• Accurate genotyping of a human papilloma virus (HPV) isolated from clinical specimens depends on molecular identification of the unique and exclusive nucleotide base sequence in the hypervariable region of a highly conserved segment of the HPV L1 gene. (nih.gov)
  • Molecular anthropology uses the tools and techniques of molecular genetics to answer anthropological questions, especially those concerning the origins and spread of humans across the globe. (jrank.org)
  • This is an interdisciplinary course, and the goal is to involve students who have either a strong computer science background or a strong background in molecular biology (such as students in the genetics graduate program), but not necessarily both. (ubc.ca)
  • Studies of genetic variation in natural populations at the sequence level usually show that most polymorphic sites are very asymmetrical in allele frequencies, with the rarer allele at a site near fixation. (genetics.org)
  • Gfeller K, Roth M, Meile L, Teuber M. Sequence and genetic organization of the 19.3-kb erythromycin- and dalfopristin-resistance plasmid pLME300 from Lactobacillus fermentum ROT1. (labome.org)
  • The new genetic revolution is fuelled by Deep Sequencing (or Next Generation Sequencing) apparatuses which, in essence, read billions of nucleotides per reaction. (abebooks.com)
  • These genetic results, sharpened by ORIEN's clinical data and the significant size of the sample set, accurately elucidate known drivers of cancer, identify new genetic alterations, and reveal novel potential therapeutic targets. (genomeweb.com)
  • Whole exome sequencing (WES) has been widely accepted as a robust and cost-effective approach for clinical genetic testing of small sequence variants. (biomedcentral.com)
  • However, it was impossible to identify the population of blue whales the individuals belonged to, due to the lack of strong population genetic signals in the mitochondrial control region sequences. (sljol.info)
  • This is a multi-institutional effort to aggregate detailed genetic (and molecular) data in connection with treatments and physician reported outcomes in patients with advanced cancer. (clinicaltrials.gov)
  • Incorporating genetic variant data into the electronic health record (EHR) in discrete computable fashion has vexed the informatics community for years. (cdc.gov)
  • Genetic sequence test results are typically communicated by the molecular laboratory and stored in the EHR as textual documents. (cdc.gov)
  • Rasmus Nielsen is certainly one of these researchers, and his work so far has merged many population genetic and phylogenetic aspects of biological research under the umbrella of molecular evolution. (springer.com)
  • In severe early-onset epilepsy, precise clinical and molecular genetic diagnosis is complex, as many metabolic and electro-physiological processes have been implicated in disease causation. (ox.ac.uk)
  • It also uncovers unexpected genetic mechanisms and emphasizes the power of WGS as a clinical tool for making molecular diagnoses, particularly for highly heterogeneous disorders. (ox.ac.uk)
  • To assess the genetic diversity and relationships between the isolates, we sequenced two housekeeping genes ( glmM and hspA ). (cdc.gov)
  • This web-based application performed pairwise comparisons of HIV-1 protease and partial reverse transcriptase to measure sequence relatedness and identify sequences that were highly genetically similar at a genetic distance of ≤0.015 substitutions per site ( 6 , 7 ). (cdc.gov)
  • Among other options, a heminested (nested) polymerase chain reaction (PCR) technology using two consecutive PCR replications of the target DNA in tandem with three consensus general primers may be used to detect a minute quantity of HPV DNA in crude proteinase K digestate of cervicovaginal cells, and to prepare the template for genotyping by automated direct DNA sequencing. (nih.gov)
  • Sequence comparisons suggest that tap is most closely related to two bHLH genes identified in several vertebrate species, neurogenin and neuroD, which are involved respectively in neural determination and in neuronal differentiation. (labome.org)
