MolecularCharacterizationPutativeESTsGeneticIntronHomologousGenomicsCDNADifferentially expressedOocyte-specific genesGenomesCandidate genesNovel genesFunctionalGenBankComparativeExpressionRecombinantSpeciesPreferentially expressedAnalysesAnnotationRegulateMRNATranscriptomeTransmembraneFragmentsSangerComputationalFacilitateStructuresSubsetEpigeneticTranscriptionDistinctPhylogeneticBrassicaRepertoireAntibodyPortion of the genomeOrganismsVertebratesFungiMutationsSubunitChromosomesRegulationHigh-throughputSSRsPhenotypeMicroarrayIsolateHomologuesGenome sequenceIdentifyHumanHighly expressedResultsVariantsSubsetsSubfamiliesImmunohistochemicalPredictionMaturation
Molecular13
- These include previously unknown sequence data, a collection of expressed genes, molecular markers, and a DNA microarray that can be used to study aphid gene expression. (nih.gov)
- In this study, we compare two environmental sequencing projects to find molecular evidence of transfer of microbes over vast geographical distances. (embl.de)
- When it was fused with the N-terminally His-tagged protein, it gave rise to accumulation of an expected 22-kDa polypeptide, in good agreement with the predicted molecular weight. (geneticsmr.com)
- A peptide of 387 amino acid residues with protein molecular weight of 43.2 kD and isoelectric point (p I ) of 9.42 were deduced from AhLPAT . (chinacrops.org)
- Genetic and molecular analyses have led to the identification, cloning and characterization of a few genes that contribute to parasitic fitness in the pathogens. (sisef.it)
- 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 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)
- Conserved Domains is a database of protein domains represented by sequence alignments and profiles for protein domains conserved in molecular evolution. (nih.gov)
- More than 60 percent of all National Institutes of Health grants-covering a wide range of problems in medicine and biology-propose use of the molecular methods of cloning, mapping, or sequencing to investigate problems. (nationalacademies.org)
- J. Pinzon and T. Lajeunesse , Species delimitation of common reef corals in the genus Pocillopora using nucleotide sequence phylogenies, population genetics and symbiosis ecology , Molecular Ecology , vol. 37 , issue. (hal.science)
- A model is proposed where the relative levels of active antagonist (RsbV1) and switch-protein anti-sigma factor (RsbW) control the availability of σ 66 and subsequently act as a molecular 'throttle' for Chlamydia growth and development. (plos.org)
- Because the molecular basis of the parent of origin effects in PGL1 is unknown, it is unclear whether transmissions of mutations in SDHC , the protein product of which couples with that of SDHD and forms the membrane spanning domain of mitochondrial complex II, also shows any parent of origin effects. (bmj.com)
- By cataloguing the molecular processes by which cells maintain and modify protein levels, proteomic studies offer another dimension of information that may help advance our understanding of health and disease. (cdc.gov)
Characterization2
- Bacterial artificial chromosome clones have been isolated from a trout library to further facilitate genomic characterization. (usda.gov)
- Complete genomic characterization defines human glioblastoma genes and core pathways. (nfkbcell.com)
Putative9
- Using this approach, we have generated a large amount of data forexpressed sequence tags, which provides an opportunity for the discovery of putative novel transcripts andalternative splice variants that could be developmentally specific to the first larval stage. (sfu.ca)
- T . equi has lost the putative genes for host cell transformation, or the genes were acquired by T . parva and T . annulata after divergence from T . equi . (biomedcentral.com)
- A total of 3,665 putative transporters have been annotated based on International Medicago Genome Annotated Group (IMGAG) V3.5 V3 and the M. truncatula Gene Index (MTGI) V10.0 releases and assigned to 162 families according to the transporter classification system. (wustl.edu)
- In addition, we have provided a way to explore the expression of putative M. truncatula transporter genes under stress treatments.Conclusions: In summary, the MTDB enables the exploration and comparative analysis of putative transporters in M. truncatula. (wustl.edu)
- Rapid and comprehensive analysis of putative proteinous allergens ( allergenome ) by applying such a proteomic strategy … With allergenomics, we can not only detect and assign the putative allergens (proteins specifically interacting with IgE antibodies in a patient's blood) in a short time, but also analyze the quantitative and qualitative change of the antigens, depending on the surroundings and environmental conditions of an allergenic causative. (genomicglossaries.com)
- We have identified 169 gene products in the Ciona genome that code for putative GPCRs. (biomedcentral.com)
- In vitro analysis revealed that a putative switch-protein kinase regulator, RsbW, is capable of interacting directly with σ 66 , as well as phosphorylating its own antagonist, RsbV1, rendering it inactive. (plos.org)
- Here, we used a genomics/proteomics approach (including immunoblot experiments from pigs infected with T. suis ) to prioritize putative immunogenic excretory/secretory (E/S) proteins conserved across and specific to several gastrointestinal (GI) parasitic nematode species. (frontiersin.org)
- An antibody-protein array of putative immunogenic proteins was developed from a combined bioinformatic, experimental, and literature-based prioritization of homologous parasite proteins. (frontiersin.org)
ESTs14
