Genome molecular sequence annotation. Medical search. Frequent questions

Recently, the enhanced sequencing, assembly and annotation of the P. vivax P01 reference genome opens new avenues for molecular biology and evolutionary studies, including transcriptomic aiming to grasp the molecular mechanisms underlying several aspects of P. vivax pathogenesis that are still lacking. (fapesp.br)
The IWGSC recently published a reference genome and associated annotation (IWGSC CS v1.0, Chinese Spring) that has been widely adopted and utilized by the wheat community. (johnshopkins.edu)
The draft reference genome of the American mink (Neovison vison) opens new opportunities of genomic research in mink. (au.dk)

Greatly increased scaffold lengths in the updated reference assembly, along with an updated annotation set, provide improved tools for evolutionary and functional genetic studies of the pigeon, and for comparative avian genomics in general. (nih.gov)
To date, our studies have shown a considerable clinical and economic benefit of sequencing children who were identified by clinicians as being suspected of having a genetic disorder. (aacc.org)
Entrez is NCBI's primary text search and retrieval system that integrates the PubMed database of biomedical literature with 38 other literature and molecular databases including DNA and protein sequence, structure, gene, genome, genetic variation and gene expression. (nih.gov)
The findings challenge the traditional view of our genetic blueprint as a tidy collection of independent genes, pointing instead to a complex network in which genes, along with regulatory elements and other types of DNA sequences that do not code for proteins, interact in overlapping ways not yet fully understood. (nih.gov)
For the future direction, we need the in-depth genome sequence information and analysis for most of the mammals, including human to fully understand genome variation of economic traits, genetic susceptibility to diseases, and pharmacogenomics of drug response. (springer.com)
In addition, we identified 2,411 simple sequence repeats (SSRs) as potential genetic markers from the transcripts. (oregonstate.edu)
Deciphering the genetic architecture underlying polygenic traits in perennial species can inform molecular marker-assisted breeding. (ncsu.edu)
Using genome-wide association analysis we have mapped genetic variation of complex phenotypes such as stature, fertility, production traits and resistance to infections. (au.dk)
Using next generation sequencing technologies, we have been involved in genome sequencing and annotation of functional genetic elements in several animal species, including pig, mink, and bowhead whale. (au.dk)
Our goal is to identify genetic determinants and pathways in the genomes of long-lived species that provide clues as to how some animals such as the bowhead whale can live for centuries and stay free of aging-associated diseases. (au.dk)
The student will evaluate gene expression in relation to measures of genetic diversity, differentiation, and neutrality across the genome to evaluate whether the sequences or the flanking regions of genes with stage-specific expression demonstrate signs of selection. (lu.se)
Included is construction of complete genetic, physical, and transcript maps, and the analysis of this structural genomic information on a global scale such as in GENOME WIDE ASSOCIATION STUDIES. (bvsalud.org)

