• The involvement of viral DNA-binding proteins in the regulation of virulence genes, transcription, DNA replication, and repair make them significant targets. (mdpi.com)
  • Subsequent genomic sequence analysis of multiple genes including elongation factor 3, a component of fungi protein synthesis not found in protozoa, further supported this notion. (medscape.com)
  • In a comparison excluding the composite sequencing data, the genomes and the open reading frames are fairly well conserved with differences only in 2, out of 80, genes. (usda.gov)
  • Comparison of the genome sequences of phenotypically different strains could help to identify genes involved in virulence. (usda.gov)
  • Exclusive to the genomes of the Serva vaccine strains, 7 non-synonymous mutation were identified in the predicted translation products of the genes encoding glycoproteins gB, gE, gL and gM and three nonstructural proteins UL28 (DNA packaging protein), UL5 (helicase-primase) and the immediate early protein ICP4. (usda.gov)
  • ATAC-seq reveals sites within the genome that are accessible for proteins, such as enhancer and genes. (edu.au)
  • We report on the cloning and sequencing of two Tranosema rostrale ichnovirus (TrIV) genes, and assess their relatedness to TrV1, the gene encoding the most abundant TrIV transcript in last-instar Choristoneura fumiferana larvae parasitized by T. rostrale . (gc.ca)
  • in fact, the non-coding regions of all three genes show higher sequence identity than the coding regions, pointing to their common origin. (gc.ca)
  • Six proto-oncogenes (K-ras, c-myc, c-fos, c-jun, c-sis, and erbB), as well as the p53 tumor suppressor, were investigated for gene amplification using differential polymerase chain reaction (PCR), while the expression of the proteins produced by these genes was evaluated by Western blot analysis. (cdc.gov)
  • DNA viruses such as herpesvirus and poxvirus have multiple genes, some of them host-derived, which interfere with effective innate or acquired immune responses. (imperial.ac.uk)
  • Differential Gene Expression analysis is a fundamental tool for identifying genes whose expression levels significantly differ between experimental conditions or biological samples. (pharmiweb.com)
  • This analysis enables us to pinpoint genes that play pivotal roles in phenotypic variation, disease development, or response to treatments. (pharmiweb.com)
  • DGE analysis facilitates the identification of genes responsive to specific drug treatments. (pharmiweb.com)
  • DGE analysis elucidates how genes respond to environmental stimuli, such as heat stress, chemical exposure, or pathogen infection. (pharmiweb.com)
  • There is little information on their evolution in Jordan so this study investigated the genetic and antigenic variability of A(H1N1)pdm09 and H3N2 viruses in Jordan by performing phylogenetic and genetic analyses of the HA and NA genes of A(H1N1)pdm09 and H3N2 viruses between 2011 and 2013. (who.int)
  • The full HA and NA genes of 16 H1N1-positive samples obtained in our study and 21 published HA sequences and 20 published NA sequences from Jordanian viruses that were available on online gene databases were analysed. (who.int)
  • Influenza viruses are considered one of and NA genes of A(H1N1)pdm09 erated with SeqMan DNA Lasergene the most common causes of respira- and H3N2 viruses in Jordan between 7 software (DNASTAR, Madison, tory infection among humans and they March 2010 and March 2013. (who.int)
  • 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)
  • Genes are parts of DNA in your cells that you inherit from your parents. (medlineplus.gov)
  • Tumor suppressor genes provide instructions for making proteins that control how fast your cells grow and divide to make new cells. (medlineplus.gov)
  • In addition to proteogenomics, Celsee said it plans to market the platform for immune monitoring as an alternative to flow cytometry, as well as for the expansion and scale of next-generation sequencing library preparation. (genomeweb.com)
  • This hands on course will give you additional experience in analyzing next generation sequencing data. (lu.se)
  • Our unit has instruments and resources for traditional Sanger Sequencing (ABI 3500) but also for the so-called Next-Generation Sequencing (NGS) based on the Illumina MiSeq platform. (lu.se)