- Sequencing of 16 M. persicae cDNA libraries generated 26,669 expressed sequence tags (ESTs). (nih.gov)
- In most microarray experiments, a significant fraction of the differentially expressed mRNAs identified correspond to expressed sequence tags (ESTs) and are generally discarded from further analyses. (elsevierpure.com)
- The GeneExpress® software system Fold Change Analysis Tool was used and 60 ESTs were identified that were expressed at levels at least 3-fold greater in the pancreatic cancers as compared to normal tissues. (elsevierpure.com)
- Searches against the human genomic sequence and comparative genomic analysis of human and mouse genomes was carried out using basic local alignment search tools (BLAST), BLASTN, and BLASTX, for identifying protein coding genes corresponding to the ESTs. (elsevierpure.com)
- We were able to definitively map 43 of the 60 ESTs to known or novel genes, and 15 of the ESTs could be localized in close proximity to a gene in the human genome although we were unable to establish that the EST was indeed derived from those genes. (elsevierpure.com)
- As a first step in pursuing this research, we report the generation and analysis of expressed sequence tags (ESTs) from the male accessory gland of H. erato and H. melpomene, species representative of the two mating systems present in the genus Heliconius. (ku.edu)
- Results: We successfully sequenced 933 ESTs clustering into 371 unigenes from H. erato and 1033 ESTs clustering into 340 unigenes from H. melpomene. (ku.edu)
- Conclusion: This collection of ESTs will serve as the foundation for the future identification and evolutionary analysis of male reproductive proteins in Heliconius butterflies. (ku.edu)
- We aimed to identify resistance gene analogs (RGAs) from peanut expressed sequence tags (ESTs) and to develop polymorphic markers. (jipb.net)
- The protein sequences of 54 known R genes were used to identify homologs from peanut ESTs from public databases. (jipb.net)
- A total of 1,053 ESTs corresponding to six different classes of known R genes were recovered, and assembled 156 contigs and 229 singletons as peanut-expressed RGAs. (jipb.net)
- This track displays translated blat alignments of expressed sequence tags (ESTs) in GenBank from organisms other than human. (noncode.org)
- ESTs are single-read sequences, typically about 500 bases in length, that usually represent fragments of transcribed genes. (noncode.org)
- For example, to apply the filter to all ESTs expressed in a specific organ, type the name of the organ in the tissue box. (noncode.org)
Genetic10
- These results suggest that NOBOX gene is a strong autosomal candidate for POF and its genetic mechanism involves haploinsufficiency. (wikipedia.org)
- Comparison of cDNA data from three aphid lineages identified single nucleotide polymorphisms that can be used as genetic markers and, in some cases, may represent functional differences in the protein products. (nih.gov)
- We have shown that approximately 14% of the newly sequencedexpressed sequence tags map completely or partially to genomic regions where there are no annotated genes orsplice variants and therefore, imply that these are novel genetic structures. (sfu.ca)
- DNA-based (genetic and genomic) monitoring is a critical component of biodiversity monitoring because it allows for the tracking and quantification of temporal changes in population genetic metrics or other population data. (nibio.no)
- Analysis of genetic diversity and population structure of peanut cultivars and breeding lines from China, India and the US using simple sequence repeat markers [J]. J Integr Plant Biol. (jipb.net)
- The wild plant species adapted to the Mongolian grassland environment may allow us to explore useful genes, as a source of unique genetic codes for crop improvement. (frontiersin.org)
- The bug makes short sequences of the DNA-relative RNA, which are the genetic mirror-image of the un-used coat genes. (thenakedscientists.com)
- To prevent companies and governments from stealing genes, invading genetic privacy and undermining human rights and dignity, we urgently need a Genetic Bill of Rights and a Global Ethics Council, Mae-Wan Ho warns of the fall-outs from the human genome project. (i-sis.org.uk)
- Next-generation sequencing technologies have dramatically changed the approach to genetic diagnosis. (msdmanuals.com)
- This revolutionary and rapidly evolving technology has moved a significant portion of the technical aspects of genetic diagnosis to next-generation sequencing and has become the mainstay of genetic diagnosis. (msdmanuals.com)
Intron5
- Three introns were identified in the rainbow trout, Atlantic salmon and zebrafish genomic sequences, and the intron locations correspond closely to those in the mammalian TNFSF 13b genes. (usda.gov)
- The presence of an intron, subunit fusion and expressed sequence tags covering parts of the gene exclude contamination and suggest a functional gene. (embl.de)
- Expressedsequence tags, which map across intron-exon boundaries (around 300), indicate possible alternative splice sites,while expressed sequence tags, which map near the ends of known transcripts (around 600), suggest extensionof the coding or untranslated regions. (sfu.ca)
- Transposon-Derived and Satellite-Derived Repetitive Sequences Play Distinct Functional Roles in Mammalian Intron Size Expansion. (openwetware.org)
- Splicing of RHO intron 3 and GNAT1 introns 3-5 mini-gene templates was inefficient with both spliced and unspliced products clearly detected. (molvis.org)
Homologous6
- It is the only mushroom-forming fungus for which genes have been inactivated by homologous recombination. (nature.com)