  • Examines a selection of methods involving the generation and organization of data, including sequence data, RNA and protein structures, microarray expression data and functional annotations, methods for discovering the functional components of genomes, whether they be genes, alternative splice sites, non-coding RNAs or regulatory motifs, and several of the most interesting methods in phylogenetics and evolution. (koeltz.com)
  • Techniques developed by computer scientists have enabled researchers at Celera Genomics, the Human Genome Project consortium, and other laboratories around the world to sequence the nearly 3 billion base pairs of the roughly 40,000 genes of the human genome. (must.edu.eg)
  • Here, we compared the evolution of MHC class I and class II genes in three sister clades of common passerine birds, finches (Fringillinae and Carduelinae) and buntings (Emberizidae) using a uniform methodological (genotyping and data processing) approach and uniform sample sizes. (nature.com)
  • Balasubramaniam S, Bray RD, Mulder RA, Sunnucks P, Pavlova A, Melville J (2016) New data from basal Australian songbird lineages show that complex structure of MHC class II β genes has early evolutionary origins within passerines. (nature.com)
  • Clinical whole-genome sequencing in severe early-onset epilepsy reveals new genes and improves molecular diagnosis. (ox.ac.uk)
  • Molecular diagnosis has historically been confined to sequential testing of candidate genes known to be associated with specific sub-phenotypes, but the diagnostic yield of this approach can be low. (ox.ac.uk)
  • a molecular analysis of ribosomal genes and histone H3 sequence data. (thefreedictionary.com)
  • We compared the sequences of two housekeeping genes ( hspA and glmM ) from these clones with those of 131 unrelated strains from patients living in different geographic regions. (cdc.gov)
  • Clonal descent has been demonstrated by comparing alleles of genes such as vacA , flaA , and flaB of isolates infecting members of the same family ( 10 - 12 ) and by sequencing three housekeeping genes ( ureI , atpA , and ahpC ) ( 13 ). (cdc.gov)
  • Analysis of the sequences of housekeeping genes ( atpD , scoB , glnA and recA ) showed that strains cluster according to their geographic origins ( 15 , 20 ). (cdc.gov)
  • Analysis of the sequences the sequences of two housekeeping genes ( hspA and of housekeeping genes ( atpD , scoB , glnA and recA ) glmM ) from these clones with those of 131 unrelated showed that strains cluster according to their geographic strains from patients living in different geographic regions. (cdc.gov)
  • Several mechanisms, such as point mutations, intragenic recombination, and introduction of foreign (African) alleles, sequenced two housekeeping genes ( glmM and hspA ). (cdc.gov)
  • The data output of such high-throughput experiments typically becomes overwhelmingly large, and some statistical analyses must be performed to focus on the genes that are related to the experiment being conducted. (biomedcentral.com)
  • As a partner in the ORIEN Avatar program, Discovery Life Sciences' sequencing and bioinformatics laboratory, HudsonAlpha Discovery, has conducted high-yield, high-quality dual RNA/DNA isolation from formalin-fixed, paraffin-embedded (FFPE) specimens as well as whole-exome sequencing and RNA sequencing services on more than 30,000 tumor and non-tumor samples. (genomeweb.com)
  • This Symposium will cover real-world use cases across many areas, including drug discovery and design, R&D, molecular modeling, next-generation sequencing, and bioinformatics. (globus.org)
  • Bioinformatics: Volume 1: Data, Sequence Analysis and Evolution. (koeltz.com)
  • Analyses in bioinformatics predominantly focus on three types of large datasets available in molecular biology: macromolecular structures, genome sequences, and gene expression data. (must.edu.eg)
  • With the availability of genomic data from multiple related species, molecular evolution has become one of the most active and fastest growing fields of study in genomics and bioinformatics. (springer.com)
  • Bioinformatics involves the application of computational methods in order to address problems in molecular biology. (ubc.ca)
  • Molecular phylogeny of Entomobrya (Collembola: Entomobryidae) from China: Color pattern groups and multiple origins. (semanticscholar.org)
  • Marsupials (metatherians), with their position in vertebrate phylogeny and their unique biological features, have been studied for many years by a dedicated group of researchers, but it has only been since the sequencing of the first marsupial genome that their value has been more widely recognised. (hindawi.com)
