Yang, Wenyi, Gao, Bo, Liu, Hui · 2020 · Journal of Chemical Information and Modeling
20. Tet2 deficiency drives liver microbiome dysbiosis triggering Tc1 cell autoimmune hepatitis
    Pandey, Surya P., Bender, Mackenzie J., McPherson, Alex C., Phelps, Catherine M., Sanchez, Luzmariel Medina, Rana, Mohit, Hedden, Lee, Sangani, Kishan A., Chen, Li, Shapira, Jake H. et al. · 2022 · Cell Host & Microbe
21. FastProject: a tool for low-dimensional analysis of single-cell RNA-Seq data
    DeTomaso, David, Yosef, Nir · 2016 · BMC Bioinformatics
22. An Untargeted Metabolomics Approach to Characterize Short-Term and Long-Term Metabolic Changes after Bariatric Surgery
    Narath, Sophie H., Mautner, Selma I., Svehlikova, Eva, Schultes, Bernd, Pieber, Thomas R., Sinner, Frank M., Gander, Edgar, Libiseller, Gunnar, Schimek, Michael G., Sourij, Harald et al. · 2016 · PLOS ONE
23. A strategy for multimodal data integration: application to biomarkers identification in spinocerebellar ataxia
    Garali, Imene, Adanyeguh, Isaac M, Ichou, Farid, Perlbarg, Vincent, Seyer, Alexandre, Colsch, Benoit, Moszer, Ivan, Guillemot, Vincent, Durr, Alexandra, Mochel, Fanny et al. · 2018 · Briefings in Bioinformatics
24. Non-Invasive Tumor Genotyping Using Radiogenomic Biomarkers, a Systematic Review and Oncology-Wide Pathway Analysis
    Jansen, Robin W., van Amstel, Paul, Martens, Roland M., Kooi, Irsan E., Wesseling, Pieter, de Langen, Adrianus J., Menke-Van der Houven van Oordt, Catharina W., Jansen, Bernard H.E., Moll, Annette C., Dorsman, Josephine C. et al. · 2018 · Oncotarget
25. Footprint-based functional analysis of multiomic data
    Dugourd, Aurelien, Saez-Rodriguez, Julio · 2019 · Current Opinion in Systems Biology
26. Semantic Web meets Integrative Biology: a survey
    Chen, H., Yu, T., Chen, J. Y. · 2013 · Briefings in Bioinformatics
27. Musclin, A Myokine Induced by Aerobic Exercise, Retards Muscle Atrophy During Cancer Cachexia in Mice
    Re Cecconi, Andrea D., Forti, Mara, Chiappa, Michela, Zhu, Zhiyong, Zingman, Leonid V., Cervo, Luigi, Beltrame, Luca, Marchini, Sergio, Piccirillo, Rosanna · 2019 · Cancers
28. A common vesicle proteome drives fungal biofilm development
    Zarnowski, Robert, Sanchez, Hiram, Jaromin, Anna, Zarnowska, Urszula J., Nett, Jeniel E., Mitchell, Aaron P., Andes, David · 2022 · Proceedings of the National Academy of Sciences
29. Lysoplex: An efficient toolkit to detect DNA sequence variations in the autophagy-lysosomal pathway
    Di Fruscio, Giuseppina, Schulz, Angela, De Cegli, Rossella, Savarese, Marco, Mutarelli, Margherita, Parenti, Giancarlo, Banfi, Sandro, Braulke, Thomas, Nigro, Vincenzo, Ballabio, Andrea · 2015 · Autophagy
30. MicroRNome analysis generates a blood-based signature for endometriosis
    Bendifallah, Sofiane, Dabi, Yohann, Suisse, Stéphane, Jornea, Ludmila, Bouteiller, Delphine, Touboul, Cyril, Puchar, Anne, Daraï, Emile · 2022 · Scientific Reports
31. Selective deletion of MyD88 signaling in α-SMA positive cells ameliorates experimental intestinal fibrosis via post-transcriptional regulation
    Zhao, Shuai, Dejanovic, Dina, Yao, Peng, Bhilocha, Shardul, Sadler, Tammy, Schirbel, Anja, West, Gail, Doyon, Genevieve, Lopez, Rocio, Mao, Ren et al. · 2020 · Mucosal Immunology
32. Heat and drought induced transcriptomic changes in barley varieties with contrasting stress response phenotypes
    Mahalingam, Ramamurthy, Duhan, Naveen, Kaundal, Rakesh, Smertenko, Andrei, Nazarov, Taras, Bregitzer, Phil · 2022 · Frontiers in Plant Science
