Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Eva Morales, Alexandra Groom, Debbie A. Lawlor et al. · 2014 · BMC Research Notes
BACKGROUND: Epigenetic changes could mediate the association of maternal pre-pregnancy body mass index (BMI) and gestational weight gain (GWG) with adverse offspring outcomes. However, studies in humans are lacking. Here, we examined the association of maternal pre-pregnancy BMI and GWG in different periods of pregnancy with cytosine-guanine (CpG) dinucleotide site methylation differences in newborn cord blood DNA from 88 participants in the Avon Longitudinal Study of Parents and Children (ALSPAC) cohort using the Illumina GoldenGate Panel I. Pyrosequencing was used for validation of the top a
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Kenneth E. Westerman, Paola Sebastiani, Paul F. Jacques et al. · 2019 · Clinical Epigenetics
BACKGROUND: Epigenome-wide association studies using DNA methylation have the potential to uncover novel biomarkers and mechanisms of cardiovascular disease (CVD) risk. However, the direction of causation for these associations is not always clear, and investigations to-date have often failed to replicate at the level of individual loci. METHODS: Here, we undertook module- and region-based DNA methylation analyses of incident CVD in the Women's Health Initiative (WHI) and Framingham Heart Study Offspring Cohort (FHS) in order to find more robust epigenetic biomarkers for cardiovascular risk. W
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Rebecca C. Richmond, Gemma C. Sharp, Georgia Herbert et al. · 2018 · International Journal of Epidemiology
BACKGROUND: It has been proposed that maternal folic-acid supplement use may alter the DNA-methylation patterns of the offspring during the in-utero period, which could influence development and later-life health outcomes. Evidence from human studies suggests a role for prenatal folate levels in influencing DNA methylation in early life, but this has not been extended to consider persistent effects into adulthood. METHODS: To better elucidate the long-term impact of maternal folic acid in pregnancy on DNA methylation in offspring, we carried out an epigenome-wide association study (EWAS) neste
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Maria D. S. Nunes, Marlies Dolezal, Christian Schlötterer · 2013 · Molecular Ecology
Strict maternal inheritance is considered a hallmark of animal mtDNA. Although recent reports suggest that paternal leakage occurs in a broad range of species, it is still considered an exceptionally rare event. To evaluate the impact of paternal leakage on the evolution of mtDNA, it is essential to reliably estimate the frequency of paternal leakage in natural populations. Using allele-specific real-time quantitative PCR (RT-qPCR), we show that heteroplasmy is common in natural populations with at least 14% of the individuals carrying multiple mitochondrial haplotypes. However, the average fr
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
João Gustavo Claudino, Bruno Mezêncio, Sérgio Tibiriçá Amaral et al. · 2014 · Journal of the International Society of Sports Nutrition
BACKGROUND: Studies involving chronic creatine supplementation in elite soccer players are scarce. Therefore, the aim of this study was to examine the effects of creatine monohydrate supplementation on lower-limb muscle power in Brazilian elite soccer players (n = 14 males) during pre-season training. FINDINGS: This was a randomized, double-blind, placebo-controlled parallel-group study. Brazilian professional elite soccer players participated in this study. During the pre-season (7 weeks), all the subjects underwent a standardized physical and specific soccer training. Prior to and after eith
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Céline Carillier, Hélène Larroque, Christèle Robert-Granié · 2014 · Genetics Selection Evolution
BACKGROUND: All progeny-tested bucks from the two main French dairy goat breeds (Alpine and Saanen) were genotyped with the Illumina goat SNP50 BeadChip. The reference population consisted of 677 bucks and 148 selection candidates. With the two-step approach based on genomic best linear unbiased prediction (GBLUP), prediction accuracy of candidates did not outperform that of the parental average. We investigated a GBLUP method based on a single-step approach, with or without blending of the two breeds in the reference population. METHODS: Three models were used: (1) a multi-breed model, in whi