  • Bullock and Fersht 8 have shown that mutations of DNA-binding residues, such as those on the tumor repressor protein P53, may predispose individuals to cancer. (nature.com)
  • Scope includes mutations and abnormal protein expression. (cancerindex.org)
  • Many mechanisms of protein function contribute to amyloidogenesis, including "nonphysiologic proteolysis, defective or absent physiologic proteolysis, mutations involving changes in thermodynamic or kinetic properties, and pathways that are yet to be defined. (medscape.com)
  • In an analysis of synonymous and non-synonymous mutations, it was discovered that non-synonymous mutation in glycoproteins B, E, L and M were exclusively found in the vaccine strain Serva. (usda.gov)
  • Overall our comparative sequence analysis of virulent GaHV-1 strains has identified both intragenic and intergenic deletions as well as single nucleotide polymorphism mutations that differentiate the Serva vaccine genome from the genomes of 4 virulent strains. (usda.gov)
  • Point mutations in K-ras and p53 were studied by PCR restriction fragment length polymorphism analysis and DNA sequencing. (cdc.gov)
  • There were no point mutations observed in codons 12, 13, and 61 of K-ras or in exons 4-10 of p53 and no observed differences in the levels of any of the proteins studied. (cdc.gov)
  • RNA viruses may escape acquired humoral and cellular immune responses by mutations in protective antigenic epitopes (e.g., avian influenza viruses), while accessory nonstructural proteins or multifunctional structural proteins interfere with the interferon system (e.g. (imperial.ac.uk)
  • Because molecular beacons can use different fluorophores, real-time PCR assays can be designed in which different DNA fragments or mutations can be amplified and detected simultaneously in the same tube. (cdc.gov)
  • Peu de renseignements sont disponibles sur les mutations des virus saisonniers de la grippe A(H1N1)pdm09 et H3N2 en Jordanie. (who.int)
  • Les mutations individuelles sont décrites en détail. (who.int)
  • Detecting mutations like this one require specific analyses that were developed fairly recently. (lu.se)
  • Each run would cost about 8 to 9 thousand USD, thereby, de novo sequencing of mammalian genomes are in million dollar range. (wikidoc.org)
  • As of 2007, pyrosequencing is most commonly used for resequencing or sequencing of genomes for which the sequence of a close relative is already available. (wikidoc.org)
  • Only two ORFs, ICP4 and the US2 differed in amino acid (a.a.) lengths among the newly sequenced genomes. (usda.gov)
  • Mobile DNA elements and the dynamics of genomes. (lu.se)
  • UGENE provides customizable tools for visualization, analysis, annotation of genetic sequences. (bestfreewaredownload.com)
  • The knowledge about DNA-binding residues, binding specificity and binding affinity helps to not only understand the recognition mechanism of protein-DNA complex, but also give clues for protein function annotation. (nature.com)
  • Therefore, a reliable identification of DNA-binding sites in DNA-binding protein is important for protein function annotation, in silico modeling of transcription regulation and site-directed mutagenesis. (nature.com)
  • NADfinder is the first software designed specifically for the bioinformatic analysis of the NAD-seq data, including baseline correction, smoothing, normalization, peak calling, and annotation. (umassmed.edu)
  • This package is for the visualization of multi-omics data that can be integrated into any analysis pipeline in R. trackViewer can be used not only to visualize coverage and annotation tracks, but also to generate lollipop and dandelion plots that depict sparse and dense methylation/mutation/variant data to facilitate an integrative analysis of diverse datasets. (umassmed.edu)
  • By subjecting DEGs to gene ontology enrichment analysis, pathway analysis, or functional annotation, we gain insights into the biological processes, molecular functions, and pathways associated with the observed gene expression changes. (pharmiweb.com)
  • scATACpipe is a bioinformatic pipeline (powered by Nextflow) for single-cell ATAC-seq (scATAC-seq) data analysis. (umassmed.edu)
  • Bioinformatic analysis of the junctions of the inserted sequences and the maize genomic DNA, identified eleven open reading frames (ORFs). (cogem.net)