C. livia is broadly studied in ecology, genetics, physiology, behavior, and evolutionary biology, and has recently emerged as a model for understanding the molecular basis of anatomical diversity, the magnetic sense, and other key aspects of avian biology. (nih.gov)
Introductory data analysis focusing on molecular biology data sets and examples and including basic programming skills using Python and basic statistics skills using R. Students with credit for MBB 243 may not take this course for further credit. (sfu.ca)
The purpose of this introductory data analysis course is to teach students in molecular biology or any students who will analyze molecular data, basic knowledge of molecular biology data types, data analysis methods including basic programming skills using Python, and basic statistics skills using R. (sfu.ca)
In particular, we gained significant insight into DNA sequences that do not encode proteins, which we knew very little about before," said Ewan Birney, Ph.D., head of genome annotation at the European Molecular Biology Laboratory's European Bioinformatics Institute (EBI) in Hinxton, England, who led ENCODE's massive data integration and analysis effort. (nih.gov)
Understanding protein sequence-structure relationship is a key to solving many problems of molecular biology, such as annotation of genome sequences, protein structure prediction, protein-protein interaction, and protein evolution, among others. (cam.ac.uk)
As the sequencing and gene annotation projects of entire genomes of many species are headed towards completion (see, e.g. [13] ), massive mapping efforts in biology are now focused on how the genes interact. (lu.se)
The molecular interactions of genes and gene products underlie fundamental questions of biology. (lu.se)
abstract = "Taverna is an application that eases the use and integration of the growing number of molecular biology tools and databases available on the web, especially web services. (manchester.ac.uk)
During the last decade, next generation sequencing has revolutionized our awareness in basic parasite molecular biology, its ecology and epidemiology knowledge. (fapesp.br)
However, studies on P. vivax biology and pathogenesis about the molecular mechanisms involved in the P. vivax cytoadhesion capacity are scarce, because of the lack of a reliable in vitro P. vivax long term culture. (fapesp.br)
molecular biology databases. (ub.edu)
The 2018 Nucleic Acids Research database issue and the online molecular biology database collection. (cdc.gov)
The course is aimed at individuals from a molecular biology background who have a basic understanding of biochemistry and/or genetics and would like to become bioinformatics users. (h3abionet.org)
My role in the group, is to bridge the wet and dry lab, working both with molecular biology and bioinformatics. (lu.se)
My education at Lund University have given me a broad and solid foundation in both molecular biology and bioinformatics, allowing me to freely travel between the fields and combining them in my research. (lu.se)

BioSystems currently contains biological pathways from the Kyoto Encyclopedia of Genes and Genomes (KEGG) and the EcoCyc ( Escherichia coli K-12 MG1655) subset of the BioCyc databases and is designed to accommodate other data in the future. (nih.gov)
In recent years, researchers have made major strides in using DNA sequence data to identify genes, which are traditionally defined as the parts of the genome that code for proteins. (nih.gov)
The protein-coding component of these genes makes up just a small fraction of the human genome - 1.5 percent to 2 percent. (nih.gov)
However, until now, most studies have concentrated on functional elements associated with specific genes and have not provided insights about functional elements throughout the genome. (nih.gov)
The size of the G. buenoi genome is approximately 1,000 Mb, and this sequencing effort has recovered 20,949 predicted protein-coding genes. (umd.edu)
Our pipeline, ExInAtor, identifies genes with excess load of somatic single nucleotide variants (SNVs) across panels of tumour genomes. (nature.com)
We have presented a first catalogue of mutated lncRNA genes driving cancer, which will grow and improve with the application of ExInAtor to future tumour genome projects. (nature.com)
Whole genome sequencing makes it possible to comprehensively discover the mutations, and the mutated genes, that are responsible for tumour formation. (nature.com)
The assembled transcriptome is estimated to have the complete sequence information for ~86% of the genes found in the Chia genome. (oregonstate.edu)
By comparing four sequenced genomes (the human malaria P. falciparum and the rodent malarias P. yoelii, P. chabaudi and P. berghei ), the scientists found that the major differences between the malarial species are found in the virulence factors (which are at the chromosome ends) while the "housekeeping" genes are almost totally unchanged. (jcvi.org)
Here, we describe a reference-guided effort to scaffold those contigs into chromosome-length pseudomolecules, add in any missing sequence that was unique to the IWGSC CS v1.0 assembly, and annotate the resulting pseudomolecules with genes. (johnshopkins.edu)
Such functional data are essential for understanding of how sequence variation in genes and regulatory elements determine phenotypic diversity. (au.dk)
Meta-analysis of genome-wide association studies for cattle stature identifies common genes that regulate body size in mammals. (au.dk)
The availability of the genome sequence now opens the possibility of identifying genes involved in producing therapeutic molecules and to produce them in vitro (in the lab) according to CSIR. (livemint.com)
The genome sequence and annotation of Basil provides new insights into the function of genes and the medicinal nature of the metabolites synthesized in this plant. (livemint.com)
With the sequencing of the oyster genome, scientists are focusing on deciphering the function of the predicted genes. (colby.edu)
By understanding the molecular details of this interaction, we can identify virulence-associated microbial genes and host-defense strategies and characterize the cues to which they respond and mechanisms by which they are regulated. (medscape.com)
This is achieved through mechanistic studies of functionally important epigenetic "driver" genes and molecular pathways altered by specific cancer risk agents and by the application of cutting-edge epigenomics in conjunction with unique biospecimens from population-based cohorts (Figure 1). (who.int)
The student will be responsible for improving the annotations, especially for the untranslated regions that lie up and downstream of protein coding genes. (lu.se)

