Gut microbiota alterations in schizophrenia might be related to stress exposure: Findings from the machine learning analysis

[1]  Yang Cao,et al.  microbiomeMarker: an R/Bioconductor package for microbiome marker identification and visualization , 2022, Bioinform..

[2]  J Zhang,et al.  Characteristics and Mediating Effect of Gut Microbiota With Experience of Childhood Maltreatment in Major Depressive Disorder , 2022, Frontiers in Neuroscience.

[3]  I. Bitter,et al.  Mortality in people with schizophrenia: a systematic review and meta‐analysis of relative risk and aggravating or attenuating factors , 2022, World psychiatry : official journal of the World Psychiatric Association.

[4]  I. Sommer,et al.  Role of the gut microbiome in three major psychiatric disorders , 2022, Psychological Medicine.

[5]  S. Dawson,et al.  A systematic review of gut microbiota composition in observational studies of major depressive disorder, bipolar disorder and schizophrenia , 2022, Molecular Psychiatry.

[6]  Dhwani K. Desai,et al.  Microbiome differential abundance methods produce different results across 38 datasets , 2022, Nature Communications.

[7]  Dhwani K. Desai,et al.  Microbiome differential abundance methods produce different results across 38 datasets , 2022, Nature Communications.

[8]  J. Raes,et al.  Exploring the relationship between the gut microbiome and mental health outcomes in a posttraumatic stress disorder cohort relative to trauma-exposed controls , 2021, European Neuropsychopharmacology.

[9]  M. Shrubsole,et al.  Adverse childhood experiences and adult diet quality , 2021, Journal of nutritional science.

[10]  S. Deoni,et al.  Family SES Is Associated with the Gut Microbiome in Infants and Children , 2021, Microorganisms.

[11]  G. Rousseau,et al.  The Role of Gut Microbiota on Cholesterol Metabolism in Atherosclerosis , 2021, International journal of molecular sciences.

[12]  M. Pruessner,et al.  A meta-analysis of blood and salivary cortisol levels in first-episode psychosis and high-risk individuals , 2021, Frontiers in Neuroendocrinology.

[13]  B. Misiak,et al.  Gut microbiota and microbiome in schizophrenia , 2021, Current opinion in psychiatry.

[14]  Zachary D. Wallen,et al.  Comparison study of differential abundance testing methods using two large Parkinson disease gut microbiome datasets derived from 16S amplicon sequencing , 2021, BMC Bioinformatics.

[15]  J. Jia,et al.  Gut Microbiota Changes and Their Correlation with Cognitive and Neuropsychiatric Symptoms in Alzheimer's Disease. , 2021, Journal of Alzheimer's disease : JAD.

[16]  B. Callahan,et al.  Silva 138.1 prokaryotic SSU taxonomic training data formatted for DADA2 , 2021 .

[17]  P. Falkai,et al.  EPA guidance on assessment of negative symptoms in schizophrenia , 2021, European Psychiatry.

[18]  M. Compton,et al.  What Is Psychosis? , 2021, The First Episode of Psychosis.

[19]  N. Chalasani,et al.  Effects of Rare Microbiome Taxa Filtering on Statistical Analysis , 2021, Frontiers in Microbiology.

[20]  Ali Alishum.  DADA2 formatted 16S rRNA gene sequences for both bacteria & archaea , 2021 .

[21]  Rundk Hwaiz.  Lipid profile , 2020, Definitions.

[22]  B. Callahan.  RDP taxonomic training data formatted for DADA2 (RDP trainset 18/release 11.5) , 2020 .

[23]  P. Roman,et al.  Effects of probiotics supplementation on dementia and cognitive impairment: A systematic review and meta-analysis of preclinical and clinical studies. , 2020 .

[24]  L. Wądołowska,et al.  Adherence to Prudent and Mediterranean Dietary Patterns Is Inversely Associated with Lung Cancer in Moderate But Not Heavy Male Polish Smokers: A Case-Control Study , 2020, Nutrients.

[25]  B. Madison,et al.  On Social Defeat , 2020, Canadian Journal of Philosophy.

[26]  S. Peddada,et al.  Analysis of compositions of microbiomes with bias correction , 2020, Nature Communications.

[27]  B. Stańczykiewicz,et al.  Impaired hormonal regulation of appetite in schizophrenia: A narrative review dissecting intrinsic mechanisms and the effects of antipsychotics , 2020, Psychoneuroendocrinology.

[28]  B. Misiak,et al.  The HPA axis dysregulation in severe mental illness: Can we shift the blame to gut microbiota? , 2020, Progress in Neuro-Psychopharmacology and Biological Psychiatry.

[29]  P. Vandamme,et al.  A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae. , 2020, International journal of systematic and evolutionary microbiology.