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Rocío Montes de, Paul R. Andreassen, Katherine L. Wilson · 2011 · Nucleus
Defects in the nuclear envelope or nuclear 'lamina' networks cause disease and can perturb histone posttranslational (epigenetic) regulation. Barrier-to-Autointegration Factor (BAF) is an essential but enigmatic lamina component that binds…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Chaoyuan Kuang, Yongseok Park, Ryan C. Augustin et al. · 2022 · Clinical Epigenetics
Abstract Background DNA mismatch repair proficient (pMMR) metastatic colorectal cancer (mCRC) is not responsive to pembrolizumab monotherapy. DNA methyltransferase inhibitors can promote antitumor immune responses. This clinical trial investigated whether concurrent treatment with azacitidine enhances the antitumor activity of pembrolizumab in mCRC. Methods We conducted a phase 2 single-arm trial evaluating activity and tolerability of pembrolizumab plus azacitidine in patients with chemotherapy-refractory mCRC (NCT02260440). Patients received pembrolizumab 200 mg IV on day 1 and azacitidine 1
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Markus Schlegel, Vivanne Dubach, Larissa von Buol et al. · 2016 · FEMS Microbiology Ecology
While Hymenoscyphus fraxineus causes dieback of the European ash (Fraxinus excelsior), flowering ash (F. ornus) appears resistant to the pathogen. To date, contributions of endophytic fungi to host resistance are unknown. The following…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Mukul S. Bansal, Yi-Chieh Wu, Eric J. Alm et al. · 2014 · Bioinformatics
MOTIVATION: The accurate inference of gene trees is a necessary step in many evolutionary studies. Although the problem of accurate gene tree inference has received considerable attention, most existing methods are only applicable to gene families unaffected by horizontal gene transfer. As a result, the accurate inference of gene trees affected by horizontal gene transfer remains a largely unaddressed problem. RESULTS: In this study, we introduce a new and highly effective method for gene tree error correction in the presence of horizontal gene transfer. Our method efficiently models horizonta
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Zebin Hu, Janhavi Gupta, Zhenwei Zhang et al. · 2012 · Human Gene Therapy
We have examined whether Ad.sTβRFc and TAd.sTβRFc, two oncolytic viruses expressing soluble transforming growth factor-β receptor II fused with human Fc (sTGFβRIIFc), can be developed to treat bone metastasis of prostate cancer. Incubation…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Annette A. Angus, David J. Evans, Joseph Barbieri et al. · 2010 · Infection and Immunity
Pseudomonas aeruginosa can establish a niche within the plasma membrane of epithelial cells (bleb niches) within which bacteria can survive, replicate, and swim at speeds detectable by real-time phase-contrast imaging. This novel virulence…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Sigrid Hatse, Barbara Brouwers, Bruna Dalmasso et al. · 2014 · PLoS ONE
Circulating microRNAs (miRNAs) hold great promise as easily accessible biomarkers for diverse (patho)physiological processes, including aging. We have compared miRNA expression profiles in cell-free blood from older versus young breast cancer patients, in order to identify "aging miRNAs" that can be used in the future to monitor the impact of chemotherapy on the patient's biological age. First, we assessed 175 miRNAs that may possibly be present in serum/plasma in an exploratory screening in 10 young and 10 older patients. The top-15 ranking miRNAs showing differential expression between young
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Philippe A. Cassier, Anne Lefranc, Éric Amela et al. · 2013 · British Journal of Cancer
BACKGROUND: Soft tissue sarcomas (STS) are rare tumours for which treatment options are limited in the advanced setting. Histone deacetylase inhibitors have shown activity in preclinical models of STS. METHODS: We conducted a single-arm,…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Michihiro Kon, Fuminori Kimura, Takayuki Akimoto et al. · 2026 · PubMed