The first one uses genetics associations (from Genome Wide Association Studies - GWAS) to find new indications for drugs some of which are being validated experimentally. (iscb.org)
Research in my laboratory has been directed towards developing insight into the function of farm animal genomes to understand the genetics of monogenic and quantitative traits. (au.dk)
The molecular genetics of vertebrate longevity and aging. (au.dk)
Current research in my laboratory is concerned with understanding the molecular genetics of extraordinary long lifespan and aging. (au.dk)

An international research consortium today published a set of papers that promise to reshape our understanding of how the human genome functions. (nih.gov)
Carried out by 35 groups from 80 organizations around the world, the research served as a pilot to test the feasibility of a full-scale initiative to produce a comprehensive catalog of all components of the human genome crucial for biological function. (nih.gov)
The completion of the Human Genome Project in April 2003 was a major achievement, but the sequencing of the genome marked just the first step toward the goal of using such information to diagnose, treat and prevent disease. (nih.gov)
Having the human genome sequence is similar to having all the pages of an instruction manual needed to make the human body. (nih.gov)
The collaborative study focused on 44 targets, which together cover about 1 percent of the human genome sequence, or about 30 million DNA base pairs. (nih.gov)
The targets were strategically selected to provide a representative cross section of the entire human genome. (nih.gov)
Our results reveal important principles about the organization of functional elements in the human genome, providing new perspectives on everything from DNA transcription to mammalian evolution. (nih.gov)
The ENCODE consortium's major findings include the discovery that the majority of DNA in the human genome is transcribed into functional molecules, called RNA, and that these transcripts extensively overlap one another. (nih.gov)
The completion of the first human genome drafts (Yamey 2000 ) was just a start of the modern DNA sequencing era which resulted in further invention, improved development toward new advanced strategies of high-throughput DNA sequencing, so called the " high-throughput next generation sequencing " (HT-NGS). (springer.com)
The National Human Genome Research Institute (NHGRI) has echoed this need through its vision for genomics research (Collins et al. (springer.com)
Year 2011 is celebrated as the 10th anniversary since the human genome was first sequenced ( www.nature.com/natureconferences/hg10years/index.html ). (springer.com)
During this period, tremendous success has been achieved in the fields of decoding of human genome, technological advancement of new era of human genome applications, toward personalized genomes and discovery of rare variants, leveraging genome sequencing to impact on cancer researches and mammalian evolution and population structure. (springer.com)
As of August 10, 2000, draft sequence was available for 87% of the human genome (https://www.ncbi.nlm.nih.gov/genome/seq/), and at least 39 prokaryotic genomes, including those of more than a dozen human pathogens, had been completely sequenced https://www.tigr.org/tdb/mdb/mdbcomplete.html). (medscape.com)

The high-throughput - next generation sequencing (HT-NGS) technologies are currently the hottest topic in the field of human and animals genomics researches, which can produce over 100 times more data compared to the most sophisticated capillary sequencers based on the Sanger method. (springer.com)
The leading genome research centers and scientists have publicly recognized that these are the core enabling goals for the next decade genomics research. (springer.com)
Overall, this study provides a comprehensive transcriptome atlas, and SSRs, contributing to building essential genomic resources to support basic research, genome annotation, functional genomics, and molecular breeding of Chia. (oregonstate.edu)
In an innovative project with implications for malaria vaccine development, scientists have used genomics, proteomics and gene expression studies to trace how malaria parasites evolve on a molecular level as they move between their hosts and insect vectors. (jcvi.org)
Silver Age of GOLD Introduces New Features The Genomes OnLine Database makes curated microbiome metadata that follows community standards freely available and enables large-scale comparative genomics analysis initiatives. (doe.gov)
WALNUT CREEK, CA - The Department of Energy's Joint Genome Institute (JGI), whose Production Genomics Facility in Walnut Creek is one of the fastest and most powerful in the U.S., has been enlisted to help safeguard public safety by determining the whole genome sequences of a variety of infectious bacteria-a first step toward developing tests that can be used to rapidly identify their presence in the environment. (doe.gov)
The Web site "www.artichokegenome.unito.it" hosts all the available genomic sequences, together with their structural/functional annotations and project information are presented to users via the open-source tool JBrowse, allowing the analysis of collinearity and the discovery of genomic variants, thus representing a one-stop resource for Cynara cardunculus genomics. (researchgate.net)