33. Exome arrays capture polygenic rare variant contributions to schizophrenia
    Richards, A. L., Leonenko, G., Walters, J. T., Kavanagh, D. H., Rees, E. G., Evans, A., Chambert, K. D., Moran, J. L., Goldstein, J., Neale, B. M. et al. · 2016 · Human Molecular Genetics
34. Environmental intervention as a therapy for adverse programming by ancestral stress
    McCreary, J. Keiko, Erickson, Zachary T., Hao, YongXin, Ilnytskyy, Yaroslav, Kovalchuk, Igor, Metz, Gerlinde A. S. · 2016 · Scientific Reports
35. Epigenomic profiling of men exposed to early-life stress reveals DNA methylation differences in association with current mental state
    Khulan, B, Manning, J R, Dunbar, D R, Seckl, J R, Raikkonen, K, Eriksson, J G, Drake, A J · 2014 · Translational Psychiatry
36. A cooperative strategy for parameter estimation in large scale systems biology models
    Villaverde, Alejandro F, Egea, Jose A, Banga, Julio R · 2012 · BMC Systems Biology
37. Genetic analysis of biological pathway data through genomic randomization
    Yaspan, Brian L., Bush, William S., Torstenson, Eric S., Ma, Deqiong, Pericak-Vance, Margaret A., Ritchie, Marylyn D., Sutcliffe, James S., Haines, Jonathan L. · 2011 · Human Genetics
38. Evolutionary dynamics of the chromatophore genome in three photosynthetic Paulinella species
    Lhee, Duckhyun, Ha, Ji-San, Kim, Sunju, Park, Myung Gil, Bhattacharya, Debashish, Yoon, Hwan Su · 2019 · Scientific Reports
39. Quantitative proteomics of a B₁₂‐dependent alga grown in coculture with bacteria reveals metabolic tradeoffs required for mutualism
    Helliwell, Katherine E., Pandhal, Jagroop, Cooper, Matthew B., Longworth, Joseph, Kudahl, Ulrich Johan, Russo, David A., Tomsett, Eleanor V., Bunbury, Freddy, Salmon, Deborah L., Smirnoff, Nicholas et al. · 2018 · New Phytologist
40. AlgaePath: comprehensive analysis of metabolic pathways using transcript abundance data from next-generation sequencing in green algae
    Zheng, Han-Qin, Chiang-Hsieh, Yi-Fan, Chien, Chia-Hung, Hsu, Bo-Kai Justin, Liu, Tsung-Lin, Chen, Ching-Nen Nathan, Chang, Wen-Chi · 2014 · BMC Genomics
41. Breaking the paradigm: Dr Insight empowers signature-free, enhanced drug repurposing
    Chan, Jinyan, Wang, Xuan, Turner, Jacob A, Baldwin, Nicole E, Gu, Jinghua · 2019 · Bioinformatics
42. Gut microbial metabolites in Parkinson's disease: Association with lifestyle, disease characteristics, and treatment status
    Voigt, Robin M., Wang, Zeneng, Brown, J. Mark, Engen, Phillip A., Naqib, Ankur, Goetz, Christopher G., Hall, Deborah A., Metman, Leo Verhagen, Shaikh, Maliha, Forsyth, Christopher B. et al. · 2022 · Neurobiology of Disease
43. Mitochondrial fat oxidation is essential for lipid-induced inflammation in skeletal muscle in mice
    Warfel, Jaycob D., Bermudez, Estrellita M., Mendoza, Tamra M., Ghosh, Sujoy, Zhang, Jingying, Elks, Carrie M., Mynatt, Randall, Vandanmagsar, Bolormaa · 2016 · Scientific Reports
44. A functional selection model explains evolutionary robustness despite plasticity in regulatory networks
    Habib, Naomi, Wapinski, Ilan, Margalit, Hanah, Regev, Aviv, Friedman, Nir · 2012 · Molecular Systems Biology
45. Group additive regression models for genomic data analysis
    Luan, Y., Li, H. · 2008 · Biostatistics
46. Sex-Specific Cross Tissue Meta-Analysis Identifies Immune Dysregulation in Women With Alzheimer’s Disease