  • Bioinformatic analyses of DNA- and protein sequences. (lu.se)
  • We also offer expertise, consultation, and discussion around the design of experiments, the construction of sequencing libraries as well as support in data processing and bioinformatic strategies. (lu.se)
  • The nucleotide sequences of four virulent strains of gallid herpesvirus type 1, the causative agent of infectious laryngotracheitis, were determined. (usda.gov)
  • Sanger dideoxy sequencing, 454 pyrosequencing and Illumina sequencing were used to determine the nucleotide sequences of four groups of virulent GaHV-1 strains (groups I, III, V and VI). (usda.gov)
  • Nucleotide sequences were initially checked using the Basic Local Alignment Search Tool hosted by the National Center for Biotechnology Information ( http://blast.ncbi.nlm.nih.gov/Blast.cgim ) for comparison with other known nucleotide sequences. (who.int)
  • Results on the PDNA-62 and the PDNA-224 datasets demonstrate that features extracted from spatial context provide more information than those from sequence context and the combination of them gives more performance gain. (nature.com)
  • We show that the results are reproducible, and in VeroE6 ACE2+/- cell lines, periscope can detect the changes in the kinetics of sgRNA in orthogonal sequencing datasets. (nanoporetech.com)
  • The optimal candidate should have a strong background in microbiology and in handing biological datasets using bioinformatics analyses. (fems-microbiology.org)
  • An MLP-specific DNA probe was then generated by polymerase chain reaction (PCR) of first-strand complementary DNA (cDNA) templates primed with the MLP oligonucleotide and oligodeoxythymidylic acid. (tamu.edu)
  • Sequence analysis revealed a partial cDNA clone of 643 bp with a start codon and with 96% and 93% homology with peanut allergens Ara h 4 and Ara h 3 cDNA clones, respectively. (usda.gov)
  • The Genesis system automates cDNA synthesis, pairing each cell with a unique cellular barcode and molecular indice for downstream analysis. (genomeweb.com)
  • We offer services for DNA and cDNA (RNA-Seq) sequencing. (lu.se)
  • Opium-poppy (Papaver somniferum L.) latex contains a group of very abundant, laticifer-specific peptides called the major latex proteins (MLPs). (tamu.edu)
  • Sequence analysis of five tryptic peptides revealed that their sequences matched corresponding sequences of the A2 protein of the heterogeneous nuclear ribonucleoprotein (hnRNP) complex. (jci.org)
  • Polymorphisms that slightly vary native peptides or inflammatory processes set the stage for abnormal protein folding and amyloid fibril deposition. (medscape.com)
  • We have developed periscope, a tool for the detection and quantification of sub-genomic RNA (sgRNA) in ARTIC network protocol generated nanopore SARS-CoV-2 genomic sequence data. (nanoporetech.com)
  • Real-time DNA sequencing using detection of pyrophosphate release. (wikidoc.org)
  • TotalSeq™-D antibodies are compatible with Mission Bio's Tapestri Single-Cell Sequencing Platform for simultaneous detection of DNA and Protein. (biolegend.com)
  • DNA, serological detection of variola virus, antiviral agents and animal models of smallpox. (who.int)
  • We also found an unexpectedly dynamic pattern of transcript isoform regulation, suggesting a critical regulatory role during HSC differentiation, and a cell cycle/DNA repair signature associated with multipotency in MPP2 cells. (lu.se)
  • RNA-Seq analysis revealed that more severe disease in line W was associated with significant up-regulation of pathways involved in inflammation, cytoskeletal regulation by Rho GTPases, nicotinic acetylcholine receptor signaling, and Wnt signaling in the bursa compared to line 15I. (imperial.ac.uk)
  • Dr. Amitabha Mukhopadhyay, National Institute of Immunology, New Delhi- Regulation of Rab proteins by cytokines. (jnu.ac.in)
  • Typically, PCR is used to amplify a target sequence followed by a second assay to determine if the sequence contains a mutation associated with resistance. (cdc.gov)
  • The mutation leads to a protein with an abnormally long repetition of the amino acid glycine, which likely is the reason for an accumulation of proteins in nerve cells, causing imbalance in the nervous system. (lu.se)
  • Genome sequence alignments were used to identify two regions (5' terminus and the unique short/repeat junction) that contained various intragenic deletions. (usda.gov)