It allows bioinformaticians to construct workflows or pipelines of services to perform a range of different analyses, such as sequence analysis and genome annotation. (manchester.ac.uk)
We sequenced the whole-genomes of 27 Tibetans and conducted analyses to infer a detailed history of demography and natural selection of this population. (providence.org)
These analyses include gene prediction, automated genomic annotation and genome comparison/alignment. (uni-hamburg.de)
Analyses of pig genomes provide insight into porcine demography and evolution. (au.dk)
The first high-quality genome assembly of the globe artichoke has been produced within the Compositae Genome Project and the resequencing analyses of four globe artichoke genotypes, representative of the core varietal types, as well as a genotype of the related taxa cultivated cardoon was, later on, carried out. (researchgate.net)

RefSeq: an update on prokaryotic genome annotation and curation. (cdc.gov)

Genome sequence-based molecular characterization was performed using either completed assemblies or individual sequencing reads. (cdc.gov)
Molecular typing by multiple-locus variable number tandem repeat analysis (MLVA) was determined from closed genome assemblies using a custom bioinformatics pipeline (wgsMLVA). (cdc.gov)
The Assembly resource provides access to genome assemblies for both submitted data and NCBI RefSeq assemblies. (nih.gov)
We used ~355 million high-quality reads of total ~394 million raw reads from transcriptome sequencing to generate reference transcriptome assembly and the tissue-specific transcript assemblies. (oregonstate.edu)
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies. (cdc.gov)
The project will rely on published whole genome assemblies and gene annotations of various qualities. (lu.se)

The BioProject database is a searcheable collection of complete and incomplete (in-progress) large-scale molecular projects including genome sequencing and assembly, transcriptome, metagenomic, annotation, expression and mapping projects. (nih.gov)
We report an RNA-sequencing (RNA-Seq)-based comprehensive transcriptome atlas of Chia sampled from 13 tissue types covering vegetative and reproductive growth stages. (oregonstate.edu)
genome informatics focuses on the development and application of algorithms and software for analysis of large sets of data, e.g. sequence sets and transcriptome data. (uni-hamburg.de)

We use ExInAtor to predict drivers from the GENCODE annotation across 1112 entire genomes from 23 cancer types. (nature.com)
Focussing on entire genomes, rather than just captured exomes, these studies hope to identify driver elements amongst the ~98% DNA that does not encode protein. (nature.com)

He was also the first author of the 2002 study - led by scientists at TIGR, Sanger, and Stanford University - that presented the complete genome of Plasmodium falciparum , the deadliest human malarial parasite. (jcvi.org)
Isolation and complete genome analysis of neurotropic dengue virus serotype 3 from the cerebrospinal fluid of an encephalitis patient. (cdc.gov)

However, due to the complexity and size of its allohexaploid genome, genomic resources are limited compared to other major crops. (johnshopkins.edu)
According to the scientists, the development of molecular tools and genomic resources will accelerate molecular breeding and ultimately the utility of basil in medical community. (livemint.com)