- Two polymerase chain reaction-based markers ( Ahsw-1 and Ahsw-2 ) developed from RGA013 were homologous to the Tomato Spotted Wilt Virus (TSWV) resistance gene. (jipb.net)
- After Blast analysis within GenBank, 64% could be identified, 21% were homologous to unannotated expressed sequence tag (EST) or genomic sequences, and 15% were novel. (appliedbioinfo.com)
- Comparison of the deduced amino acid sequences of the giant panda with those of these other species revealed that the RPS14 of giant panda is highly homologous with those of B. taurus, R. norvegicus and D. rerio (85.99, 99.34 and 99.34%, respectively), and is 100% identical with the others. (geneticsmr.com)
- Through de novo transcriptome assembly with the RNA-seq reads from whole organ samples of C. virgata at the germination stage (2 days after germination, DAG), early young development stage (8 DAG), young development stage (17 DAG), and adult development stage (28 DAG), we identified 21,589 unified transcripts (contigs) and found that 19,346 and 18,156 protein-coding transcripts were homologous to those in rice and Arabidopsis , respectively. (frontiersin.org)
- Screening the array with sera and ileal fluid samples from immunized pigs suggested cross-reactivity among homologous proteins and a general activation of immunity. (frontiersin.org)
Genomics2
CDNA4
- In silico comparison of cDNA libraries identified aphid genes with tissue-specific expression patterns, and gene expression that is induced by feeding on Nicotiana benthamiana. (nih.gov)
- We constructed a full-length cDNA library of peanut ( Arachis hypogaea ) seed via a large number of sequences of expressed sequence tag (EST) and gene functional annotation, a lysophosphatidic acid acyltransferase gene, designated AhLPAT, and its genomic DNA sequence were isolated from peanut. (chinacrops.org)
- The sequence of AhLPAT cDNA was 1 629 bp, and its genomic sequence was 5 331 bp. (chinacrops.org)
- Bioinformatic analysis showed that AhLPAT was composed of eleven exons and ten introns with typical GT-AG characteristic in comparison of its sequences of genomic DNA and cDNA by Splign in NCBI. (chinacrops.org)
Differentially expressed3
- One-third of the 471 genes predicted to encode transcription factors are differentially expressed during sexual development of S. commune . (nature.com)
- Quantitative PCR and high-throughput methods, such as expressed sequence tag analysis, have been used for measuring gene expression and identifying subsets of elm genes that are differentially expressed in the presence of O. novo-ulmi . (sisef.it)
- These analyses have also helped identify genes that were differentially expressed in DED fungi grown under defined experimental conditions. (sisef.it)
Oocyte-specific genes4
- This C terminus is believed to be critical in its transcriptional activities when bound to oocyte-specific genes. (wikipedia.org)
- In mice, it is essential for folliculogenesis and regulation of oocyte-specific genes. (wikipedia.org)
- Regulation of these oocyte-specific genes is thru direct binding of NOBOX to its promoter regions via the specific consensus sequences, the NOBOX DNA binding elements (NBEs). (wikipedia.org)
- Several well-known oocyte-specific genes were represented, including growth differentiation factor 9, bone morphogenetic protein 15, or the zona pellucida glycoprotein genes. (appliedbioinfo.com)
Genomes9
- DLGP: A database for lineage-conserved and lineage-specific gene pairs in animal and plant genomes. (openwetware.org)
- LCGserver: a webserver for exploring evolutionary trajectory of gene orders in a large number of genomes. (openwetware.org)
- The Rhodopsin family accounts for ~68% of the Ciona GPCR repertoire wherein the LGR-like subfamily exhibits a lineage specific gene expansion of a group of receptors that possess a novel domain organisation hitherto unobserved in metazoan genomes. (biomedcentral.com)
- The ongoing annotation of these genomes should spark a new wave of interest in the DED pathosystem, as it should lead to the formal identification of genes modulating parasitic fitness. (sisef.it)
- The small genomes of the DED fungi also facilitate genomic analyses. (sisef.it)
- 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)
- Sequence analysis of the Daphnia pulex genome holds some surprises that could not have been anticipated from what was learned so far from other arthropod genomes. (biomedcentral.com)
- Simple sequence repeats (SSRs) are highly variable features of all genomes. (biomedcentral.com)
- Advances in genomic sequencing technology are transforming medical discovery, enabling researchers to conduct comprehensive explorations across whole genomes for individuals and populations. (cdc.gov)
Candidate genes1
- Subsequently, in order to pick the most relevant candidate genes for a more detailed analysis, we looked for domains/motifs in the open reading frames using SMART and Pfam programs. (elsevierpure.com)
Novel genes2
- searched for novel genes involved in early mammalian folliculogenesis in 2002. (wikipedia.org)
- 10-5) to sequences in GenBank's non-redundant databases, indicating that a large proportion of novel genes are expressed in Heliconius male accessory glands. (ku.edu)
Functional7
- Functional networking of human divergently paired genes. (openwetware.org)
- Some pathological processes, for example, tumorigenesis and solid tumour growth, in which the former is derived from a single-cell and the latter has a mixed-cell problem, present new challenges to the limit of these functional genomic techniques. (ejbiotechnology.info)
- In this article, we review recently developed methods that enable functional genomic analysis at the single-cell or multi-cell level. (ejbiotechnology.info)
