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The Human Virome in Children and its Relationship to Febrile Illness Nature Precedings
Gregory A. Storch; George M. Weinstock; Erica J. Sodergren; Kristine M. Wylie; Max Q. Arens; Richard S. Buller; David M. Jaffe; Jared T. Muenzer.
This study investigates the relationship of viruses to febrile illness in children. Subjects are normal children 2-36 months of age with fever along with normal children of the same age without fever, plus immunocompromised children with fever along with immunocompromised children without fever. Specimens obtained include blood, nasopharyngeal secretions, and feces. Specimens are analyzed using a panel of virus-specific PCR assays and also by high throughput sequencing using 454 and Illumina platforms.
Tipo: Marker Paper / Data Plan Palavras-chave: Biotechnology; Microbiology; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5319/version/1
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Nationwide Study of Breast Cancer Risk Factors in Latinas Nature Precedings
Michael Dean; Latoya Silverton; Julie Sawitzke.
Breast cancer is the most common cancer among American women. Any woman can be affected by breast cancer, with risk for the disease increasing with age. Risk for breast cancer is also exacerbated in women who have certain genetic alterations. Mutations in the BRCA1 and BRCA2 genes predispose women to breast and ovarian cancer, and are increasingly recognized in prostate and pancreatic cancers (1-3). In Caucasian and Asian ethnicities BRCA mutations are associated with basal-type/triple-negative disease. However this association between BRCA gene mutations and basal/triple-negative disease has been understudied in other ethnicities (4-6). The incidence and mortality of breast cancer of Hispanics and Native Americans are lower than other ethnicities;...
Tipo: Marker Paper / Data Plan Palavras-chave: Cancer; Genetics & Genomics; Immunology; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/5691/version/1
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Deciphering the genome structure and paleohistory of _Theobroma cacao_ Nature Precedings
Xavier Argout; Jerome Salse; Jean Marc Aury; Gaetan Droc; Jerome Gouzy; Mathilde Allegre; Cristian Chaparro; Thierry Legavre; Mark Guiltinan; Siela Maximova; Michael Abrouk; Florent Murat; Olivier Fouet; Julie Poulain; Manuel Ruiz; Yolande Roguet; Maguy Rodier-Goud; Jose Fernandes Barbosa-Neto; Francois Sabot; Dave Kudrna; Jetty Siva S. Ammiraju; Stephan C. Schuster; John E. Carlson; Erika Sallet; Schiex T.; Anne Dievart; Melissa Kramer; Laura Gelley; Zi Sh; Aurélie Bérard; Christopher Viot; Michel Boccara; Ange Marie Risterucci; Valentin Guignon; Xavier Sabau; Michael Axtell; Zhaorong Ma; Yufan Zhang; Spencer Brown; Mickael Bourge; Wolfgang Golser; Xiang Song; Didier Clement; Ronan Rivalan; Mathias Tahi; Joseph Moroh Akaza; Bertrand Pitollat; Karina Gramacho; Angélique D’Hont; Dominique Brunel; Diogenes Infante; Ismael Kebe; Pierre Costet; Rod Wing; W. Richard McCombie; Emmanuel Guiderdoni; Francis Quetier; Olivier Panaud; Patrick Wincker; Stephanie Sidibe-Bocs; Claire Lanaud.
We sequenced and assembled the genome of _Theobroma cacao_, an economically important tropical fruit tree crop that is the source of chocolate. The assembly corresponds to 76% of the estimated genome size and contains almost all previously described genes, with 82% of them anchored on the 10 _T. cacao_ chromosomes. Analysis of this sequence information highlighted specific expansion of some gene families during evolution, for example flavonoid-related genes. It also provides a major source of candidate genes for _T. cacao_ disease resistance and quality improvement. Based on the inferred paleohistory of the T. cacao genome, we propose an evolutionary scenario whereby the ten _T. cacao_ chromosomes were shaped from an ancestor through eleven chromosome...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Plant Biology; Evolutionary Biology; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/4908/version/1
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The Thrifty Microbiome: The Role of the Gut Microbiota in Obesity in the Amish Nature Precedings
Claire M. Fraser-Liggett; Alan R. Shuldiner.