Genome structural diversity among 31 Bordetella pertussis isolates from two recent US whooping cough statewide epidemics. (cdc.gov)
The history of Bordetella pertussis genome evolution includes structural rearrangement. (cdc.gov)
Structural bioinformatics: introduction to the experimental methods used in the structural prediction of biomolecules, with ab initio protein modelling and homology modelling, and the simulation of biomolecular systems, including energy predictions and molecular interaction. (ub.edu)
Mauno Vihinen is well-known for his experience and interest in investigating variations and their effects whether they emerge at molecular levels (DNA, RNA protein), in structural context or in the cellular networks and pathways. (lu.se)

Molecular phylogeny shows that the genus is divided into Old World and New World clades, but many oak species hybridise freely, making the genus's history difficult to resolve. (wikipedia.org)
This accumulation of data has been paralleled by the creation of numerous public biological databases through which the scientific community can mine the sequences and annotations of genomes, transcriptomes, and proteomes of multiple species. (lu.se)
The same search parameters were applied to reveal the SSR content of 14 other plant species for which genome sequence is available. (researchgate.net)

Here we report the assembly and annotation of its mitochondrial genome. (usda.gov)
Sequenced using PacBio technology and error-corrected using Illumina sequences, the complete mitochondrial genome was assembled into a circular molecule of 39,618 bp, with 22.03% GC content. (usda.gov)
Further analysis of this mitochondrial genome will be presented. (usda.gov)

ClinVar provides standardized nomenclature for variants and phenotypes, a review status for variants, and links to related NCBI literature and molecular databases. (nih.gov)
The advantageous Tibetan EPAS1 haplotype shared many variants with the Denisovan genome, with an ancient gene tree divergence between the Tibetan and Denisovan haplotypes of about 1 million years ago. (providence.org)

The cumulative coverage depth of PacBio and Illumina sequencing for each isolate is listed in Appendix Table 1. (cdc.gov)
Join us for this exciting digital event where Edward Oakeley, PhD, from Novartis will share and explain his experience and the developments of the HiFi AAV genome sequencing method over time and how his group has developed a modified library preparation protocol to maximize the usefulness of PacBio HiFi reads for AAV characterization. (pacb.com)
High-Quality Whole-Genome Sequences for 21 Enterotoxigenic Escherichia coli Strains Generated with PacBio Sequencing. (cdc.gov)

Comprehensive analysis of pan-cancer genomes revealed clusters of DNA copy-number-neutral rearrangements-termed balanced chromothripsis-across diverse tumour types resulting in the acquisition of known cancer driver events. (nature.com)
base calling and variant annotation, and variant analysis and interpretation. (aacc.org)
and The Institute for Genomic Research (TIGR), in Maryland, where scientists did a comparative analysis of the two draft genomes with those of the first rodent malaria parasite to be sequenced, Plasmodium yoelii . (jcvi.org)
We have created methods for looking for drug interactions at the molecular and cellular level, as well as through logical analysis of the literature, and data mining of population-based health records. (iscb.org)
We are interested in the analysis and modeling of the three-dimensional chromatin structure from high-throughput sequencing experiments. (ucsd.edu)
On day 8, the serum and colon tissue were collected for histological and molecular analysis to investigate the main active components and mechanism of IR. (bvsalud.org)
Ravi K, García-Hidalgo J, Brink DP, Skyvell M, Gorwa-Grauslund MF, Lidén G. Physiological characterization and sequence analysis of a syringate-consuming Actinobacterium. (lu.se)
Cross-ancestry genome-wide meta-analysis of 61,047 cases and 947,237 controls identifies new susceptibility loci contributing to lung cancer. (who.int)
This means that I have a role in the research from when we receive tissue biopsies from women with PCOS, sequencing it and performing the data analysis and drawing biological conclusions. (lu.se)

Having this goal, we have successfully (i) isolated RNA from a panel of P. vivax field isolates with scarce parasitemia enriched in (cyto-)adhesion phenotypes from the Amazon malaria endemic region, (ii) complete the generation of transcriptomic libraries and (iii) sequenced them using the Illumina® platform. (fapesp.br)

The design and construction of a DNA microarray for any given microbial genome are straightforward. (medscape.com)