- Missense mutations in PRPF31 have previously been shown to cause reduced protein solubility, suggesting insufficiency of functional protein as the disease mechanism. (molvis.org)
- In addition, initial sequence analysis reveals highly ordered chromosomal landscapes associated with paralogous gene clusters and distinct functional compartments. (biomedcentral.com)
- Until recently, however, functional analysis of the DED fungi was hampered by the lack of protocols for efficient gene knockout and by the unavailability of a full genome sequence. (sisef.it)
- Overview of Genetics A gene, the basic unit of heredity, is a segment of DNA containing all the information necessary to synthesize a polypeptide (protein) or a functional RNA molecule. (msdmanuals.com)
GenBank3
- The assembly provides simplified descriptions of the genome, as disparate data sources such as GenBank and numerous expressed sequence tag (EST) and protein databases are unified. (biomedcentral.com)
- The complete genomic sequence of the isolate, designated J1 (GenBank accession no. (cdc.gov)
- Recombinant histidine-tagged WU-VP1 protein was generated by expressing WU-VP1 (GenBank accession no. (cdc.gov)
Comparative6
- Comparative analyses of its 38.5-megabase genome, which encodes 13,210 predicted genes, reveal the species's unique wood-degrading machinery. (nature.com)
- Comparative profiling of other tissues, including microdissected oocytes and somatic cells, revealed distinct gene classes and provided new insights into oogenesis and ovarian function, demonstrating the utility of our approach for tissue-specific gene discovery. (appliedbioinfo.com)
- Therefore comparative genomic analysis of T . equi was undertaken to: 1) identify genes contributing to immune evasion and persistence in equid hosts, 2) identify genes involved in PBMC infection biology and 3) define the phylogenetic position of T . equi relative to sequenced apicomplexan parasites. (biomedcentral.com)
- Comparative genomic analysis of T . equi revealed the phylogenetic positioning relative to seven apicomplexan parasites using deduced amino acid sequences from 150 genes placed it as a sister taxon to Theileria spp . (biomedcentral.com)
- An analysis of the Ciona repertoire of GPCRs from a comparative genomic perspective provides insight into the evolutionary origins of the GPCR signalling system in vertebrates. (biomedcentral.com)
- Array comparative genomic hybridization (aCGH) is a type of microarray now routinely used to identify deleted or duplicated regions of DNA sequence in specific chromosomes on a genome-wide basis. (msdmanuals.com)
Expression20
- Co-expression of Ov-phy-1 with the O. volvulus homologue of protein disulfide isomerase in a baculovirus system resulted in the production of enzymatically active O. volvulus prolyl 4-hydroxylase. (embl.de)
- The differential expression of a subset of genes was confirmed at the protein level by immunohistochemical labeling of tissue microarrays (inhibin β A [INHBA] and CD29) and/or at the transcript level by RT-PCR (INHBA, AKAP12, ELK3, FOXQ1, EIF5A2, and EFNA5). (elsevierpure.com)
- Genomic expression profiles of blood and placenta reveal significant immune-related pathways and categories in Chinese women with gestational diabetes mellitus. (openwetware.org)
- Techniques such as microarrays, expressed tag sequencing (EST), serial analysis of gene expression (SAGE), subtractive cloning and differential display (DD), and two-dimensional electrophoresis gel have been extensively used to screen and analyze parallel gene expression. (ejbiotechnology.info)
- To fully understand the functions of cells in tumorigenesis or in heterogeneous solid tumour masses, it is essential for scientists and physicians to develop a strategy to identify genomic expression profiles for a single-cell or for small numbers of cells. (ejbiotechnology.info)
- In addition, the paper will review different techniques of single-cell genomic expression at the level of DNA, mRNA, protein and post-translational modifications. (ejbiotechnology.info)
- In many cases, the disease gene encodes a component of phototransduction or allied processes with expression confined to the retina, for example the rod visual pigment (reviewed in [ 1 ]), or peripherin-RDS [ 2 ], but not all RP genes show such a restricted pattern of expression. (molvis.org)
- carotovora Infection Induced "Defense Lignin" Accumulation and Lignin Biosynthetic Gene Expression in Chinese Cabbage (Brassica rapa L.ssp. (jipb.net)
- Bertelsen A.H., Velculescu V.E., High-throughput gene expression analysis using SAGE, Drug Discovery Today 3 (1998) 152-159. (gse-journal.org)
- Right here we report the interim integrative evaluation of DNA copy quantity, gene expression and DNA methylation aberrations in 206 glioblastomas-the commonest kind of grownup mind cancer-and nucleotide sequence aberrations in 91 of the 206 glioblastomas. (nfkbcell.com)
- To analyze the regulatory mechanism involved in the high growth potential of C. virgata , we performed RNA-seq-based transcriptome analysis and illustrated a comprehensive gene expression map of the species. (frontiersin.org)
- The tissue specific expression analysis by using quantitative RT-PCR assays indicated that AhLPAT was ubiquitously expressed in root, stem, leaf, flower, gynophore and seed of peanut with the highest level in gynephore and seed. (chinacrops.org)
- Cloning and Expression Analysis of Lysophosphatidic Acid Acyltransferase (LPAT) Encoding Gene in Peanut[J]. Acta Agron Sin, 2012, 38(02): 245-255. (chinacrops.org)
- While the selective inactivation of Ophiostoma genes by insertional mutagenesis remains a challenge, an alternative approach based on RNA interference is now available for down-regulating the expression of targeted genes. (sisef.it)