  • Traditionally, the practice has been to use one or more fossils as 'node calibrations' by associating their geologically derived age to a particular divergence in a molecular phylogeny. (royalsocietypublishing.org)
  • The difficulty lies in determining the appropriate ancestral divergence in the molecular phylogeny to associate the fossil with and the details of how this should be achieved within a full statistical inference framework [ 6 - 8 ]. (royalsocietypublishing.org)
  • Computomics to provide analysis for the winners of the PacBio sequencing raffle at PAG 2019. (computomics.com)
  • In WHO-convened Global Study of Origins of SARS-CoV-2: China Part released by the World Health Organization (WHO), SARS-CoV-2 surveillance data and virus cases reported in China are analyzed as far back as late 2019. (hsdl.org)
  • 2019) based on molecular sequence data. (wikipedia.org)
  • It is shown that more power can be achieved by increasing the length of sequence determined than by increasing the number of genomes sampled for the same total work. (genetics.org)
  • Based upon the strong monophyly of Serruria, DNA sequence data were collected for 53 of the 55 species from the plastid (rps16 intron, atpB-rbcL intergenic spacer, trnL-F region and psbA-trnH intergenic spacer) and nuclear (internal transcribed spacer region or ITS) genomes in order to investigate evolutionary relationships within the genus. (sun.ac.za)
  • Apart from this case, there was widespread agreement between the trees reconstructed using data from the two genomes. (sun.ac.za)
  • Interpreting relationships of human immunodeficiency virus type 1 (HIV-1) sequences can be challenging because of their rapidly evolving genomes, but it may also lead to a better understanding of the underlying biology. (washington.edu)
  • However, generating full scaffolds of N. gonorrhoeae genomes from short reads, and the assignment of molecular epidemiological information (NG-MLST, NG-MAST, and NG-STAR) to multiple assembled samples, is challenging due to required manual tasks such as annotating antimicrobial resistance determinants with standard nomenclature for a large number of genomes. (biomedcentral.com)
  • We present Gen2Epi, a pipeline that assembles short reads into full scaffolds and automatically assigns molecular epidemiological and AMR information to the assembled genomes. (biomedcentral.com)
  • For its evaluation, the Gen2Epi pipeline successfully assembled the WGS short reads from 1484 N. gonorrhoeae samples into full-length genomes for both chromosomes and plasmids and was able to assign in silico molecular determinant information to each dataset automatically. (biomedcentral.com)
  • Gen2Epi can be used to assemble short reads into full-length genomes and assign accurate molecular marker and AMR information automatically from NG-STAR, NG-MAST, and NG-MLST. (biomedcentral.com)
  • In order to manage and analyze the large amount of data generated from sequencing techniques, initiatives to develop appropriate tools and software have been undertaken by the N. gonorrhoeae scientific community worldwide [ 3 ] with a number of methods developed to assemble genomes, predict antimicrobial resistance (AMR), and investigate strain transmission through analysis of genomic molecular determinants. (biomedcentral.com)
  • We utilize DNA sequence data from the nuclear, chloroplast, and mitochondrial genomes to infer historical processes of biodiversification. (duke.edu)
  • We now have genome sequences for three distantly related marsupial species (the grey short-tailed opossum, the tammar wallaby, and Tasmanian devil), with the promise of many more genomes to be sequenced in the near future, making this a particularly exciting time in marsupial genomics. (hindawi.com)
  • However, rapid progress has been made since the sequencing of the first and subsequent marsupial genomes. (hindawi.com)
  • Human pathology due to a deficient alpha-oxidation is mostly linked to mutations in the gene coding for the second enzyme of the sequence, phytanoyl-CoA hydroxylase. (labome.org)