Here we report an update to the C. livia genome reference assembly and gene annotation dataset. (nih.gov)
BioSample contains descriptions of biological source materials used in studies that have data in other NCBI molecular databases such as Assembly, Nucleotide and SRA. (nih.gov)
Although this reference assembly represents all three wheat subgenomes at chromosome- scale, it was derived from short reads, and thus is missing a substantial portion of the expected 16 Gbp of genomic sequence. (johnshopkins.edu)
We earlier published an independent wheat assembly (Triticum_aestivum_3.1, Chinese Spring) that came much closer in length to the expected genome size, although it was only a contig-level assembly lacking gene annotations. (johnshopkins.edu)
Our updated assembly, Triticum_aestivum_4.0, contains 15.07 Gbp of nongap sequence anchored to chromosomes, which is 1.2 Gbps more than the previous reference assembly. (johnshopkins.edu)
Draft genome assembly of Stutzerimonas sp. (lu.se)

With the ongoing developments of high throughput sequencing machines and advancement of modern bioinformatics tools at unprecedented pace, the target goal of sequencing individual genomes of living organism at a cost of $1,000 each is seemed to be realistically feasible in the near future. (springer.com)

We initiated an effort to sequence and annotate the genome of P. sansomeana. (usda.gov)
A variety of methods has been designed to annotate sequences on a large scale. (biomedcentral.com)
Here, we provide the basic methodology to understand the gene functions, and mechanisms that underlie oyster physiology and ecology, in order to annotate the oyster genome. (colby.edu)

His interests include Bordetella molecular pathogenesis and gene expression bioinformatics. (medscape.com)
EGE also develops epigenomic methodologies, profiling strategies, and bioinformatics tools, applicable to population-based cohorts and molecular epidemiology studies coordinated by IARC researchers and external collaborators. (who.int)

The study takes an "evolutionary approach" to exploring how the Plasmodium genome has evolved. (jcvi.org)
Evolutionary history of Tibetans inferred from whole-genome sequencing" by Hao Hu, Nayia Petousi et al. (providence.org)
Evolutionary history of Tibetans inferred from whole-genome sequencing. (providence.org)
Nucleic acid sequencing expresses the evolutionary changes among organisms and revolutionizes disease diagnosis in animals. (mdpi.com)

Alleles for common molecular typing loci (ptxP, ptxA, ptxB, fimH, and prn ) were assigned by genome alignment to a curated set of wild-type and deficient alleles using high-stringency. (cdc.gov)

When available each record links to detailed diagrams and annotations for individual pathways on the Web sites of the source databases. (nih.gov)
Molecular paThwayS criTical for cancer developMenT and progreSSion, ThuS enhancing The evidence baSe direcTly relevanT To STudieS of cancer cauSaTion and prevenTion. (who.int)

Pharmaceutical chemoinformatics: molecular library management and its virtual filters, computer-assisted drug design and quantitative and 3D quantitative structure-activity relationship correlation. (ub.edu)

Conserved Domains is a database of protein domains represented by sequence alignments and profiles for protein domains conserved in molecular evolution. (nih.gov)
Here, we present a compilation of DNA and protein databases, as well as bioinformatic tools for phylogenetic reconstruction and a wide range of studies on molecular evolution. (lu.se)
He has contributed significantly to the state-of-the-art by frequently presenting novel ideas, methods and results and have pioneered several important proof-of-concepts relevant for the project, including the conceptualization of DNA, RNA and protein variation to Variation Ontology (Vihinen, Genome Res . (lu.se)

4. Letunic I, Bork P. Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees. (cdc.gov)
We provide a protocol for information extraction from biological databases and simple phylogenetic reconstruction using probabilistic and distance methods, facilitating the study of biodiversity and evolution at the molecular level for the broad scientific community. (lu.se)
One of the methods that does seem to work well is TargetScan, which relies on both pairing of seed sequences (a subset of the 18-23 bp that make up a miRNA) and phylogenetic conservation of sites. (lu.se)