- In the vertebrate CNS, HB9/MNR2 transcription factors are specifically expressed in all somatic motoneurons and are necessary to distinguish motoneurons from interneurons, in part by repressing interneuron-specific gene expression. (jneurosci.org)
- Mouse HB9 maintains expression in somatic motoneurons, whereas chick HB9 is expressed only in postmitotic somatic motoneurons. (jneurosci.org)
- These effects are, in part, mediated by sustained alterations in gene expression in selected brain regions. (deepdyve.com)
- Pharmacological reversal of the effects on chromatin structure completely eliminates the effects of maternal care on glucocorticoid receptor expression and hypothalamic-pituitary-adrenal (HPA) responses to stress, thus suggesting a causal relation between the maternally induced, epigenetic modification of the glucocorticoid receptor gene and the effects on stress responses in the offspring. (deepdyve.com)
- Representative σ 66 -dependent gene transcription was repressed in the absence of rsbV1 or upon increased expression of RsbW, and increased upon elevated expression of RsbV1. (plos.org)
- The primary data for 1-step growth, 2-step growth and gene expression summarized in Figs 4 and 5 are available in the S1 Dataset in the supplementary information. (plos.org)
Recombinant2
- The importance of S. commune as a model system is also exemplified by the fact that its recombinant DNA constructs will express in other mushroom-forming fungi 5 . (nature.com)
- A cocktail of five recombinant proteins optimized for conserved GI nematode targets was used immunize pigs and test for active antibody responses in both the serum and intestinal ileal fluid of immunized pigs. (frontiersin.org)
Species5
- However, despite the significant damage inflicted by M. persicae in agricultural systems through direct feeding damage and by its ability to transmit plant viruses, limited genomic information is available for this species. (nih.gov)
- In both species only a third of accessory gland unigenes were also found among genes expressed in wing tissue. (ku.edu)
- About 25% of unigenes from both species encoded secreted proteins. (ku.edu)
- Background: Medicago truncatula has been chosen as a model species for genomic studies. (wustl.edu)
- The deduced amino acid had a high identity with the LPAT proteins reported from other species. (chinacrops.org)
Preferentially expressed3
- NOBOX is a homeobox gene that is preferentially expressed in oocytes. (wikipedia.org)
- Genes preferentially expressed in bovine oocytes revealed by subtractive and suppressive hybridization. (appliedbioinfo.com)
- B-cell translocation gene 4, cullin 1, MCF.2 transforming sequence, a locus similar to snail soma ferritin, and three unidentified genes were, indeed, preferentially expressed in the oocyte, even though most were also highly expressed in testis. (appliedbioinfo.com)
Analyses1
- Phylogenetic analyses and genomic context imply a probable ancient horizontal gene transfer (HGT) from proteobacteria. (embl.de)
Annotation5
- SUMMARY: SmashCommunity is a stand-alone metagenomic annotation and analysis pipeline suitable for data from Sanger and 454 sequencing technologies. (embl.de)
- We also applied the protocol to UniRef database to improve the annotation of proteins with so far unknown function and identified some new instances of horizontal gene transfer. (embl.de)
- Finally, these annotation data were synthesized to produce observations of gene density and number that accord well with historical estimates. (biomedcentral.com)
- However, the challenges in genome annotation remain daunting [ 10 ], and the research community can anticipate years of additional work and manual curation to produce a true gene map of high quality. (biomedcentral.com)
- Extensive annotations referring to each protein were generated, including basic protein function, expressed sequence tag (EST) mapping, genome locus, three-dimensional template prediction, transmembrane segment, and domain annotation. (wustl.edu)
Regulate5
- We discuss the possibility that C. virgata phytohormone signaling and biosynthesis genes regulate early germination and growth advantages. (frontiersin.org)
- TFs regulate genes to ensure they're expressed in proper sequence and at the right time in cells. (ddw-online.com)
- The breakthrough was in realizing that we could leverage deep learning and massive datasets of tissue-level TF binding profiles to understand how TFs regulate target genes in individual cells through specific signals," Xie said. (ddw-online.com)
- The Wnt genes encode secreted glycoprotein ligands that regulate a wide range of developmental processes, including axis elongation and segmentation. (biomedcentral.com)
- It has paved the way for studying how genes regulate the most basic functions of the cell, including what proteins to produce and how to make them. (cdc.gov)
MRNA4
- This lack of increase contrasts with previous reports as does the mRNA length: this is 50% larger as confirmed by sequencing the 3' end. (embl.de)
- Studies conducted on PRPF31 mRNA levels in lymphoblast cell lines isolated from family members with either deletion or splice site mutations indicate that penetrance requires the co-inheritance of a low expressing wild-type (WT) allele alongside the mutant allele [ 13 , 14 ], whereas the presence of a high expressing WT allele is protective. (molvis.org)
- B cell translocation gene 4 (BTG4) is a key adaptor of the CCR4-NOT deadenylase complex, which is involved in maternal mRNA decay in mice, but no human diseases caused by mutations in BTG4 have previously been reported. (appliedbioinfo.com)