    Paranjpe, Manish D., Belonwu, Stella, Wang, Jason K., Oskotsky, Tomiko, Gupta, Aarzu, Taubes, Alice, Zalocusky, Kelly A., Paranjpe, Ishan, Glicksberg, Benjamin S., Huang, Yadong et al. · 2021 · Frontiers in Aging Neuroscience
47. Genome-wide DNA methylation and gene expression patterns reflect genetic ancestry and environmental differences across the Indonesian archipelago
    Natri, Heini M., Bobowik, Katalina S., Kusuma, Pradiptajati, Crenna Darusallam, Chelzie, Jacobs, Guy S., Hudjashov, Georgi, Lansing, J. Stephen, Sudoyo, Herawati, Banovich, Nicholas E., Cox, Murray P. et al. · 2020 · PLoS Genetics
48. Exploiting Conformational Ensembles in Modeling Protein–Protein Interactions on the Proteome Scale
    Kuzu, Guray, Gursoy, Attila, Nussinov, Ruth, Keskin, Ozlem · 2013 · Journal of Proteome Research
49. Multi-omics integration strategies for animal epigenetic studies — A review
    Kim, Do-Young, Kim, Jun-Mo · 2021 · Animal Bioscience
50. Gene expression alterations in bipolar disorder postmortem brains
    Chen, Haiming, Wang, Nulang, Zhao, Xin, Ross, Christopher A, O’Shea, K Sue, McInnis, Melvin G · 2013 · Bipolar Disorders
51. Diet-induced obesity, energy metabolism and gut microbiota in C57BL/6J mice fed Western diets based on lean seafood or lean meat mixtures
    Holm, Jacob Bak, Rønnevik, Alexander, Tastesen, Hanne Sørup, Fjære, Even, Fauske, Kristin Røen, Liisberg, Ulrike, Madsen, Lise, Kristiansen, Karsten, Liaset, Bjørn · 2016 · The Journal of Nutritional Biochemistry
52. Distinct gene clusters drive formation of ferrosome organelles in bacteria
    Grant, Carly R., Amor, Matthieu, Trujillo, Hector A., Krishnapura, Sunaya, Iavarone, Anthony T., Komeili, Arash · 2022 · Nature
53. Mycobacteriaceae Mineralizes Micropolyethylene in Riverine Ecosystems.
    Sun, Xiaoxu, Chen, Zhenyu, Kong, Tianle, Chen, Zheng, Dong, Yiran, Kolton, Max, Cao, Zhiguo, Zhang, Xin, Zhang, Haihan, Liu, Guoqiang et al. · 2022 · Environmental Science & Technology
54. Dysregulated FXR-FGF19 signaling and choline metabolism are associated with gut dysbiosis and hyperplasia in a novel pig model of pediatric NASH
    Hernandez, Gabriella V., Smith, Victoria A., Melnyk, Megan, Burd, Matthew A., Sprayberry, Kimberly A., Edwards, Mark S., Peterson, Daniel G., Bennet, Darin C., Fanter, Rob K., Columbus, Daniel A. et al. · 2020 · American Journal of Physiology-Gastrointestinal and Liver Physiology
55. Transcriptomic Insights into the Growth Phase- and Sugar-Associated Changes in the Exopolysaccharide Production of a High EPS-Producing Streptococcus thermophilus ASCC 1275
    Padmanabhan, Aparna, Tong, Ying, Wu, Qinglong, Zhang, Jiangwen, Shah, Nagendra P. · 2018 · Frontiers in Microbiology
56. Redundancy Control in Pathway Databases (ReCiPa): An Application for Improving Gene-Set Enrichment Analysis in Omics Studies and “Big Data” Biology
    Vivar, Juan C., Pemu, Priscilla, McPherson, Ruth, Ghosh, Sujoy · 2013 · OMICS: A Journal of Integrative Biology
57. The evolution and spread of sulfur cycling enzymes reflect the redox state of the early Earth
    Mateos, Katherine, Chappell, Garrett, Klos, Aya, Le, Bryan, Boden, Joanne, Stüeken, Eva, Anderson, Rika · 2023 · Science Advances
58. Single-cell transcriptome and cell type-specific molecular pathways of human non-alcoholic steatohepatitis
    Fred, Rikard G., Steen Pedersen, Julie, Thompson, Jonatan J., Lee, Julie, Timshel, Pascal N., Stender, Stefan, Opseth Rygg, Marte, Gluud, Lise Lotte, Bjerregaard Kristiansen, Viggo, Bendtsen, Flemming et al. · 2022 · Scientific Reports