Mercator: a fast and simple web server for genome scale functional annotation of plant sequence data. (mpg.de)
BioProject provides a central point to link to all data associated with a project in the NCBI molecular and literature databases. (nih.gov)
In turn, that molecular-level data will benefit biomedical scientists who are identifying new targets for vaccines that would impede the parasite during stages when it is particularly vulnerable to intervention. (jcvi.org)
We present a complete automated annotation system that overcomes many of the usual problems by applying a controlled vocabulary of Gene Ontology and an established classification method on large and well-described sequence data sets. (biomedcentral.com)
However, the increasing gap between the amount of sequence data available and the time needed for their experimental characterisation demands computational function prediction in complementing manual curation [ 1 - 4 ]. (biomedcentral.com)
In Hamburg, such methods are developed for virtual screening, design of molecular libraries and visualisation of molecular data for drug design. (uni-hamburg.de)
A Better Way to Find RNA Virus Needles in the Proverbial Database Haystacks Researchers combed through more than 5,000 data sets of RNA sequences generated from diverse environmental samples around the world, resulting in a five-fold increase of RNA virus diversity. (doe.gov)
Comprehensive assessment of the quality of Salmonella whole genome sequence data available in public sequence databases using the Salmonella in silico Typing Resource (SISTR). (cdc.gov)
DNA microarrays exploit primary sequence data to measure transcript levels and detect sequence polymorphisms, for every gene, simultaneously. (medscape.com)
Genomic sequencing will provide the data needed to unravel the complexities of the host-pathogen interaction. (medscape.com)
The multilocus sequence type, multiantigen sequence type, presence of determinants of antimicrobial resistance and relatedness among the isolates were all derived from the sequence data. (who.int)
We have extensive whole genome and RNA sequencing data taken from whole samples of flies at three life stages: larva, pupa and adult. (lu.se)
The student will analyze gene expression in a reference-based pipeline using existing RNA sequencing data from larvae, pupae, and adult flies from each of the two host forms. (lu.se)

The systematic study of the complete DNA sequences (GENOME) of organisms. (bvsalud.org)

MicroRNA-guided prioritization of genome-wide association signals reveals the importance of microRNA-target gene networks for complex traits in cattle. (au.dk)

Manual annotation uncovered a number of local (tandem and proximal) gene duplications and expansions of gene families known for their importance in a variety of processes associated with morphological and physiological adaptations to a water surface lifestyle. (umd.edu)
5700 additional gene copies, facilitating the accurate annotation of functional gene duplications including at the Ppd- B1 photoperiod response locus. (johnshopkins.edu)

We have used molecular methods to propose repurposing for kinases, cellular methods for potentially repurposing parthenolide, and have found synergistic interactions between existing drugs that create responses not associated with either drug alone. (iscb.org)
We develop methods that are based in statistics, machine learning, optimization and graph theory to understand how changes in the 3D genome affect cellular outcome such as development, differentiation and gene expression. (ucsd.edu)
High-throughput methods for assessment of function are clearly required if this wealth of primary sequence information is to be used. (medscape.com)
Several independent high-throughput methods for differential gene expression (including SAGE and differential display) may enable function annotation of sequenced genomes [ 2 ] . (medscape.com)
His interests are in the development and use of molecular methods for pathogen discovery, human microbial ecology, genomewide host and microbial responses to infection, and Bordetella pathogenesis. (medscape.com)

A maximum-likelihood phylogeny was reconstructed using RAxML ( 3 ) and additional tree annotation was performed using iTOL ( 4 ). (cdc.gov)
Molecular phylogeny and divergence times of deuterostome animals. (xenbase.org)

Developments in sequencing technologies and the sequencing of an ever-increasing number of genomes have revolutionised studies of biodiversity and organismal evolution. (lu.se)
Ongoing genome sequencing and recent developments in cDNA sequencing projects have led to an exponential rise in the amount of sequence information. (biomedcentral.com)

Strikingly, the G. buenoi genome contains three insulin receptors, suggesting key changes in the rewiring and function of the insulin pathway. (umd.edu)