- 2014). Where annotations were not present or were different, the online Softberry server (http://linux1.softberry.com/berry.phtml) was used to predict mRNA and protein sequences using the FGNESH+ prediction algorithm (Solovyev et al. (molquest.com)
Transcriptome1
- Comprehensive transcriptome information will provide a useful resource for gene discovery and facilitate a deeper understanding of the diversity of the regulatory systems that have evolved in C. virgata while adapting to severe environmental conditions. (frontiersin.org)
Transmembrane2
- There were 69 that encoded for NBS-LRR proteins, 191 that encoded for protein kinases, 82 that encoded for LRR-PK/transmembrane proteins, 28 that encoded for Toxin reductases, 11 that encoded for LRR-domain containing proteins and four that encoded for TM-domain containing proteins. (jipb.net)
- G protein-coupled receptors (GPCRs) constitute a large family of integral transmembrane receptor proteins that play a central role in signal transduction in eukaryotes. (biomedcentral.com)
Fragments1
- Recently, the consortium has distributed a working draft assembly of the entire genome that removes redundancies, orients sequence fragments and clearly indicates gaps arising from sequencing and assembly. (biomedcentral.com)
Sanger1
- The bands were cloned and identified as WUPyV by using Sanger sequencing. (cdc.gov)
Computational6
- In a global computational screening of conventional and metagenomic sequence data for NHases, we detected the two usually separated NHase subunits fused in one protein of the choanoflagellate Monosiga brevicollis, a recently sequenced unicellular model organism from the closest sister group of Metazoa. (embl.de)
- The index is based on the integration of public transcript, protein, and mapping information, supplemented with computational prediction. (biomedcentral.com)
- The creation of a comprehensive gene index requires the synthesis of all available computational and experimental evidence. (biomedcentral.com)
- The sequence of the human nuclear genome has been completed in draft form by an international public consortium consisting of 16 sequencing centers and associated computational facilities [ 1 ]. (biomedcentral.com)
- In the present study, we explored the structural aspect of HomA and HomB proteins using various computational, biophysical and small-angle X-ray scattering (SAXS) techniques. (nature.com)
- This technology involves breaking the entire genome into small segments, sequencing the segments, and then reassembling the sequences using intensive computational techniques to provide the base-by-base sequence of the entire genome or more limited regions, such as the expressed portion of the genome known as the exome. (msdmanuals.com)
Facilitate1
- Taken with the present results, this suggests that the potential use of inhibitors of prolyl 4-hydroxylase to control excessive collagen deposition in pathological fibrosis may be limited by the need to maintain continuous inhibition of collagen hydroxylation so as to facilitate intracellular degradation of the accumulated protein. (embl.de)
Structures2
- However, reduction to a single consensus sequence permits placement of genes and other chromosomal structures in their proper positional context. (biomedcentral.com)
- The current coverage is, however, sufficient for the Human Genome Project to enter a new phase, in which the entire sequence can be analyzed to identify genes, regulatory regions and other genomic elements and structures. (biomedcentral.com)
Subset2
- A subset of high quality and rare information, retrieved and organized by systematic literature- searching tools from existing databases, and related to a subset of genes functioning together in '-omic' sciences. (genomicglossaries.com)
- Drosophila HB9 differs from its vertebrate orthologs in several ways: it is not expressed in all somatic motoneurons, it is expressed in a subset of interneurons, and it is required for the proper development of both interneurons and motoneurons. (jneurosci.org)
Epigenetic2
- Exactly how the outfit subsequently gets reshuffled to select a different coat remains a mystery, but the team suspect that chemical tags applied to the DNA, called epigenetic markers, could be responsible. (thenakedscientists.com)
- By training a neural network on large-scale genomic and epigenetic datasets, and by drawing on the expertise of collaborators across three departments, the researchers were able to identify novel gene regulations for individual cells or cell types. (ddw-online.com)
Transcription4
- Together, vertebrate HB9/MNR2 transcription factors are expressed in all somatic motoneurons and excluded from interneurons. (jneurosci.org)
- One branch addresses a range of integrated biological systems, concentrating on the function of protein molecules in the processes of DNA replication and mutagenesis, transcription, and translation. (nationalacademies.org)
- Chlamydia trachomatis is an obligate intracellular human pathogen that exhibits stage-specific gene transcription throughout a biphasic developmental cycle. (plos.org)
- This study provides evidence that a switch-protein kinase regulatory network controls availability of σ 66 , the main sigma subunit for transcription in Chlamydia . (plos.org)
Distinct1
- Distinct genomic aberrations between low-grade and high-grade gliomas of Chinese patients. (openwetware.org)
Phylogenetic2
- Our analysis identified 50 genes that will be useful for definitive phylogenetic classification of T . equi and closely related organisms. (biomedcentral.com)
- Phylogenetic affiliations of mesopelagic acantharia and acantharian-like environmental 18S rRNA genes off the southern California coast. (mbl.edu)
Brassica2