59. Hal Is a Bacillus anthracis heme acquisition protein
    Balderas, Miriam A., Nobles, Christopher L., Honsa, Erin S., Alicki, Embriette R., Maresso, Anthony W. · 2012 · Journal of Bacteriology
60. <i>PSMD12</i> haploinsufficiency in a neurodevelopmental disorder with autistic features
    Khalil, Raida, Kenny, Connor, Hill, R. Sean, Mochida, Ganeshwaran H., Nasir, Ramzi, Partlow, Jennifer N., Barry, Brenda J., Al‐Saffar, Muna, Egan, Chloe, Stevens, Christine R. et al. · 2018 · American Journal of Medical Genetics Part B: Neuropsychiatric Genetics
61. Metabolomic analysis of dynamic response and drug resistance of gastric cancer cells to 5-fluorouracil
    SASADA, SHINSUKE, MIYATA, YOSHIHIRO, TSUTANI, YASUHIRO, TSUYAMA, NAOHIRO, MASUJIMA, TSUTOMU, HIHARA, JUN, OKADA, MORIHITO · 2013 · Oncology Reports
62. Enhanced cerebellar myelination with concomitant iron elevation and ultrastructural irregularities following prenatal exposure to ambient particulate matter in the mouse
    Klocke, Carolyn, Sherina, Valeriia, Graham, Uschi M., Gunderson, Jakob, Allen, Joshua L., Sobolewski, Marissa, Blum, Jason L., Zelikoff, Judith T., Cory-Slechta, Deborah A. · 2018 · Inhalation Toxicology
63. Tannin supplementation modulates the composition and function of ruminal microbiome in lambs infected with gastrointestinal nematodes
    Corrêa, Patricia Spoto, Mendes, Lucas William, Lemos, Leandro Nascimento, Crouzoulon, Pierre, Niderkorn, Vincent, Hoste, Hervé, Costa-Júnior, Livio Martins, Tsai, Siu Mui, Faciola, Antonio P, Abdalla, Adibe Luiz et al. · 2020 · FEMS Microbiology Ecology
64. Combined chemosensitivity and chromatin profiling prioritizes drug combinations in CLL
    Schmidl, Christian, Vladimer, Gregory I., Rendeiro, André F., Schnabl, Susanne, Krausgruber, Thomas, Taubert, Christina, Krall, Nikolaus, Pemovska, Tea, Araghi, Mohammad, Snijder, Berend et al. · 2019 · Nature Chemical Biology
65. Functional contribution of the intestinal microbiome in autism spectrum disorder, attention deficit hyperactivity disorder, and Rett syndrome: a systematic review of pediatric and adult studies
    Caputi, Valentina, Hill, Lee, Figueiredo, Melanie, Popov, Jelena, Hartung, Emily, Margolis, Kara Gross, Baskaran, Kanish, Joharapurkar, Papiha, Moshkovich, Michal, Pai, Nikhil · 2024 · Frontiers in Neuroscience
66. Multiomics Implicate Gut Microbiota in Altered Lipid and Energy Metabolism in Parkinson’s Disease
    Pereira, Pedro A. B., Trivedi, Drupad K., Silverman, Justin, Duru, Ilhan Cem, Paulin, Lars, Auvinen, Petri, Scheperjans, Filip · 2022 · npj Parkinson s Disease
67. Spatiotemporal localization of proteins in mycobacteria
    Zhu, Junhao, Wolf, Ian D., Dulberger, Charles L., Won, Harim I., Kester, Jemila C., Judd, Julius A., Wirth, Samantha E., Clark, Ryan R., Li, Yawei, Luo, Yuan et al. · 2021 · Cell Reports
68. Construction of a Genome-Scale Metabolic Model of Arthrospira platensis NIES-39 and Metabolic Design for Cyanobacterial Bioproduction
    Yoshikawa, Katsunori, Aikawa, Shimpei, Kojima, Yuta, Toya, Yoshihiro, Furusawa, Chikara, Kondo, Akihiko, Shimizu, Hiroshi · 2015 · PLOS ONE
69. Differential Gene Expression in Liver Tissues of Streptozotocin-Induced Diabetic Rats in Response to Resveratrol Treatment
    Sadi, Gökhan, Baloğlu, Mehmet Cengiz, Pektaş, Mehmet Bilgehan · 2015 · PLOS ONE
70. 14q32 and let-7 microRNAs regulate transcriptional networks in fetal and adult human erythroblasts