[30]  Huijue Jia,et al.  Metagenome-wide association of gut microbiome features for schizophrenia , 2020, Nature Communications.

[31]  Konrad Zych,et al.  Microbiome meta-analysis and cross-disease comparison enabled by the SIAMCAT machine learning toolbox , 2020, Genome Biology.

[32]  R. Frozza,et al.  The Role of Short-Chain Fatty Acids From Gut Microbiota in Gut-Brain Communication , 2020, Frontiers in Endocrinology.

[33]  D. Haller,et al.  Handling of spurious sequences affects the outcome of high-throughput 16S rRNA gene amplicon profiling , 2020, ISME Communications.

[34]  K. Valeš,et al.  The connection between microbiome and schizophrenia , 2019, Neuroscience & Biobehavioral Reviews.

[35]  Huidong Tang,et al.  Mild cognitive impairment has similar alterations as Alzheimer's disease in gut microbiota , 2019, Alzheimer's & Dementia.

[36]  L. Wądołowska,et al.  Reproducibility of A Non-Quantitative Food Frequency Questionnaire (62-Item FFQ-6) and PCA-Driven Dietary Pattern Identification in 13–21-Year-Old Females , 2019, Nutrients.

[37]  Huijue Jia,et al.  Transplantation of microbiota from drug-free patients with schizophrenia causes schizophrenia-like abnormal behaviors and dysregulated kynurenine metabolism in mice , 2019, Molecular Psychiatry.

[38]  M. Leboyer,et al.  Multi-hit early life adversity affects gut microbiota, brain and behavior in a sex-dependent manner , 2019, Brain, Behavior, and Immunity.

[39]  N. Barnard,et al.  The Effects of Vegetarian and Vegan Diets on Gut Microbiota , 2019, Front. Nutr..

[40]  Raphael Gottardo,et al.  Orchestrating single-cell analysis with Bioconductor , 2019, Nature Methods.

[41]  Peng Xie,et al.  The gut microbiome from patients with schizophrenia modulates the glutamate-glutamine-GABA cycle and schizophrenia-relevant behaviors in mice , 2019, Science Advances.

[42]  T. Anand,et al.  Measuring childhood socioeconomic position in health research: Development and validation of childhood socioeconomic position questionnaire using mixed method approach , 2019, Health promotion perspectives.

[43]  Kim-Anh Lê Cao,et al.  DIABLO: an integrative approach for identifying key molecular drivers from multi-omics assays , 2019, Bioinform..

[44]  A. Gasbarrini,et al.  What is the Healthy Gut Microbiota Composition? A Changing Ecosystem across Age, Environment, Diet, and Diseases , 2019, Microorganisms.

[45]  S. Kidd,et al.  Diet and Psychosis: A Scoping Review , 2018, Neuropsychobiology.

[46]  O. Howes,et al.  Is psychosis a multisystem disorder? A meta-review of central nervous system, immune, cardiometabolic, and endocrine alterations in first-episode psychosis and perspective on potential models , 2018, Molecular Psychiatry.

[47]  L. Wądołowska,et al.  Associations of Mediterranean Diet and a Posteriori Derived Dietary Patterns with Breast and Lung Cancer Risk: A Case-Control Study , 2018, Nutrients.

[48]  Sylvia Daunert,et al.  Neurotransmitters: The Critical Modulators Regulating Gut–Brain Axis , 2017, Journal of cellular physiology.

[49]  S. L. Castañón-Alonso,et al.  Probiotic Lactobacillus Strains Stimulate the Inflammatory Response and Activate Human Macrophages , 2017, Journal of immunology research.

[50]  B. Stańczykiewicz,et al.  Lipid profile disturbances in antipsychotic-naive patients with first-episode non-affective psychosis: A systematic review and meta-analysis , 2017, Schizophrenia Research.

[51]  T. Bale,et al.  Stress during pregnancy alters temporal and spatial dynamics of the maternal and offspring microbiome in a sex-specific manner , 2017, Scientific Reports.

[52]  S. Weich,et al.  The association between first-episode psychosis and abnormal glycaemic control: systematic review and meta-analysis. , 2016, The lancet. Psychiatry.

[53]  A. Vita,et al.  Schizophrenia , 2016, The Lancet.

[54]  Paul J. McMurdie,et al.  DADA2: High resolution sample inference from Illumina amplicon data , 2016, Nature Methods.

[55]  Bing Ruan,et al.  Altered fecal microbiota composition in patients with major depressive disorder , 2015, Brain, Behavior, and Immunity.

[56]  T. Bale,et al.  Alterations in the Vaginal Microbiome by Maternal Stress Are Associated With Metabolic Reprogramming of the Offspring Gut and Brain. , 2015, Endocrinology.