  • The methods for sequence analysis of synthetic polymers differ from the sequence analysis of biopolymers (e. g. (wikipedia.org)
  • The comparison between our proposed PDNAsite method and the existing methods indicate that PDNAsite outperforms most of the existing methods and is a useful tool for DNA-binding site identification. (nature.com)
  • 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)
  • Waterman was recognized for the development of computational methods for DNA and protein sequence analyses. (usc.edu)
  • Methods: Thirty-two degenerate oligonucleotides DNA primers of 24 nucleotides each were synthesized based on the published amino acid sequences of peanut BBTI. (usda.gov)
  • Researchers can use a variety of methods to prepare single cells for analysis. (genomeweb.com)
  • Currently, a limitation of the method is that the lengths of individual reads of DNA sequence are in the neighborhood of 300-500 nucleotides, shorter than the 800-1000 obtainable with chain termination methods (e.g. (wikidoc.org)
  • Methods for gene identification and analysis of gene structure: cloning, PCR, restriction mapping, in situ hybridisation, DNA sequencing. (lu.se)
  • Methods for analysis of gene expression: microarray, hybridisation, promoter analyses. (lu.se)
  • Phylogenetic analysis with DNA amplification technologies. (who.int)
  • Several techniques based on the polymerase chain reaction (PCR) to facilitate the characterization and phylogenetic analysis of variola virus isolates were described. (who.int)
  • in Jordan, we performed a phylogenetic analyser (Applied Biosystems, Foster analysis and genetic analysis of the HA City, CA, USA). (who.int)
  • Most notably, are the applications for genome sequencing and metagenomics. (wikidoc.org)
  • The PhD candidate will obtain sediment samples and isolate DNA to determine the microbial community composition using 16S rRNA amplicon sequencing and genome-resolved metagenomics analyses. (fems-microbiology.org)
  • A sequence similarity search often provides the first information about a new DNA or protein sequence. (nih.gov)
  • There are many ways of performing a sequence similarity search, but probably the most popular method is the "Basic Local Alignment Search Tool" ( BLAST ) ( 1 , 2 ). (nih.gov)
  • The BLAST algorithm is tuned to find these domains or shorter stretches of sequence similarity. (nih.gov)
  • Find regions of similarity between this sequence and other sequences using BLAST. (nih.gov)
  • These ORFs were analysed for similarity to known proteins or allergens. (cogem.net)
  • it encodes a 102 amino acid protein showing 79% similarity to TrV1. (gc.ca)
  • If the sequence result was of low quality, the amplicon was cloned into a plasmid vector using a TOPO TA cloning kit (Invitrogen, Carlsbad, California) and then sequenced using the primers provided with the kit. (who.int)
  • DMRs show continuous gain or loss of methylation during differentiation, and the overall change in DNA methylation correlates inversely with gene expression at key loci. (lu.se)
  • In addition, nucleoli are dynamic hubs through which numerous proteins shuttle and contact specific non-rDNA genomic loci. (umassmed.edu)
  • Deep sequencing analyses of DNA associated with isolated nucleoli (NAD- seq) have shown that specific loci, termed nucleolus- associated domains (NADs) form frequent three- dimensional associations with nucleoli. (umassmed.edu)
  • In this project, students will learn to design and clone DNA constructs, perform single-cell ATAC-sequencing, CRISPR library construction and sequencing library preparation and analysis. (edu.au)
  • Protein sequence information mainly consists of amino acid residue composition, biochemical features of amino acid residues and evolutionary information in terms of position-specific scoring matrices (PSSM). (nature.com)
  • Yan and his coworkers 11 trained a Naïve Bayes classifier by using only sequence information, such as the identities of the target residue and its sequence neighboring residues. (nature.com)
  • ssDNA template is hybridized to a sequencing primer and incubated with the enzymes DNA polymerase , ATP sulfurylase , luciferase and apyrase , and with the substrates adenosine 5´ phosphosulfate (APS) and luciferin . (wikidoc.org)