  • ITHACA, N.Y.--( BUSINESS WIRE )-- Rheonix Inc. , a developer of fully automated molecular testing solutions, will highlight its Encompass Optimum ™ workstation at the Association for Molecular Pathology (AMP) Annual Meeting Nov. 10-12 in Charlotte, North Carolina. (businesswire.com)
  • DAMBE (data analysis in molecular biology and evolution) is an integrated software package for converting, manipulating, statistically and graphically describing, and analyzing molecular sequence data. (mybiosoftware.com)
  • DAMBE5: A comprehensive software package for data analysis in molecular biology and evolution. (mybiosoftware.com)
  • Several studies have focused on the evolution of HIV-1, but there is little information to link sequence similarities and evolutionary histories of HIV-1 to the epidemiological information of the infected individual. (washington.edu)
  • In the field of molecular evolution, inferences about past evolutionary events are made using molecular data from currently living species. (springer.com)
  • Most studies in molecular evolution rely heavily on statistical procedures based on stochastic process modelling and advanced computational methods including high-dimensional numerical optimization and Markov Chain Monte Carlo. (springer.com)
  • This book provides an overview of the statistical theory and methods used in studies of molecular evolution. (springer.com)
  • This book is suitable for statisticians seeking to learn more about applications in molecular evolution and molecular evolutionary biologists with an interest in learning more about the theory behind the statistical methods applied in the field. (springer.com)
  • Most relevant statistical concepts are introduced in the book in the context of their application in molecular evolution, and the book should be accessible for most biology graduate students with an interest in quantitative methods and theory. (springer.com)
  • His is an associate editor of the Journal of Molecular Evolution and has published more than fifty original papers in peer-reviewed journals on the topic of this book. (springer.com)
  • I find Statistical Methods in Molecular Evolution very interesting and useful. (springer.com)
  • This book gives an overview of his interests and current achievements in molecular evolution. (springer.com)
  • In addition, these genome sequences have facilitated studies aimed at answering questions regarding gene and genome evolution and provided insight into the evolution of epigenetic mechanisms. (hindawi.com)
  • Here I highlight the major advances in our understanding of evolution and disease, facilitated by marsupial genome projects, and speculate on the future contributions to be made by such sequences. (hindawi.com)
  • The high level of internal consistency found in our analyses suggests that the Bayesian statistical model employed is an adequate fit for both the geological and morphological data, and provides evidence from real data that the framework used can accurately model the evolution of discrete morphological traits coded from fossil and extant taxa. (royalsocietypublishing.org)
  • It may be less widely appreciated by molecular evolutionary biologists that the statistical phylogenetic revolution in molecular evolution has also been mirrored in the increasing application of statistical phylogenetic reasoning in macroevolutionary and systematic studies of the fossil record [ 14 - 17 ]. (royalsocietypublishing.org)
  • Multiple sequence alignment with hierarchical clustering. (semanticscholar.org)
  • Exome targets were captured using the Agilent SureSelect Human All Exon V4 or V5 kit (Agilent Technologies, Santa Clara, CA). Raw sequencing data (FASTQ format) were generated via the Illumina HiSeq 2000 platform (Illumina, Inc., San Diego, CA). The Burrows Wheeler Alignment tool (BWA) v0.2.10 [ 17 ] was employed for sequencing data alignment to the Human Reference Genome (NCBI build 37, hg 19). (biomedcentral.com)
  • Sequencing of RNA-Seq libraries, processing and alignment to reference genome RNA was sequenced on the Illumina HiSeq 2000 sequencer (Illumina, USA) with a single-ended, 51-bp run producing raw fastq files. (forgetmenotinitiative.org)
  • Topics in molecular biology that will motivate the algorithmic content of the course include: sequence alignment, phylogenetic tree reconstruction, prediction of RNA and protein structure, gene finding and sequence annotation, gene expression, and biomolecular computing. (ubc.ca)