Emerging evidence that the gut microbiota may contribute in important ways to human health and disease has led us and others to hypothesize that both symbiotic and pathological relationships between gut microbes and their host may by key contributors to obesity and the metabolic complications of obesity. Our “Thrifty Microbiome Hypothesis” posits that gut microbiota play a key role in human energy homeostasis. Specifically, constituents of the gut microbial community may introduce a survival advantage to its host in times of nutrient scarcity, promoting positive energy balance by increasing efficiency of nutrient absorption and improving metabolic efficiency and energy storage. However, in the presence of excess nutrients, fat...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/4957/version/1
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The Microbial Ecology of Bacterial Vaginosis: A Fine Scale Resolution Metagenomic Analysis Nature Precedings
Jacques Ravel; Larry J. Forney.
The vaginal microbiota play an important protective role in maintaining the health of women. Disruption of the mutualistic relationship that exists between bacterial communities in the vagina and their hosts can lead to bacterial vaginosis (BV), a condition in which lactic acid producing bacteria are supplanted by a diverse array of strictly anaerobic bacteria. BV has been shown to be an independent risk factor for adverse outcomes including preterm delivery and low infant birth weight, acquisition of sexually transmitted infections and HIV, and development of pelvic inflammatory disease. National surveys indicate the prevalence of BV among U.S. women is 29.2%, and yet, despite considerable effort, the etiology of BV remains unknown. Moreover, there are no...
Tipo: Marker Paper / Data Plan Palavras-chave: Ecology; Microbiology; Bioinformatics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5062/version/1
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Skin Microbiome in Disease States: Atopic Dermatitis and Immunodeficiency Nature Precedings
Julia Segre; Heidi Kong.
The Human Microbiome Project seeks to explore the diversity of microbiota that resides in and on the human body, including the skin, in health and disease. The NIH Intramural Skin Microbiome Consortium (NISMC) is a trans-disciplinary group of experts engaged in the practice of genomics, bioinformatics, large-scale DNA sequencing, dermatology, immunology, allergy, infectious disease, and clinical microbiology. Atopic dermatitis (AD, “eczema”) is a chronic relapsing skin disorder that affects ~15% of U.S. children and is associated with $1 billion of medical costs annually. AD is characterized by dry, itchy skin, infiltrated with immune cells. Colonization by _Staphylococcus aureus_ (_S. aureus_) is ten-fold more common in AD patients...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Microbiology; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5019/version/1
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Data Management Plan for Monogram BioSciences Nature Precedings
Christos J. Petropoulos.
This is the data plan for access to data underlying published reports by Monogram BioSciences.
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Immunology; Microbiology; Pharmacology; Bioinformatics; Evolutionary Biology; Data Standards.
Ano: 2011 URL: http://precedings.nature.com/documents/5668/version/1
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Nationwide Study of Breast Cancer Risk Factors in Latinas Nature Precedings
Michael Dean; Latoya Silverton; Julie Sawitzke.
Breast cancer is the most common cancer among American women. Any woman can be affected by breast cancer, with risk for the disease increasing with age. Risk for breast cancer is also exacerbated in women who have certain genetic alterations. Mutations in the BRCA1 and BRCA2 genes predispose women to breast and ovarian cancer, and are increasingly recognized in prostate and pancreatic cancers (1-3). In Caucasian and Asian ethnicities BRCA mutations are associated with basal-type/triple-negative disease. However this association between BRCA gene mutations and basal/triple-negative disease has been understudied in other ethnicities (4-6). The incidence and mortality of breast cancer of Hispanics and Native Americans are lower than other ethnicities;...
Tipo: Marker Paper / Data Plan Palavras-chave: Cancer; Genetics & Genomics; Bioinformatics; Data Standards.
Ano: 2011 URL: http://precedings.nature.com/documents/5691/version/2
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Effect of Crohn's Disease Risk Alleles on Enteric Microbiota Marker Paper Nature Precedings
Ellen Li; Erica Sodergren; George Weinstock; Thaddeus Stappenbeck; Daniel Frank; Charles Robertson; Norman Pace; Wei Zhu; Edgar Boedeker; R. Balfour Sartor; Phillip Tarr; Lloyd Mayer; David Dietz.