  • DNA polymerase incorporates the correct, complementary dNTPs onto the template. (wikidoc.org)
  • Unprotected DNA is in lane 1, DNA protected by repressor protein is in lane 2, and RNA polymerase-protected DNA is in lane 3. (pearson.com)
  • Polymerase chain reaction (PCR) was conducted using groEL PCR-restriction fragment length polymorphism and sequence analysis. (who.int)
  • This kinase is a catalytic subunit of the protein kinase complex that is important for cell cycle G1 phase progression and G1/S transition. (cancerindex.org)
  • This kinase, as well as CDK4, has been shown to phosphorylate, and thus regulate the activity of, tumor suppressor protein Rb. (cancerindex.org)
  • These encoding the protein kinase US2 and the immediate early protein ICP4. (usda.gov)
  • We determined a partial amino-acid sequence of an MLP cyanogen bromide peptide fragment that was used to design an MLP oligonucleotide primer. (tamu.edu)
  • This DNA fragment, called MLP-PCR, and two partial MLP cDNAs isolated with it, all contain open reading frames matching the known MLP amino-acid sequence. (tamu.edu)
  • In addition to implement iceLogo in R to visualize differential amino acid sequence pattern, dagLogo can also test and visualize significant amino acid group patterns by classifying the amino acids into groups according to charge, chemistry and hydrophobicity and etc. (umassmed.edu)
  • Celsee claims that the Genesis tool can sort cells in about 20 minutes and capture at least 70 percent of analyzed cells for downstream analysis. (genomeweb.com)
  • The pipeline extends the R package ArchR for downstream analysis with added support to any eukaryotic species with an annotated reference genome. (umassmed.edu)
  • In the 1980s, biochemical analysis of the nucleic acid composition of Pneumocystis rRNA and mitochondrial DNA identified the organism as a unicellular fungus rather than a protozoan. (medscape.com)
  • NEW YORK (GenomeWeb) - With the commercial launch of its single-cell analysis platform today, Celsee aims to tap into the expanding markets for proteogenomics, immune monitoring, and single-cell genomics. (genomeweb.com)
  • According to Coe, Celsee is targeting downstream proteogenomics as one of the first applications for the platform because the market is expanding as researchers not focus on expression data, but also protein epitopes and "we offer the ability to do this at scale. (genomeweb.com)
  • For Proteogenomics analysis, the suggested starting amount of this reagent for titration is ≤ 1.0 µg per million cells in 100 µL volume. (biolegend.com)
  • Here we show that the AN gene encodes a C-terminal binding proteins/brefeldin A ADP-ribosylated substrates (CtBP/BARS) related protein. (nih.gov)
  • CCK-8 assay, flow cytometric analysis, western blotting, orthotopic GBM model as well as transwell assay were performed to investigate the biological role of CASP5. (cancerindex.org)
  • Each lot of this antibody is quality control tested by immunofluorescent staining with flow cytometric analysis and the oligomer sequence is confirmed by sequencing. (biolegend.com)
  • Endothelial protein C receptor (EPCR) also known as activated protein C receptor (APC receptor) is a protein that in humans is encoded by the PROCR gene . (wikidoc.org)
  • [ 6 ] In humans, about 23 different unrelated proteins are known to form amyloid fibrils in vivo. (medscape.com)
  • The Origin Recognition Complex (ORC) binds to sites in chromosomes to specify the location of origins of DNA replication. (nature.com)
  • The S. cerevisiae ORC binds to specific DNA sequences throughout the cell cycle but becomes active only when it binds to the replication initiator Cdc6. (nature.com)
  • In the budding yeast Saccharomyces cerevisiae , there are over 400 origins of DNA replication located on 16 chromosomes and they can function as autonomously replicating sequences (ARSs) when inserted into a plasmid 19 . (nature.com)
  • The ORC-Cdc6 complex (product 1) assembles in step 1 around origin DNA and with the help of another replication initiator protein, Cdt1, it recruits the Mcm2-7 hexamer to the origin in step 2. (nature.com)
  • Cloning and expression analysis of DNA sequences for the major latex protein of opium poppy. (tamu.edu)
  • The electrophoresis gel shown in part (a) is from a DNase I footprint analysis of an operon transcription control region. (pearson.com)