    Lessard, Samuel, Beaudoin, Mélissa, Orkin, Stuart H, Bauer, Daniel E, Lettre, Guillaume · 2018 · Human Molecular Genetics
71. Interactions of the hindgut mucosa-associated microbiome with its host regulate shedding of Escherichia coli O157:H7 by cattle
    Wang, Ou, McAllister, Tim A., Plastow, Graham, Stanford, Kim, Selinger, Brent, Guan, Le Luo · 2018 · Applied and Environmental Microbiology
72. Conservation Genomics in a Changing Arctic
    Colella, Jocelyn P., Talbot, Sandra L., Brochmann, Christian, Taylor, Eric B., Hoberg, Eric P., Cook, Joseph A. · 2020 · Trends in Ecology &amp; Evolution
73. Safety and functional enrichment of gut microbiome in healthy subjects consuming a multi-strain fermented milk product: a randomised controlled trial
    Alvarez, Anne-Sophie, Tap, Julien, Chambaud, Isabelle, Cools-Portier, Stéphanie, Quinquis, Laurent, Bourlioux, Pierre, Marteau, Philippe, Guillemard, Eric, Schrezenmeir, Juergen, Derrien, Muriel · 2020 · Scientific Reports
74. Cold stress tolerance of the intertidal red alga Neoporphyra haitanensis
    Zhu, Shanshan, Gu, Denghui, Lu, Caiping, Zhang, Caixia, Chen, Juanjuan, Yang, Rui, Luo, Qijun, Wang, Tiegan, Zhang, Peng, Chen, Haimin · 2022 · BMC Plant Biology
75. Prokaryotic and viral genomes recovered from 787 Japanese gut metagenomes revealed microbial features linked to diets, populations, and diseases
    Tomofuji, Yoshihiko, Kishikawa, Toshihiro, Maeda, Yuichi, Ogawa, Kotaro, Otake-Kasamoto, Yuriko, Kawabata, Shuhei, Nii, Takuro, Okuno, Tatsusada, Oguro-Igashira, Eri, Kinoshita, Makoto et al. · 2022 · Cell Genomics
76. Transcriptomic clues to understand the growth of Lactobacillus rhamnosus in cheese
    Lazzi, Camilla, Turroni, Silvia, Mancini, Andrea, Sgarbi, Elisa, Neviani, Erasmo, Brigidi, Patrizia, Gatti, Monica · 2014 · BMC Microbiology
77. Single-Cell Transcriptomics Reveals Heterogeneity and Drug Response of Human Colorectal Cancer Organoids
    Chen, Kai-Yuan, Srinivasan, Tara, Lin, Christopher, Tung, Kuei-Ling, Gao, Ziyang, Hsu, David S., Lipkin, Steven M., Shen, Xiling · 2018 · 2018 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC)
78. Influence of microbiota-associated metabolic reprogramming on clinical outcome in patients with melanoma from the randomized adjuvant dendritic cell-based MIND-DC trial
    Alves Costa Silva, Carolina, Piccinno, Gianmarco, Suissa, Déborah, Bourgin, Mélanie, Schreibelt, Gerty, Durand, Sylvère, Birebent, Roxanne, Fidelle, Marine, Sow, Cissé, Aprahamian, Fanny et al. · 2024 · Nature Communications
79. A genome-scale database and reconstruction of Caenorhabditis elegans metabolism
    Gebauer, Juliane, Gentsch, Christoph, Mansfeld, Johannes, Schmeißer, Kathrin, Waschina, Silvio, Brandes, Susanne, Klimmasch, Lukas, Zamboni, Nicola, Zarse, Kim, Schuster, Stefan et al. · 2016 · Cell Systems
80. Prioritizing cancer-related key miRNA-target interactions by integrative genomics
    Xiao, Yun, Guan, Jinxia, Ping, Yanyan, Xu, Chaohan, Huang, Teng, Zhao, Hongying, Fan, Huihui, Li, Yiqun, Lv, Yanling, Zhao, Tingting et al. · 2012 · Nucleic Acids Research
81. The Intestinal Microbiome in Nonalcoholic Fatty Liver Disease
    Puri, Puneet, Sanyal, Arun J. · 2018 · Clinics in Liver Disease
82. PAGER: constructing PAGs and new PAG-PAG relationships for network biology
    Yue, Zongliang, Kshirsagar, Madhura M., Nguyen, Thanh, Suphavilai, Chayaporn, Neylon, Michael T., Zhu, Liugen, Ratliff, Timothy, Chen, Jake Y. · 2015 · Bioinformatics