[57]  Rob Knight,et al.  Analysis of composition of microbiomes: a novel method for studying microbial composition , 2015, Microbial ecology in health and disease.

[58]  M. Carabotti,et al.  The gut-brain axis: interactions between enteric microbiota, central and enteric nervous systems , 2015, Annals of gastroenterology.

[59]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[60]  Roland Eils,et al.  circlize implements and enhances circular visualization in R , 2014, Bioinform..

[61]  B. Misiak,et al.  Refining and integrating schizophrenia pathophysiology – Relevance of the allostatic load concept , 2014, Neuroscience & Biobehavioral Reviews.

[62]  Jean M. Macklaim,et al.  Unifying the analysis of high-throughput sequencing datasets: characterizing RNA-seq, 16S rRNA gene sequencing and selective growth experiments by compositional data analysis , 2014, Microbiome.

[63]  Charity W. Law,et al.  voom: precision weights unlock linear model analysis tools for RNA-seq read counts , 2014, Genome Biology.

[64]  E. Cantor-Graae,et al.  The Social Defeat Hypothesis of Schizophrenia: an Update , 2013, European Psychiatry.

[65]  Mihai Pop,et al.  Robust methods for differential abundance analysis in marker gene surveys , 2013, Nature Methods.

[66]  Peter Buckley,et al.  Meta-Analysis of Oxidative Stress in Schizophrenia , 2013, Biological Psychiatry.

[67]  M. Dewey,et al.  Life Events and Psychosis: A Review and Meta-analysis , 2013, Schizophrenia bulletin.

[68]  Albert Kriegner,et al.  Monitoring of Technical Variation in Quantitative High-Throughput Datasets , 2013, Cancer informatics.

[69]  J. Read,et al.  Childhood Adversities Increase the Risk of Psychosis: A Meta-analysis of Patient-Control, Prospective- and Cross-sectional Cohort Studies , 2012, Schizophrenia bulletin.

[70]  B. Kirkpatrick,et al.  Meta-Analysis of Cytokine Alterations in Schizophrenia: Clinical Status and Antipsychotic Effects , 2011, Biological Psychiatry.

[71]  C. Huttenhower,et al.  Metagenomic biomarker discovery and explanation , 2011, Genome Biology.

[72]  W. Honer,et al.  The assessment of symptom severity and functional impairment with DSM-IV axis V. , 2011, Psychiatric services.

[73]  Davis J. McCarthy,et al.  edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..

[74]  Leif Edvard Aarø,et al.  Parental education as an indicator of socioeconomic status: Improving quality of data by requiring consistency across measurement occasions , 2009, Scandinavian journal of public health.

[75]  Max Kuhn,et al.  Building Predictive Models in R Using the caret Package , 2008 .

[76]  J. Tiedje,et al.  Naïve Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy , 2007, Applied and Environmental Microbiology.

[77]  Zhiqiang Wang.  Two Postestimation Commands for Assessing Confounding Effects in Epidemiological Studies , 2007 .

[78]  G. Bergonzelli,et al.  Nutritional Approach to Restore Impaired Intestinal Barrier Function and Growth After Neonatal Stress in Rats , 2006, Journal of pediatric gastroenterology and nutrition.

[79]  D. Weinberger,et al.  Remission in schizophrenia: proposed criteria and rationale for consensus. , 2005, The American journal of psychiatry.

[80]  O. Hart,et al.  The psychometric characteristics of the traumatic experiences checklist (TEC): first findings among psychiatric outpatients , 2002 .

[81]  C. Randolph,et al.  The Repeatable Battery for the Assessment of Neuropsychological Status (RBANS): preliminary clinical validity. , 1998, Journal of clinical and experimental neuropsychology.

[82]  J. Addington,et al.  Assessing Depression in Schizophrenia: The Calgary Depression Scale , 1993, British Journal of Psychiatry.

[83]  A. Farmer,et al.  A polydiagnostic application of operational criteria in studies of psychotic illness. Development and reliability of the OPCRIT system. , 1991, Archives of general psychiatry.

[84]  T. Kamarck,et al.  A global measure of perceived stress. , 1983, Journal of health and social behavior.

[85]  G. Dunbar,et al.  The Mini International Neuropsychiatric Interview (MINI). A short diagnostic structured interview: reliability and validity according to the CIDI , 1997, European Psychiatry.

[86]  C. Pomerleau,et al.  Nicotine dependence and the Fagerström Tolerance Questionnaire: a brief review. , 1989, Journal of substance abuse.

[87]  S. Kay,et al.  The positive and negative syndrome scale (PANSS) for schizophrenia. , 1987, Schizophrenia bulletin.