  • EPCR protein is an N-glycosylated type I membrane protein that enhances the activation of protein C. [3] It belongs to the MHC class I / CD1 family of proteins, that is characterized by having a deep groove, that in other proteins in the family (but not in EPCR) is usually used for antigen binding. (wikidoc.org)
  • The protein is also involved in Plasmodium falciparum malaria as subtypes of the Plasmodium falciparum erythrocyte membrane protein 1 (PfEMP1) family use EPCR of the host as a receptor. (wikidoc.org)
  • Purification and partial sequencing of the nuclear autoantigen RA33 shows that it is indistinguishable from the A2 protein of the heterogeneous nuclear ribonucleoprotein complex. (jci.org)
  • 7 Primers designed to amplify the partial groEL gene encoding heat-shock protein of Anaplasma phagocytophilum EphplgroELF (5′-ATGGTATGCAGTTTGATCGC-3′) and EphplgroELR (5′-TCTACTCTGTCTTTGCGTTC-3′) were used and expected to yield a 625-bp product for Anaplasma phagocytophilum and for Anaplasma platys , respectively. (who.int)
  • and 3) To isolate, sequence and analyze at least one resulting positive peanut trypsin inhibitor clone. (usda.gov)
  • Celsee's new Genesis single-cell analysis platform builds on the firm's original Celsee Prep tool to capture and isolate individual target cells. (genomeweb.com)
  • After preparing a liquid, tissue, or cell suspension sample, researchers use the platform's Celsingle micro-analysis slides - which Celsee said can have the capacity for up to 1 million cell microwells - to isolate individual cells. (genomeweb.com)
  • Celsee has integrated previously established workflows and methodologies into the new platform while developing a workflow to isolate single cells for genetic analysis. (genomeweb.com)
  • Direct DNA sequencing was performed using the same PCR primers. (who.int)
  • Pyrosequencing is a method of DNA sequencing (determining the order of nucleotides in DNA) based on the "sequencing by synthesis" principle developed by Mostafa Ronaghi and Pål Nyrén (published in Analytical Biochemistry 1996 and Science 1998). (wikidoc.org)
  • 2007. Pyrosequencing AB was started to commercialize the machine and reagent for sequencing of short stretches of DNA. (wikidoc.org)
  • 454 developed an array-based Pyrosequencing which has emerged as a rapid platform for large-scale DNA sequencing. (wikidoc.org)
  • Improved performance of Pyrosequencing using single-stranded DNA-binding protein. (wikidoc.org)
  • Pyrosequencing: a tool for DNA sequencing analysis. (wikidoc.org)
  • ATAC-seq (Assays for Transposase-Accessible Chromatin using sequencing) is a recently developed technique for genome-wide analysis of chromatin accessibility. (umassmed.edu)
  • Amyloidosis results from the accumulation of pathogenic amyloids-most of which are aggregates of misfolded proteins-in a variety of tissues. (medscape.com)
  • Kornberg 7 has presented that the interactions between DNA and histones are involved in chromosome packaging in the cell nucleus. (nature.com)
  • If instead BLAST started out by attempting to align two sequences over their entire lengths (known as a global alignment), fewer similarities would be detected, especially with respect to domains and motifs. (nih.gov)
  • Furthermore, enrichment cultures will be initiated and monitored using various advanced genomic and metabolic analyses. (fems-microbiology.org)
  • The overall aim within the group is to predict recurrences by monitoring breast cancer specific proteins in tumors and patient blood, primarily using a combination of the DNA sequence and mass spectrometric analysis and to translate these findings into clinical routine work. (lu.se)
  • Our data suggest that CtBP/BARS-like protein function in plants is directly associated with the microtubule cytoskeleton. (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)
  • Caris molecular profiling performs thorough molecular testing on DNA, RNA and proteins to identify the biomarkers driving a patient's tumor, and to compare the biomarkers with data from clinical studies around the world. (carislifesciences.com)
  • In summary, these data strongly indicate that RA33 and A2 are the same protein, and thus identify on a molecular level a new autoantigen. (jci.org)
  • The goal is to aid biologists in gathering and processing genomic data to study protein function and protein interactions. (uniba.it)