This UH2/UH3 demonstration project entitled “Effects of Crohn’s disease risk alleles on enteric microbiota” is focused on characterizing intestinal associated microbiota in patients with ileal Crohn’s disease (ileal CD), ulcerative colitis (UC) and control patients without inflammatory bowel diseases (non-IBD). We hypothesize that genetic factors that affect Paneth cell function, contribute to compositional changes in intestinal microbiota. These changes in microbiota may lead to reduction of protective commensal organisms and increased numbers of aggressive organisms that incite intestinal inflammation. This hypothesis is being tested by high throughput 16S rRNA sequence analysis of de-identified ileal and...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Microbiology; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/4975/version/1
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Developing Predictive Molecular Maps of Human Disease through Community-based Modeling Nature Precedings
Jonathan M. J. Derry; Lara M. Mangravite; Christine Suver; Matt Furia; David Henderson; Xavier Schildwachter; Jonathan Izant; Solveig K. Sieberts; Michael R. Kellen; Stephen H. Friend.
The failure of biology to identify the molecular causes of disease has led to disappointment in the rate of development of new medicines. By combining the power of community-based modeling with broad access to large datasets on a platform that promotes reproducible analyses we can work towards more predictive molecular maps that can deliver better therapeutics.
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Molecular Cell Biology; Bioinformatics; Data Standards.
Ano: 2011 URL: http://precedings.nature.com/documents/5883/version/1
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Metagenomic Analysis of the Structure and Function of the Human Gut Microbiota in Crohn's Disease Nature Precedings
Claire M. Fraser-Liggett.
Inflammatory bowel diseases (IBD), such as Crohn’s disease, are chronic, immunologically mediated disorders that have severe medical consequences. The current hypothesis is that these diseases are due to an overly aggressive immune response to a subset of commensal enteric bacteria. Studies to date on IBD have suggested that the disorder may be caused by a combination of bacteria and host susceptibility; however the etiologies of these diseases remain an enigma. In this application, we propose to develop and demonstrate the ability to profile Crohn’s disease at an unprecedented molecular level by elucidation of specific biomarkers (bacterial strains, genes, or proteins) that correlate to disease symptoms. To achieve this goal, we will...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/4958/version/1
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Metagenomic study of the human skin microbiome associated with acne Nature Precedings
Huiying Li.
The human microbiota contributes to our normal postnatal development and plays a significant role in defining our physiology. To understand the role of microbiota in human health and disease, we study the skin microbiome in pilosebaceous units (hair follicles) and its association with acne.

Acne is one of the most common skin diseases. Although its etiology still needs to be defined, a bacterial factor has been suggested in the development of the disease. In fact, antibiotic therapy targeting _Propionibacterium acnes_ has been a mainstay treatment for more than 30 years.

Our preliminary study shows that the microcomedone, a specialized skin compartment where acne arises, has a tractable...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Microbiology; Bioinformatics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5305/version/1
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Evaluation of the cutaneous microbiome in psoriasis Nature Precedings
Martin J. Blaser; Barbara Methe; Bruce Strober; Guillermo I. Perez Perez; Stuart Brown; Alexander Alekseyenko.
Psoriasis, a highly prevalent disease of humans of unknown cause, is a chronic inflammatory disorder primarily involving skin, with distinctive clinical characteristics. With the newly developed tools that facilitate microbiome research, it now is possible to assess whether the cutaneous microbiome plays a role in the pathogenesis of this disorder. Preliminary data from our studies suggest that the cutaneous microbiome in psoriasis is complex and possibly different from normal. To deal with this complexity, we propose to examine the cutaneous microbiome in relation to psoriasis with explorations at several taxonomic and informatic levels. Our overall objective is to examine how changes in the normal cutaneous microbiome contributes to the pathogenesis of...
Tipo: Marker Paper / Data Plan Palavras-chave: Ecology; Genetics & Genomics; Microbiology; Bioinformatics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5276/version/1
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The Role of the Gut Microbiota in Ulcerative Colitis Nature Precedings
Vincent B. Young; Eugene B. Chang; Folker Meyer; Mitchell L. Sogin; Thomas M. Schmidt; James Tiedje.