- Genomic fatty acid elongation 1 (FAE1) clones from high erucic acid (HEA) Brassica napus, Brassica rapa and Brassica oleracea, and low erucic acid (LEA) B. napus cv. (unboundmedicine.com)
- As expected, yeast cells expressing the FAE1 genes from HEA Brassica spp. (unboundmedicine.com)
Repertoire2
- Writing in this week's Nature an Argentinian research team led by Hugo Lujan at the Catholic University at Cardoba found that Giardia lamblia, a major cause of intestinal infections worldwide, has a repertoire of 190 different coat proteins with which it can disguise itself. (thenakedscientists.com)
- The Giardia lamblia vsp gene repertoire: characteristics, genomic organization, and evolution. (mbl.edu)
Antibody3
- Description: Anti-HA magnetic beads kit is based on hydroxyl magnetic beads covalently coupling with high quality mouse IgG2b monoclonal antibody, used for co-immunoprecipitation and protein purification. (nfkbcell.com)
- Description: Anti-Myc magnetic beads kit is based on hydroxyl magnetic beads covalently coupling with mouse IgG1 monoclonal antibody.it is recommended to use for co-immunoprecipitation and protein purification. (nfkbcell.com)
- Compared to similar immune magnetic beads, our Protein A/G beads display much more antibody binding sites therefore using less magnetic beads per reaction and ultimately achiving greater cost-efficiency. (nfkbcell.com)
Portion of the genome1
- As of late 2000, the public human sequence was primarily based on approximately 24,000 accessioned bacterial artificial chromosome (BAC) clones covering 97% of the euchromatic portion of the genome [ 6 ]. (biomedcentral.com)
Organisms1
- There are 175 organisms that have orthologs with human gene NOBOX. (wikipedia.org)
Vertebrates3
- The derived amino acid sequence of Ov-phy-1 encoded a peptide that was most similar to the two Caenorhabditis elegans prolyl 4-hydroxylase homologues and to the isoform II enzymes of vertebrates. (embl.de)
- The genome of the protochordate Ciona intestinalis has a compact size with an ancestral complement of many diversified gene families of vertebrates and is a good model system for studying protochordate to vertebrate diversification. (biomedcentral.com)
- In vertebrates, chick MNR2 and mouse HB9 are expressed in presumptive somatic motoneuron progenitors. (jneurosci.org)
Fungi1
- Microorganisms capable of catabolizing lignin-derived ar- carbohydrate and protein components of the organic matter omatics are essentially fungi and bacteria (Bugg et al. (lu.se)
Mutations6
- Missense mutations in the splicing factor gene PRPF31 cause a dominant form of retinitis pigmentosa (RP11) with reduced penetrance. (molvis.org)
- The RP11 missense mutations exert their pathology mainly via a mechanism based on protein insufficiency due to protein insolubility, but there is also a minor direct negative effect on function. (molvis.org)
- This disorder is caused by dominant-negative mutations in the STAT3 gene ( 9 ). (cdc.gov)
- 7- 9 All reported mutations are single nucleotide alterations leading to splice site, missense, nonsense, or frameshift mutations, or intra-exonic deletions and insertions of up to four nucleotides, which have been detected through exonic PCR amplifications and sequencing. (bmj.com)
- Mutations in SDHD cause PGL1 only if the transmission occurs paternally, whereas maternal transmission does not cause disease, 13 suggesting operation of genomic imprinting on SDHD . (bmj.com)
- A new mutation has been reported, making a total of 15 different mutations that can cause premature stop codons in the alpha-L-iduronidase gene ( IDUA ), and the biochemistry of these mutations has been investigated. (medscape.com)
Subunit2
- This control is propagated through the alpha-subunit of prolyl 4-hydroxylase where protein levels were previously shown to rise fivefold with increasing cell density. (embl.de)
- RPS14 is a component of the 40S ribosomal subunit encoded by the RPS14 gene and is required for its maturation. (geneticsmr.com)
Chromosomes1
- Thirty percent of the genome is in finished form, including the entire sequence of chromosomes 21 and 22 [ 7 ]. (biomedcentral.com)
Regulation3
- When comparing the transcriptomes across developmental stages, we found an over-representation of genes involved in growth regulation in the early development stage in C. virgata . (frontiersin.org)
- Scientists at the University of California, Irvine have developed a new deep-learning framework that predicts gene regulation at the single-cell level. (ddw-online.com)
- In a study published recently in Science Advances, UCI researchers describe how the technique can also be successfully used to observe gene regulation at the cellular level. (ddw-online.com)
High-throughput2
- This work alsodemonstrates the successful and efficient application of a next generation sequencing methodology.Results: We have generated over 30 million bases of novel expressed sequence tags from first larval stage wormsutilizing high-throughput sequencing technology. (sfu.ca)
- Suchapplication of this new sequencing technique allows for high-throughput, genome-wide experimental verificationof known and novel transcripts. (sfu.ca)
SSRs1
- Twenty-eight simple sequence repeats (SSRs) were identified from 25 peanut expressed RGAs. (jipb.net)
Phenotype1
- Indeed, a number of genes identified as potential manipulators of the host cell phenotype are absent from the T . equi genome. (biomedcentral.com)
Microarray2
- The Agilent eArray platform was used to design an M. persicae oligonucleotide microarray representing over 10,000 unique genes. (nih.gov)