  • Detection of copy number variants (CNV) within WES data have become possible through the development of various algorithms and software programs that utilize read-depth as the main information. (biomedcentral.com)
  • Class assignments will familiarize students with biological data and tools for understanding this data and will help students gain a solid understanding of principles for design and analysis of algorithms. (ubc.ca)
  • Jolly and Maiden initially developed BIGSdb (Bacterial Isolate Genome Sequence Database) [ 4 ] to store and investigate Multilocus Sequence Typing (MLST) profiles of sequences generated from multiple sources, such as multiple single amplicons or assembled contigs from sequencing technologies. (biomedcentral.com)
  • Strain relationships within the family were determined by analyzing allelic variation at both loci and building phylogenetic trees and by using multilocus sequence typing. (cdc.gov)
  • America, and Europe differ from those that are predomi- netic trees and by using multilocus sequence typing. (cdc.gov)
  • Although standard variable typing regions (emm subtype, tee type, sof type, and multilocus sequence typing [MLST]) remained unchanged, uniquely the emergent clade had undergone six distinct regions of homologous recombination across the genome compared to the rest of the sequenced emm89 population. (whiterose.ac.uk)
  • Analysis of sub-type specific mutation data from the BC cohort demonstrates an increased mutational load in ECM-related proteins, particularly the myosins, along with increased TP53 clonality in the non-LAR subtypes. (aacrjournals.org)
  • Such predictions of demographic epidemiology based on sequence information may become valuable in assigning different treatment regimens to infected individuals. (washington.edu)
  • The Promise of Whole Genome Pathogen Sequencing for the Molecular Epidemiology of Emerging Aquaculture Pathogens. (ox.ac.uk)
  • We outline, by way of comparison, how sequencing technology is transforming the molecular epidemiology of pathogens of public health importance, emphasizing the importance of community-oriented databases and analysis tools. (ox.ac.uk)
  • Recent adva1nces in whole genome sequencing (WGS) based technologies have facilitated multi-step applications for predicting antimicrobial resistance (AMR) and investigating the molecular epidemiology of Neisseria gonorrhoeae . (biomedcentral.com)
  • The Homeland Security Digital Library (HSDL) maintains a collection of the Centers for Disease Control's (CDC) Morbidity and Mortality Weekly Report (MMWR), which collects and analyzes data from the United States Department of Health and Human Services (HHS) on epidemiology and public health. (hsdl.org)
  • The NH-alpha CH coupling constants of turkey lysozyme are compared to torsion-angle data from three crystal structures of the protein and the results are interpreted in terms of crystal-structure resolution and refinement. (labome.org)
  • Vanderhaeghen R, De Clercq R, Karimi M, Van Montagu M, Hilson P, Van Lijsebettens M. Leader sequence of a plant ribosomal protein gene with complementarity to the 18S rRNA triggers in vitro cap-independent translation. (labome.org)
  • SEView is a Java applet that represents known or predicted elements of a protein or nucleotide sequence. (epfl.ch)
  • We have designed, synthesized, and characterized a 216 amino acid residue sequence encoding a putative idealized α/β-barrel protein. (caltech.edu)
  • A synthetic gene coding for the designed sequence was constructed and the recombinant artificial protein was expressed in bacteria, purified and characterized. (caltech.edu)
  • These encouraging results show that de novo design of an idealized protein structure of more than 200 amino acid residues is now possible, from construction of a particular backbone conformation to determination of an amino acid sequence with an automated sequence selection algorithm. (caltech.edu)
  • Our data base presently includes nucleotide sequences from multiple loci representing some 500-600 accessions of peatmosses. (duke.edu)
  • Analysis of sequences of the mitochondrial control region from baleen whales confirmed that the samples belonged to blue whales ( Balaenoptera musculus ). (sljol.info)
  • We apply the method to mitochondrial data from several different species. (sussex.ac.uk)