83. Advanced stoichiometric analysis of metabolic networks of mammalian systems
    Orman, Mehmet A., Berthiaume, Francois, Androulakis, Ioannis P., Ierapetritou, Marianthi G. · 2011 · Critical Reviews™ in Biomedical Engineering
84. Berberine-microbiota interplay: orchestrating gut health through modulation of the gut microbiota and metabolic transformation into bioactive metabolites
    Dehau, Tessa, Cherlet, Marc, Croubels, Siska, Van De Vliet, Michiel, Goossens, Evy, Van Immerseel, Filip · 2023 · Frontiers in Pharmacology
85. Exome Sequencing Identified NRG3 as a Novel Susceptible Gene of Hirschsprung’s Disease in a Chinese Population
    Yang, Jun, Duan, Shengyu, Zhong, Rong, Yin, Jieyun, Pu, Jiarui, Ke, Juntao, Lu, Xuzai, Zou, Li, Zhang, Hongmei, Zhu, Zhidong et al. · 2013 · Molecular Neurobiology
86. Identification of MicroRNAs as Potential Biomarkers in Ovarian Endometriosis
    Gu, Cheng-lei, Zhang, Zhe, Fan, Wen-sheng, Li, Li-an, Ye, Ming-xia, Zhang, Qian, Zhang, Ni-na, Li, Zhen, Meng, Yuan-guang · 2020 · Reproductive Sciences
87. Sniffing out the hypoxia volatile metabolic signature of <i>Aspergillus fumigatus</i>
    Rees, Christiaan A, Stefanuto, Pierre-Hugues, Beattie, Sarah R, Bultman, Katherine M, Cramer, Robert A, Hill, Jane E · 2017 · Journal of Breath Research
88. libAnnotationSBML: a library for exploiting SBML annotations
    Swainston, Neil, Mendes, Pedro · 2009 · Bioinformatics
89. SDGCCA: Supervised Deep Generalized Canonical Correlation Analysis for Multi-Omics Integration
    Moon, Sehwan, Hwang, Jeongyoung, Lee, Hyunju · 2022 · Journal of Computational Biology
90. Comparative and integrative metabolomics reveal that S-nitrosation inhibits physiologically relevant metabolic enzymes
    Bruegger, Joel J., Smith, Brian C., Wynia-Smith, Sarah L., Marletta, Michael A. · 2018 · Journal of Biological Chemistry
91. A transcriptome-based human universal senescence index (hUSI) robustly predicts cellular senescence under various conditions
    Wang, Jing, Zhou, Xiaolan, Yu, Peng, Yao, Jun, Guo, Pengfei, Xu, Qiushi, Zhao, Yuqi, Wang, Guanlong, Li, Qianru, Zhu, Xiaofeng et al. · 2025 · Nature Aging
92. Identifying miRNA-mRNA regulation network of major depressive disorder in ovarian cancer patients.
    Wu, Chengjiang, Zhao, Yangjing, Liu, Yuefang, Yang, Xinxin, Yan, Meina, Min, Yujiao, Pan, Zihui, Qiu, Shali, Xia, Sheng, Yu, Jun et al. · 2018 · Oncology Letters
93. Mathiomica: an integrative platform for dynamic omics
    Mias, George I., Yusufaly, Tahir, Roushangar, Raeuf, Brooks, Lavida R. K., Singh, Vikas V., Christou, Christina · 2016 · Scientific Reports
94. Systematic permutation testing in GWAS pathway analyses: identification of genetic networks in dilated cardiomyopathy and ulcerative colitis
    Backes, Christina, Rühle, Frank, Stoll, Monika, Haas, Jan, Frese, Karen, Franke, Andre, Lieb, Wolfgang, Wichmann, H-Erich, Weis, Tanja, Kloos, Wanda et al. · 2014 · BMC Genomics
95. RNAseq based transcriptomics study of SMCs from carotid atherosclerotic plaque: BMP2 and IDs proteins are crucial regulators of plaque stability
    Alloza, Iraide, Goikuria, Haize, Idro, Juan Luis, Triviño, Juan Carlos, Fernández Velasco, José María, Elizagaray, Elena, García-Barcina, María, Montoya-Murillo, Genoveva, Sarasola, Esther, Vega Manrique, Reyes et al. · 2017 · Scientific Reports
96. Predictive Biomarkers of Age-Related Macular Degeneration Response to Anti-VEGF Treatment
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