- We developed a microarray-based approach for the systematic discovery of tissue-specific genes and, by applying it to Foxo3 ovaries and other samples, defined a surprisingly large set of ovarian factors (n = 348, approximately 1% of the mouse genome). (appliedbioinfo.com)
Isolate1
- To isolate bovine oocyte marker genes, we performed suppressive and subtractive hybridization between oocytes and somatic tissues (i.e., intestine, lung, muscle, and cumulus cells). (appliedbioinfo.com)
Homologues1
Genome sequence1
- This thematic series of companion papers constitutes the initial exploration of the genome biology of the waterflea (Daphnia) building on the first complete crustacean genome sequence. (biomedcentral.com)
Identify6
- METHODS: To identify expressed TNFSF genes, we searched a computer database of ~50,000 rainbow trout expressed sequence tags generated at the National Center for Cool and Cold Water Aquaculture. (usda.gov)
- We were able to identify numerous novel PKS I proteins, the highest density of which was found in Minnesota farm soil with 136 proteins out of 183,536 predicted genes. (embl.de)
- In order to develop T cell-based assays for the diagnosis of active TB, it is imperative to identify new host markers expressed in response to established M.tb -dependent antigens, such as those used in IGRAs (ESAT-6, CFP-10, TB7.7), or novel M.tb antigens uniquely recognized by patients with active TB or LTBI. (biomedcentral.com)
- With 35,000 genes and hundreds of thousands of protein states to identify, correlate, and understand, it no longer suffices to rely on studies of one gene, gene product, or process at a time. (genomicglossaries.com)
- To identify the regions of properdin important for function, we have expressed human properdin, and mutant forms each lacking a single TSR, in Chinese hamster ovary cells. (embl.de)
- Here, we identify and characterize the single Drosophila ortholog of the HB9/MNR2 gene family. (jneurosci.org)
Human11
- The human NOBOX is a 14 kb protein and encoded by 8 exons. (wikipedia.org)
- The trout TNFSF 13b predicted protein shares 54% amino acid identity with human and chicken TNFSF 13b, and 51% identity with mouse TNFSF 13b. (usda.gov)
- The gene encoding the Ov-phy-1 open reading frame contained 11 introns, similar in structure to the gene encoding human prolyl 4-hydroxylase isoform I. Genomic Southern blot, EST and genomic PCR studies demonstrated that the O. volvulus genome contained between three and eight genes closely related to Ov-phy-1. (embl.de)
- The recent draft assembly of the human genome provides a unified basis for describing genomic structure and function. (biomedcentral.com)
- We report here a functionally annotated human gene index placed directly on the genome. (biomedcentral.com)
- Public attention surrounding completion of the draft human sequence has fostered the impression that we are entering a 'post-genomic' era, and that description of genes and their functions is straightforward. (biomedcentral.com)
- H. pylori attaches and colonizes to the human epithelium using some of their outer membrane proteins (OMPs). (nature.com)
- However, large-scale nucleotide sequencing directed at the human genome (3 billion nucleotides! (nationalacademies.org)
- Studies of the human proteome have enabled scientists to track protein synthesis, modification, and degradation over time and across different cell types. (cdc.gov)
- In 2014, scientists developed a draft map of the human proteome , which catalogued proteins encoded by over 17,000 human genes, or about 84% of all protein-coding genes in the human genome. (cdc.gov)
- AN - check the tag INFANT HN - 2008 FX - Child Nutrition FX - Infant Nutrition Physiology FX - Milk FX - Milk, Human DH - Adolescent Nutrition DI - 052508 MN - SP6.021.067 MS - Nutrition of persons 10 through 19 years of age. (bvsalud.org)
Highly expressed1
Results2
- However, the sheer volume of information generated by sequencing the exome or genome results in a variety of interpretive problems that complicate understanding of the results. (msdmanuals.com)
- He thanked the regional and global specialized laboratories for their efforts to provide timely results of the genomic sequencing of wild polioviruses, and for their help in planning and monitoring polio eradication activities in the Region. (who.int)
Variants2
- Expressed sequence tags, which mapto intergenic (around 1000) and intronic regions (around 580), may represent novel transcribed regions, such asunannotated or unrecognized small protein-coding or non-protein-coding genes or splice variants. (sfu.ca)
- A collection of different allotypes or allelic protein variants, a new type of protein library. (genomicglossaries.com)
Subsets1
- Drosophila genes expressed specifically in all motoneurons have not been described, although a growing number of genes are known to be expressed in subsets of motoneurons. (jneurosci.org)
Subfamilies2
- This is evident at the subfamily level comparisons since Ciona GPCR sequences are significantly analogous to vertebrate GPCR subfamilies even while exhibiting Ciona specific genes. (biomedcentral.com)
- There are thirteen subfamilies of Wnt genes in metazoans and t. (biomedcentral.com)
Immunohistochemical1
- We developed an immunohistochemical (IHC) assay to detect the WUPyV viral protein 1 (WU-VP1) by using an IgG2b designated NN-Ab06. (cdc.gov)
Prediction2
- It supports state-of-the-art software for essential metagenomic tasks such as assembly and gene prediction. (embl.de)
- Topology prediction shows that there are two N-glycosylation sites, three protein kinase C phosphorylation sites, two casein kinase II phosphorylation sites, four N-myristoylation sites, two amidation sites, and one ribosomal protein S11 signature in the RPS14 protein of the giant panda. (geneticsmr.com)