The overall goal of our Demonstration Project is to address the hypothesis that the gut microbiota plays a critical role in the pathogenesis of inflammatory bowel disease (IBD). To circumvent the confounding effects of mucosal inflammation and medications that independently bias microbial selection, we have set out to study a unique clinical model of ulcerative colitis (pouchitis) where the development and status of the gut microbiota can be assessed prospectively and relative to the outcome of disease. Pouchitis is an inflammatory condition of a surgically-created pseudorectum that is unique to ulcerative colitis and rarely occurs when this procedure is performed for treatment of other non-IBD diseases. Since the incidence of developing pouchitis within...
Tipo: Marker Paper / Data Plan Palavras-chave: Ecology; Genetics & Genomics; Microbiology; Bioinformatics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5254/version/1
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The Vaginal Microbiome: Disease, Genetics and the Environment Nature Precedings
Jennifer M. Fettweis; Joao P. Alves; Joseph F. Borzelleca; James P. Brooks; Christopher J. Friedline; Yuan Gao; Xi Gao; Philippe Girerd; Michael D. Harwich; Stephanie L. Hendricks; Kimberly K. Jefferson; Vladimir Lee; Huan Mo; Michael C. Neale; Federico A. Puma; Mark A. Reimers; Maria C. Rivera; Seth B. Roberts; Myrna G. Serrano; Nihar Sheth; Judy L. Silberg; Logan Voegtly; Elizabeth C. Prom-Wormley; Bin Xie; Timothy P. York; Cynthia N. Cornelissen; Jerome F. Strauss III; Lindon J. Eaves; Gregory A. Buck.
The vagina is an interactive interface between the host and the environment. Its surface is covered by a protective epithelium colonized by bacteria and other microorganisms. The ectocervix is nonsterile, whereas the endocervix and the upper genital tract are assumed to be sterile in healthy women. Therefore, the cervix serves a pivotal role as a gatekeeper to protect the upper genital tract from microbial invasion and subsequent reproductive pathology. Microorganisms that cross this barrier can cause preterm labor, pelvic inflammatory disease, and other gynecologic and reproductive disorders. Homeostasis of the microbiome in the vagina and ectocervix plays a paramount role in reproductive health. Depending on its composition, the microbiome may protect...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Microbiology; Bioinformatics; Evolutionary Biology; Data Standards.
Ano: 2011 URL: http://precedings.nature.com/documents/5150/version/2
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The Vaginal Microbiome: Disease, Genetics and the Environment Nature Precedings
Jennifer M. Fettweis; Joao P. Alves; Joseph F. Borzelleca; James P. Brooks; Christopher J. Friedline; Yuan Gao; Xi Gao; Philippe Girerd; Michael D. Harwich; Stephanie L. Hendricks; Kimberly K. Jefferson; Vladimir Lee; Huan Mo; Michael C. Neale; Federico A. Puma; Mark A. Reimers; Maria C. Rivera; Seth B. Roberts; Myrna G. Serrano; Nihar U. Sheth; Judy L. Silbert; Logan Voegtly; Elizabeth C. Prom-Wormley; Bin Xie; Timothy P. York; Cynthia N. Cornelissen; Jerome L. Strauss; Lindon J. Eaves; Gregory A. Buck.
The vagina is an interactive interface between the host and the environment. Its surface is covered by a protective epithelium colonized by bacteria and other microorganisms. The ectocervix is nonsterile, whereas the endocervix and the upper genital tract are assumed to be sterile in healthy women. Therefore, the cervix serves a pivotal role as a gatekeeper to protect the upper genital tract from microbial invasion and subsequent reproductive pathology. Microorganisms that cross this barrier can cause preterm labor, pelvic inflammatory disease, and other gynecologic and reproductive disorders. Homeostasis of the microbiome in the vagina and ectocervix plays a paramount role in reproductive health. Depending on its composition, the microbiome may protect...
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Microbiology; Bioinformatics; Evolutionary Biology.
Ano: 2010 URL: http://precedings.nature.com/documents/5150/version/1
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Marker Paper: The Urethral Microbiome of Adolescent Males Nature Precedings
J. Dennis Fortenberry; David E. Nelson; Qunfeng Dong.
Project ID: 46317 – No publication moratorium. 

The microflora of the anterior male urethra during adolescence is poorly described and no data address the range of “typical” urethral organisms during adolescence as functions of pubertal development or onset of various types of partnered sexual activity. This means that current understanding of the urethral microbiome in adolescent men rests entirely on limited data inferred from adults, and from epidemiologic and behavioral explanations. Marked ethnic group variation in adolescent sexual behaviors and disparity in conditions such as sexually transmitted infections (STI) justifies exploration of potential ethnic group differences in the...