  • In a search for the HIV-1 reservoir, we have now sequenced the genome of a new SIVcpzstrain (SIVcpzUS) and have determined, by mitochondrial DNA analysis, the subspecies identity of all known SIVcpz-infected chimpanzees. (nih.gov)
  • The resultant phylogenetic reconstruction thus supports palynological data of this subsection, and indicates the urgent need for a revision of the current morphological classification of Salter (1944). (nrf.ac.za)
  • Data generated by this effort demonstrates that, in addition to detecting the presence of viral RNA, the system can distinguish early immunoglobulin M (IgM) antibodies from late immunoglobulin G (IgG) antibodies, thus providing more information on a patient's stage of infection. (businesswire.com)
  • Using standard phylogenetic and phenetic techniques on 100 HIV-1 subtype B sequences, we were able to show some correlation between the viral sequences and the geographic area of infection and the risk of men who engage in sex with men. (washington.edu)
  • To help identify more subtle relationships between the viral sequences, the method of multidimensional scaling (MDS) was performed. (washington.edu)
  • That method identified statistically significant correlations between the viral sequences and the risk factors of men who engage in sex with men and individuals who engage in sex with injection drug users or use injection drugs themselves. (washington.edu)
  • Here, we discuss the opportunities afforded by whole genome sequencing of bacterial and viral pathogens of aquaculture to mitigate disease emergence and spread. (ox.ac.uk)
  • Prevention recommendations generated from national data (e.g., targeting preexposure prophylaxis for HIV-negative persons at high risk and implementing measures to maintain viral suppression among persons with HIV infection) also are relevant in a lower HIV-morbidity state. (cdc.gov)
  • Molecular systematics of the Western Cape genus Serruria Salisb. (sun.ac.za)
  • Moreover, we find that HIV-1 group N is a mosaic of SIVcpzUS- and HIV-1-related sequences, indicating an ancestral recombination event in a chimpanzee host. (nih.gov)
  • The continual improvement of models and methods for statistical phylogenetic inference from molecular sequence data is well documented [ 4 , 5 ], and in recent years, it is arguably the case that molecular phylogenetics has taken primacy over the fossil record in providing a timescale for evolutionary history [ 1 ]. (royalsocietypublishing.org)
  • Rheonix will present data from a user-defined assay for sexually transmitted infections (STIs), as well as data that demonstrates new capabilities of its system in next-generation sequencing (NGS) library preparation. (businesswire.com)
  • An overview of the changes of our diagnostic approach before and after the transition to next-generation sequencing is also reported. (elsevier.com)
  • Due to the rapid development of "-omics" technology, such as DNA microarrays [ 1 ] and next-generation sequencing (NGS) [ 2 , 3 ], scientists are now able to quantify large numbers of transcripts from organisms simultaneously. (biomedcentral.com)
  • A recent study on sequence polymorphism of four FLC paralogs in B. oleracea indicated that they are not candidate in flowering time variation [ 22 ]. (biomedcentral.com)
  • H. pylori is one of the most genetically diverse bacterial species, displaying from 2.7% to 8.0% of DNA sequence polymorphism ( 14 - 16 ). (cdc.gov)
  • To look for evidence of intrafamilial infection, we isolat- sequence polymorphism (14-16). (cdc.gov)
  • However, microarray technology is dependent on probe-target specificity and the 7 subtypes have yet to be validated using RNA sequencing data, and the presences of recurrent genomic alterations in the 7 subtypes are unknown. (aacrjournals.org)
  • The reconstruction of phylogenetic trees from molecular sequences presents unusual problems for statistical inference. (semanticscholar.org)
  • The plastid and nuclear data were therefore combined in order to analyse the data sets together. (sun.ac.za)
  • and related genera (Orchidaceae: Oncidiinae) were evaluated using parsimony analyses of data from the internal transcribed spacers of nuclear ribosomal (nrITS DNA) and three plastid regions (matK, trnL-F, and the atpB-rbcL intergenic spacer region). (ucr.ac.cr)