Another TIGR scientist who played an important role in the project is Associate Investigator Jane Carlton, who had led the sequencing of P. yoelii at TIGR and who has worked on Plasmodium for most of her research career. (jcvi.org)

Genome-wide association study identifies 74 loci associated with educational attainment. (fsu.edu)

In the pilot phase, ENCODE researchers devised and tested high-throughput approaches for identifying functional elements in the genome. (nih.gov)
Recent advances in high-throughput sequencing have enabled strategies that integrate linkage-linkage disequilibrium (LD) mapping in Populus. (ncsu.edu)

Tracing the Evolution of Shiitake Mushrooms Understanding Lentinula genomes and their evolution could provide strategies for converting plant waste into sugars for biofuel production. (doe.gov)
Genome Insider: A Shrubbier Version of Rubber Hear from the consortium working on understanding the guayule plant's genome, which could lead to an improved natural rubber plant. (doe.gov)

Nucleic acids are the basic units of deoxyribonucleic acid (DNA) sequencing. (mdpi.com)
This paper proposes a generative adversarial networks (GAN) model to create synthetic nucleic acid sequences of the cat genome tuned to exhibit specific desired properties. (mdpi.com)

Inspiring accounts from a biopharmaceutical researcher who has harnessed the power of HiFi sequencing to achieve highly accurate reads for AAV vector discovery, design, and optimization. (pacb.com)

9.1 and re-annotation of Pseudomonas putida CalA as a vanillin reductase. (lu.se)

Insights into the evolution of longevity from the bowhead whale genome. (au.dk)

2003 ). The NHGRI has categorized new sequencing approaches into those that offer near-term and revolutionary benefits with a 100-fold cost reduction per base pair (bp) within the next five years. (springer.com)

By sequencing pairs of normal and tumour genomes from large patient cohorts, projects such as the ICGC (International Cancer Genome Consortium) and TCGA (The Cancer Genome Atlas) aim to create definitive driver mutation catalogues for all common cancers 1 , 2 . (nature.com)

The GO terms are organised in structured, controlled vocabularies (ontologies) to describe gene products in terms of their associated biological processes, cellular components and molecular functions. (biomedcentral.com)
However, the limited number of molecular and cellular tools available makes functional annotation of the genome challenging. (colby.edu)
GTPases of the Rho family are molecular switches that play important roles in converting and amplifying external signals into cellular effects. (xenbase.org)

Similar to traditional PCR-based approaches, wgsMLVA uses primer sequences to identify 6 Variable Number Tandem Repeat (VNTR) sites which contain a varying set of short sequence repeats ( 2 ). (cdc.gov)

While much molecular and genomic information is available about the other pathogen, P. sojae, only sparse information in these areas about P. sansomeana is known. (usda.gov)
Complete genomic sequences of microbial pathogens and hosts offer sophisticated new strategies for studying host-pathogen interactions. (medscape.com)

Anatomy4

Organisms8

Diseases2

Chemicals and Drugs25

Analytical, Diagnostic and Therapeutic Techniques and Equipment26

Phenomena and Processes82

Disciplines and Occupations6

Anthropology, Education, Sociology and Social Phenomena1

Technology, Industry, Agriculture2

Information Science44

Health Care10

Reference genome3

Genetic12

Biology15

Genes19

Genetics4

Human genome13

Genomics7

Analyses5

Prokaryotic1

Assemblies6

Transcriptome3

Entire genomes2

Complete genome2

Genomic resources2

Structural4

Species3

Mitochondrial genome3

Variants2

PacBio3

Analysis9

Illumina1

Microarray1

Assembly6

Living organism1

Annotate3

Bioinformatics2

Evolutionary4

Alignment1

Pathways2

Quantitative1

Protein3

Phylogenetic3

Data13

Organisms1

Reveals1

Gene duplications2

Methods5

Phylogeny2

Developments2

Receptors1

Plasmodium1

Loci1

High-throughput2

Plant2

Nucleic2

Reads1

Pseudomonas1

Evolution1

NHGRI1

Cohorts1

Cellular3

Approaches1

Pathogen2