  • However, the vast amount of biological data available and the demand for increasingly complex cations for their analysis offer vast opportunities for the systematic application of a wide range of techniques from computer science, including those based on computational logics. (uniba.it)
  • scATACpipe enables users to perform the end-to-end analysis of scATAC-seq data with three sub-workflow options for preprocessing that leverage 10x Genomics Cell Ranger ATAC software, the ultra-fast Chromap procedures, and a set of custom scripts implementing current best practices for scATAC-seq data preprocessing. (umassmed.edu)
  • OneStopRNAseq has user-friendly interfaces and offers workflows for common types of RNA-seq data analyses, such as comprehensive data-quality control, differential analysis of gene expression, exon usage, alternative splicing, transposable element expression, allele-specific gene expression quantification, and gene set enrichment analysis. (umassmed.edu)
  • Analysis of the sequencing data revealed numerous discrepancies with the published sequence of a composite genome. (usda.gov)
  • Here we have sequenced the exomes of 4,293 families containing individuals with developmental disorders, and meta-analysed these data with data from another 3,287 individuals with similar disorders. (cam.ac.uk)
  • Typically when data are presented, the fluor- escent intensity from the tissue is pseudo-colored red and the intensity from the reference green, and the logarithmic ratio of background corrected red and green intensities for each gene (spot) is subject to analysis (see Fig. 1 ). (lu.se)
  • Sequence analysis of two of these clones revealed a 96% and 93% similiarity with peanut allergens Ara h 4 and Ara h 3, respectively. (usda.gov)
  • Background: Peanut allergens and peanut trypsin inhibitors are seed storage proteins. (usda.gov)
  • The local alignment approach also means that an mRNA can be aligned with a piece of genomic DNA , as is frequently required in genome assembly and analysis. (nih.gov)
  • This can make the process of genome assembly more difficult, particularly for sequence containing a large amount of repetitive DNA . (wikidoc.org)
  • Tick samples (3-5 ticks) were frozen and mashed by liquid nitrogen and then deoxyribonucleic acid (DNA) was extracted using the G-spin genomic DNA extraction kit (iNrRON Biotechnology Inc., Republic of Korea). (who.int)
  • Furthermore, RA33 was shown to be present in the 40S hnRNP complex and to behave indistinguishably from A2 in binding to single stranded DNA. (jci.org)
  • The sequence patterns can become even more complex, when triads can be distinguished spectroscopically. (wikipedia.org)
  • [ 4 ] It is also important to understand that the same polypeptide sequence can produce many different patterns of interresidue or intraresidue interactions. (medscape.com)
  • Finds sub-sequences or patterns in the sequence and highlights the matching regions. (nih.gov)
  • The tool works with standard single letter nucleotide or protein codes including ambiguities and can match Prosite patterns in protein sequences. (nih.gov)
  • In this study, we present integrated quantitative proteome, transcriptome, and methylome analyses of hematopoietic stem cells (HSCs) and four multipotent progenitor (MPP) populations. (lu.se)
  • This includes trimming adapter sequences, filtering low-quality reads, and aligning the reads to a reference genome or transcriptome. (pharmiweb.com)
  • Extensive genetic analysis is performed in search of a diagnosis, but more than half of these patients are today left without one. (lu.se)
  • The structure reveals that Cdc6 contributes to origin DNA recognition via its winged helix domain (WHD) and its initiator-specific motif. (nature.com)
  • Each row corresponds to a specific residue and describes the probability of related sequences having that residue at that position. (nih.gov)
  • RPSBLAST (Reverse-Position-Specific BLAST ) can very quickly search a protein query against a database of PSSMs that were usually produced by PSI-BLAST . (nih.gov)
  • Please find detailed information on the kit Store page as well as in the Run a VolTRAX Sequencing Kit section under each specific kit. (nanoporetech.com)
  • Example of a pyrogram showing the nucleotide sequence in a specific section of DNA. (wikidoc.org)