  • If a collaborating data producer has created an abstract, it will appear in the Other Abstract (OAB) field. (nih.gov)
  • of MLP, as well as ensemble methods based on resampling techniques, such as bagging and boosting, have been applied to the analysis of DNA microarray data [192, 158, 54, 178, 185]. (uci.edu)
  • We used DNA microarray data available on-line. (uci.edu)
  • Based on microarray data from Stanford Microarray Database, two hNAT pairs were found to display significant inverse expression patterns before and after insulin injection. (mendeley.com)
  • Graph generated 15 March 2017 using data from PubMed using criteria . (cancerindex.org)
  • HIV-1 sequence data reported in Wisconsin during 2014-2017 for persons with HIV infection diagnosed through August 15, 2017, were analyzed using Secure HIV-TRACE (Secure HIV TRAnsmission Cluster Engine). (cdc.gov)
  • Previous molecular and morphological analyses performed on the South African subfamily Proteoideae have shown Serruria, a CFR endemic, to form a well-supported monophyletic group. (sun.ac.za)
  • The molecular data does not support most of the groupings proposed by previous authors based on morphological data. (sun.ac.za)
  • Pollen data "sensu" Dreyer (1996) supports the clades retrieved in this study, whereas very few morphological characters could be plotted as potential synapomorphies for these clades. (nrf.ac.za)
  • Current projects in the lab include molecular phylogenetic analyses of familial and ordinal level relationships in the arthrodontous mosses, studies of hybridization using molecular and morphological markers, and investigations of cryptic speciation within geographically widespread species. (duke.edu)
  • Morphological and molecular information is being used to explore geographic patterns in phylogenetic diversity within the peatmosses. (duke.edu)
  • As you'll know if you've been keeping up with the results of the various big molecular and morphological analyses - and who hasn't - the avian cladogram is gradually coming together, though areas of debate and disagreement remain. (scienceblogs.com)
  • Recent advances have allowed for both morphological fossil evidence and molecular sequences to be integrated into a single combined inference of divergence dates under the rule of Bayesian probability. (royalsocietypublishing.org)
  • We anticipate that this approach will have diverse applications beyond divergence time dating, including dating fossils that are temporally unconstrained, testing of the 'morphological clock', and for uncovering potential model misspecification and/or data errors when controversial phylogenetic hypotheses are obtained based on combined divergence dating analyses. (royalsocietypublishing.org)
  • The breadth and scope of the ORIEN Avatar clinical and molecular data enables the discovery of a wide array of DNA and RNA biomarkers, including those biomarkers associated with response to immuno-oncology agents. (genomeweb.com)
  • In a previous study, we presented the clinical and molecular findings in 140 FCCM individuals. (cdc.gov)
  • A short target sequence of 40-60 bases excised from the computer-generated electropherogram is sufficient for BLAST determination of all clinically relevant HPV genotypes, based on the database stored in the GenBank. (nih.gov)
  • All sequences generated and used in this study have been deposited in GenBank (Nos: MW740435-MW741429). (nature.com)
  • Phylogenetic analyses were conducted using the combined ITS-1 and ITS-2 data sets from the present study and using reference sequences from the GenBank database. (springer.com)
  • Sequencing delivers objective data on taxa of incredible diversity but mostly without a solid taxonomic foundation and should help pave the road for the eventual formal naming of new species. (wikisource.org)
  • Our results provide an estimate of the distribution of fitness effects of weakly selected mutations and provide a possible explanation for why the molecular clock is fairly constant across taxa and time. (sussex.ac.uk)
  • The Genomics & Sequencing Data Integration, Analysis and Visualization Symposium is a part of the Molecular Medicine Tri-Conference. (globus.org)
  • Please join us for a talk by Ravi Madduri on the subject "Integrated Research Data Management and Analysis in NGS Using Globus Genomics. (globus.org)