AIM: We aimed to examine the effect of Coenzyme Q10 (CoQ10) supplementation on the exhaustive exercise-induced injury and oxidative stress in skeletal muscle and liver. METHODS: Rats were divided into four groups: rest group [control…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Akifumi Takada, Takayuki Miki, Atsushi Kuno et al. · 2012 · PLoS ONE
BACKGROUND: Diabetes mellitus (DM) is associated with an increased risk of ischemic heart disease and of adverse outcomes following myocardial infarction (MI). Here we assessed the role of endoplasmic reticulum (ER) stress in ventricular dysfunction and outcomes after MI in type 2 DM (T2DM). METHODOLOGY AND PRINCIPAL FINDINGS: In hearts of OLETF, a rat model of T2DM, at 25∼30 weeks of age, GRP78 and GRP94, markers of ER stress, were increased and sarcoplasmic reticulum calcium ATPase (SERCA)2a protein was reduced by 35% compared with those in LETO, a non-diabetic control. SERCA2a mRNA levels w
View details →Negative / Null Result ReportBiochemistry, Genetics and Molecular Biology
Joyce O’Shaughnessy, Hartmut Koeppen, Yuanyuan Xiao et al. · 2015 · Clinical Cancer Research
PURPOSE: We conducted a randomized phase III study to determine whether patients with early breast cancer would benefit from the addition of capecitabine (X) to a standard regimen of doxorubicin (A) plus cyclophosphamide (C) followed by…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Charles R. Dunlop, Yann Wallez, Timothy Isaac Johnson et al. · 2020 · British Journal of Cancer
BACKGROUND: Personalised medicine strategies may improve outcomes in pancreatic ductal adenocarcinoma (PDAC), but validation of predictive biomarkers is required. Having developed a clinical trial to assess the ATR inhibitor, AZD6738, in combination with gemcitabine (ATRi/gem), we investigated ATM loss as a predictive biomarker of response to ATRi/gem in PDAC. METHODS: Through kinase inhibition, siRNA depletion and CRISPR knockout of ATM, we assessed how ATM targeting affected the sensitivity of PDAC cells to ATRi/gem. Using flow cytometry, immunofluorescence and immunoblotting, we investigate
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Arshad Husain Rahmani, Mohammad A. Alzohairy, Ali Yousif Babiker et al. · 2012 · PubMed
A high frequency of mutations at the PTEN locus has been noticed in carcinoma of oral. However, the role of PTEN alternations and its association with outcome variables in the genesis of oral carcinoma is not understood fully. The purpose…
View details →Negative / Null Result ReportBiochemistry, Genetics and Molecular Biology
Catherine E. Cottrell, Natalie Bir, Liz Varga et al. · 2011 · Autism Research
Structural and sequence variation have been described in several members of the contactin (CNTN) and contactin-associated protein (CNTNAP) gene families in association with neurodevelopmental disorders, including autism. Using array…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Alina Franzen, Timo Vogt, Tim Müller et al. · 2017 · Oncotarget
// Alina Franzen 1 , Timo J. Vogt 1 , Tim Müller 2 , Jörn Dietrich 1 , Andreas Schröck 1 , Carsten Golletz 2 , Peter Brossart 3 , Friedrich Bootz 1 , Jennifer Landsberg 4 , Glen Kristiansen 2 and Dimo Dietrich 1 1 Department of Otolaryngology, Head and Neck Surgery, University Hospital Bonn, Bonn, Germany 2 Institute of Pathology, University Hospital Bonn, Bonn, Germany 3 Department of Oncology, Hematology and Rheumatology, University Hospital Bonn, Bonn, Germany 4 Department of Dermatology, Bonn, University Hospital Bonn, Germany Correspondence to: Dimo Dietrich, email: dimo.di
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Jill M. Haenfler, Geena Skariah, Caitlin M. Rodriguez et al. · 2018 · Frontiers in Molecular Neuroscience
Fragile X Syndrome (FXS) is the most common inherited cause of intellectual disability and autism. It results from expansion of a CGG nucleotide repeat in the 5’ untranslated region of FMR1. Large expansions elicit repeat and promoter hyper-methylation, heterochromatin formation, FMR1 transcriptional silencing, and loss of the Fragile X protein, FMRP. Efforts aimed at correcting the sequelae resultant from FMRP loss have thus far proven insufficient, perhaps because of FMRP’s pleiotropic functions. As the repeats do not disrupt the FMRP coding sequence, reactivation of endogenous FMR1 gene exp
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Matthew R. Masters, Amr H. Mahmoud, Markus A. Lill · 2025 · Nature Communications