Tipo: Marker Paper / Data Plan Palavras-chave: Microbiology; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5221/version/1
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The Neonatal Microbiome and Necrotizing Enterocolitis. Nature Precedings
Phillip I. Tarr; Barbara Warner; Erica Sodergren; William Shannon; Aaron Hamvas; Vincent Magrini; George Weinstock.
Necrotizing enterocolitis (NEC) is a devastating disorder that affects approximately 10% of premature infants. Its mortality remains high (15-30%), and its cause remains unknown. About 80% of cases occur within 35 days of birth among hospitalized newborns of low birth weight. Probiotics diminish the incidence and severity of NEC, and NEC does not occur antepartum. NEC affects a readily identifiable at-risk group, has a tightly defined interval before its onset, occurs in an organ system that is intimately associated with a microbial population in flux, has a plausible association with the intestinal microbiota, and cohorts at risk have rarely been studied in large numbers, or prospectively. This disorder, therefore, provides a unique opportunity to explore...
Tipo: Marker Paper / Data Plan Palavras-chave: Biotechnology; Developmental Biology; Genetics & Genomics; Microbiology; Bioinformatics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5285/version/1
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The Human Microbiome and Recurrent Abdominal Pain in Children Nature Precedings
James Versalovic; Robert J. Shulman; Kevin Riehle; Delphine M. Saulnier; Toni-Ann Mistretta; Maria A. Diaz; Sabeen Raza; Debasmita Mandal; Xiang Qin; Susan Lynch; Joseph Petrosino; Richard Gibbs.
This project explores the nature of the human intestinal microbiome in healthy children and children with recurrent abdominal pain. The overall goal is to obtain a robust knowledge base of the intestinal microbiome in children without evidence of pain or gastrointestinal disease and in those with recurrent abdominal pain (functional abdominal pain (FAP) and FAP associated with changes in bowel habits, i.e., irritable bowel syndrome or IBS). Specific aims include: 1. Characterize the composition of the gut microbiome in healthy children by DNA sequencing. 2. Determine the presence of disease-specific organism signatures of variable gut microbiomes in children with recurrent abdominal pain. 3. Perform functional gut metagenomics by evaluation of whole...
Tipo: Marker Paper / Data Plan Palavras-chave: Ecology; Genetics & Genomics; Microbiology; Bioinformatics.
Ano: 2010 URL: http://precedings.nature.com/documents/5228/version/1
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Foregut microbiome in development of esophageal adenocarcinoma Nature Precedings
Liying Yang; William E. Oberdorf; Erika Gerz; Tamasha Parsons; Pinak Shah; Sukhleen Bedi; Carlos W. Nossa; Stuart M. Brown; Yu Chen; Mengling Liu; Michael Poles; Fritz Francois; Morris Traube; Navjeet Singh; Todd Z. DeSantis; Gary L. Andersen; Monika Bihan; Les Foster; Aaron Tenney; Daniel Brami; Mathangi Thiagarajan; Indresh K. Singh; Manolito Torralba; Shibu Yooseph; Yu-Hui Rogers; Eoin L. Brodie; Karen E. Nelson; Zhiheng Pei.
Esophageal adenocarcinoma (EA), the type of cancer linked to heartburn due to gastroesophageal reflux diseases (GERD), has increased six fold in the past 30 years. This cannot currently be explained by the usual environmental or by host genetic factors. EA is the end result of a sequence of GERD-related diseases, preceded by reflux esophagitis (RE) and Barrett’s esophagus (BE). Preliminary studies by Pei and colleagues at NYU on elderly male veterans identified two types of microbiotas in the esophagus. Patients who carry the type II microbiota are >15 fold likely to have esophagitis and BE than those harboring the type I microbiota. In a small scale study, we also found that 3 of 3 cases of EA harbored the type II biota. The findings...
Tipo: Marker Paper / Data Plan Palavras-chave: Cancer; Genetics & Genomics; Microbiology; Bioinformatics; Data Standards.
Ano: 2010 URL: http://precedings.nature.com/documents/5026/version/1
Registros recuperados: 23
Primeira ... 12 ... Última
 

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