  • Globus Genomics is a robust, scale on-demand solution that provides end-to-end research data management for Next-Gen Sequencing Analysis using Galaxy, Globus Online and Amazon Web Services. (globus.org)
  • Here, we evaluated three representative and popular read-depth based CNV detection programs: the eXome-Hidden Markov Model (XHMM), the Copy Number Inference From Exome Reads (CoNIFER), and CNVnator using clinical grade WES data. (biomedcentral.com)
  • 1 Laboratory for Molecular Development and Tumor Biology, Centre for Molecular Medicine (CMM), Stockholm, S-171 76, Sweden. (nih.gov)
  • Third, the molecular laboratory is challenged to monitor its sequencing processes for nonrandom process variation and other quality metrics. (cdc.gov)
  • Both parsimony and Bayesian analyses were carried out on each of these data sets. (sun.ac.za)
  • Although molecular data in higher HIV-morbidity states have been analyzed ( 1 - 3 ), few analyses exist for lower morbidity states ( 4 ), such as Wisconsin, which reported 4.6 HIV diagnoses per 100,000 persons aged ≥13 years in 2016 ( 5 ). (cdc.gov)
  • This chapter discusses the principle and the essential technical elements in performing nested PCR DNA amplification for the detection of HPV from clinical specimens and short target sequence genotyping for HPV, using standard molecular biology laboratory equipment and commercially available reagents. (nih.gov)
  • The authors use standard Health Level 7 laboratory result message formats in conjunction with international standards, Systematized Nomenclature of Medicine Clinical Terms and Human Genome Variant Society nomenclature, to represent, communicate, and store discrete gene sequence data within the EHR in a scalable fashion. (elsevier.com)
  • The Operating Innovative Networks (OIN) workshop series is designed to equip university and laboratory network engineers with the knowledge and training needed to build next-gen campus networks that are optimized for data-intensive science. (globus.org)
  • Important Note: As of October 2016, the publisher of the original article has the capability to edit the citation data in the PubMed record using the PubMed Data Management system, with the exception of MeSH data . (nih.gov)
  • Items related to Deep Sequencing Data Analysis (Methods in Molecular. (abebooks.com)
  • Effectively, when carefully planned, any experimental question which can be translated into reading nucleic acids can be applied.In Deep Sequencing Data Analysis , expert researchers in the field detail methods which are now commonly used to study the multi-facet deep sequencing data field. (abebooks.com)
  • Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of necessary materials and reagents, step-by-step, readily reproducible protocols, and key tips on troubleshooting and avoiding known pitfalls. (abebooks.com)
  • When sequenced on the Illumina platform, the resulting libraries yielded NGS sequence data indistinguishable from the labor-intensive methods previously employed by the facility. (businesswire.com)
  • 2008. (Methods in Molecular Biology, Volume 452). (koeltz.com)
  • Using tree construction, MDS, and newly developed likelihood assignment methods on the original 100 samples we sequenced, and also on a set of blinded samples, we were able to predict demographic/risk group membership at a rate statistically better than by chance alone. (washington.edu)
  • It includes an introductory section suitable for readers that are new to the field, a section discussing practical methods for data analysis, and more specialized sections discussing specific models and addressing statistical issues relating to estimation and model choice. (springer.com)
  • It is my hope that it will also help the 'wet lab' molecular evolutionist to better understand mathematical and statistical methods. (springer.com)
  • These membranes are then probed as many times as there are types of tags in the original pools, producing, in each cycle of probing, autoradiographs similar to those from standard DNA sequencing methods. (harvard.edu)
  • Because of the ongoing advancements of molecular based oncology, this trial allows a detailed focus on molecular testing as part of any cohort. (clinicaltrials.gov)
  • Thought leaders will discuss the convergence of cloud computing and big data to support life sciences research. (globus.org)