Co-folding models represent a major innovation in deep-learning-based protein-ligand structure prediction. The recent publications of RoseTTAFold All-Atom, AlphaFold3, and others have shown high-quality results on predicting the structures of proteins interacting with small-molecules, nucleic-acids, and other proteins. Despite these advanced capabilities and broad potential, the current study presents critical findings that question the adherence of these models to fundamental physical principles. Through adversarial examples based on established physical, chemical, and biological principles,
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Ying Shen, Mumtahena Rahman, Stephen Piccolo et al. · 2015 · Bioinformatics
MOTIVATION: Although gene-expression signature-based biomarkers are often developed for clinical diagnosis, many promising signatures fail to replicate during validation. One major challenge is that biological samples used to generate and…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Juan Pablo Nani, Fernanda Marcondes de Rezende, Francisco Peñagaricano · 2019 · BMC Genomics
BACKGROUND: Fertility is among the most important economic traits in dairy cattle. Genomic prediction for cow fertility has received much attention in the last decade, while bull fertility has been largely overlooked. The goal of this study was to assess genomic prediction of dairy bull fertility using markers with large effect and functional annotation data. Sire conception rate (SCR) was used as a measure of service sire fertility. Dataset consisted of 11.5 k U.S. Holstein bulls with SCR records and about 300 k single nucleotide polymorphism (SNP) markers. The analyses included the use of bo
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Zahra Yazdanpour, Omid Tadjrobehkar, Motahareh Shahkhah · 2020 · BMC Microbiology
BACKGROUND: Antibiotic resistance is an increasing phenomenon in many bacterial pathogens including uropathogenic Escherichia coli. Hypothetical anti-virulent agents could be a solution, but first clear virulence associated gene-pool of antibiotic resistant isolates have to be determined. The aim of this study is to investigate the significant associations between genes encoding VFs with antibiotic resistance and phylogenetic groups in UPEC isolates. RESULTS: The majority of 248 UPEC isolates belonged to phylogenetic group B2 (67.3%). The maximum and minimum resistance was attributed to amoxic
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Katarzyna A. Cieslik, George E. Taffet, Jeffrey R. Crawford et al. · 2013 · Journal of Molecular and Cellular Cardiology
We have demonstrated that scar formation after myocardial infarction (MI) is associated with an endogenous pool of CD44(pos)CD45(neg) multipotential mesenchymal stem cells (MSC). MSC differentiate into fibroblasts secreting collagen that forms a scar and mature into myofibroblasts that express alpha smooth muscle actin (α-SMA) that stabilizes the scar. In the aging mouse, cardiac repair after MI is associated with impaired differentiation of MSC; MSC derived from the aged hearts form dysfunctional fibroblasts that deposit less collagen in response to transforming growth factor beta-1 (TGF-β1)
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Claudio Toma, Amaia Hervás, Bàrbara Torrico et al. · 2012 · Psychiatric Genetics
Impairment of language abilities is a common feature in autistic individuals. Heterozygous mutations in the Forkhead Box P2 (FOXP2) gene lead to a severe spoken language disorder. Recently, several studies have pinpointed the involvement…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Brett M. Kroncke, Amanda M. Duran, Jeffrey Mendenhall et al. · 2016 · Biochemistry
There is a compelling and growing need to accurately predict the impact of amino acid mutations on protein stability for problems in personalized medicine and other applications. Here the ability of 10 computational tools to accurately…
View details →Negative / Null Result ReportOpen accessBiochemistry, Genetics and Molecular Biology
Charlotte Brierley, Cristina Castilla‐Llorente, Myriam Labopin et al. · 2018 · Journal of Crohn s and Colitis
BACKGROUND AND AIMS: Autologous haematopoietic stem cell transplantation [AHSCT] is a therapeutic option for patients with severe, treatment-refractory Crohn's disease [CD]. The evidence base for AHSCT for CD is limited, with one…
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