• The CORALL™ Total RNA-Seq V2 Library Prep kits from Lexogen enables easy and cost-efficient generation of UMI labelled, stranded libraries for whole transcriptome analysis using Illumina® next generation sequencing (NGS) platforms. (bioscience.co.uk)
  • Libraries from CRC tissue and adjacent normal tissues were analyzed on a single Genome Analyzer IIx lane (Illumina, USA) using 115 bp sequencing. (biomedcentral.com)
  • Metagenomic sequencing was performed on the Illumina HiSeq 2500. (genomeweb.com)
  • Our Lab has developed a pipeline to collapse near-duplicate reads resulting from Ultra Hight Throughput Sequencing (UHTS), specifically Illumina and 454. (stanford.edu)
  • 3. Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. (cdc.gov)
  • For an organism that lacks a high-quality reference genome, the de novo assembly of its transcriptome is a useful method for researchers to find the transcripts or genes responsive to various treatments and to better understand the expression patterns of the candidate genes. (biomedcentral.com)
  • 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)
  • 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)
  • On the basis of whole-transcriptome analyses, we identify many genes that are expressed in a sex- or life stage-specific manner and characterize the transcriptional landscape of a morphological region with unique biological adaptations, namely, bacillary band and stichosome, found only in whipworms and related parasites. (nature.com)
  • We resolve chromosomal sequences and infer sex chromosome-specific parasite genes and new potential drug targets. (nature.com)
  • Various transcriptomic sequence information such as total RNA, messenger RNA (mRNA), microRNA (miRNA), transfer RNA (tRNA) can be obtained, and information such as alternative RNA splicing, Differentially Expressed Genes (DEGs) analysis, and Gene Fusion can be obtained. (dnalink.com)
  • Analysis of the blue coral transcriptome revealed enrichment of genes involved in stress response, including heat-shock proteins and antioxidants, as well as genes participating in signal transduction and stimulus response. (nature.com)
  • In this regard, research approaches investigating the transcriptome (i.e. the collection of transcripts from expressed genes that in great part will be translated into proteins) are enormously useful to identify potential biological markers for a variety of reasons. (iphc.int)
  • Since the transcriptome includes the transcription of all mRNA in cells, except for abnormal mRNA degradation (like transcriptional decay), the transcriptome reflects the genes that are actively expressed at any given time. (capitalbiotechnology.com)
  • A total of 330 significantly differential genes were identified through large-scale transcriptome sequencing, among which 103 genes were upregulated and 227 genes were downregulated. (mdpi.com)
  • AtRTD3 contains over 169,000 transcripts-twice that of the best current Arabidopsis transcriptome and including over 1500 novel genes. (dundee.ac.uk)
  • When comparing the sequencing method to culture, the researchers found that the culture missed several drug-resistance genes and was "cumbersome and required additional testing given the growth of isolates not intended to be selected on all types of screening media. (genomeweb.com)
  • By contrast, metagenomic sequencing was a "single diagnostic test with precise and clear quantitative detection of clinically important species and antibiotic-resistance genes of MDR bacteria relative to the abundance of all other species and antibiotic-resistance genes within the gut microbiota. (genomeweb.com)
  • A novel hybrid strategy combining de novo and reference-based assemblies yielded a transcriptome consisting of 126,708 transcripts with 88% of expressed known genes assembled to full-length. (pacb.com)
  • Next generation sequencing technologies offer rapid and efficient tools for generating large numbers of sequences, which can be used to characterize the transcriptome, to develop effective molecular markers and to identify genes associated with growth, a key breeding trait.Results:Total RNA was isolated from the mantle, gill, liver, siphon, gonad and muscular foot tissues. (syr.edu)
  • Based on transcriptome sequencing, 14,615 sequences had significant matches with known genes encoding 147,669 predicted proteins. (syr.edu)
  • The physiological conditions experienced by a microbial community can thus be inferred using meta-transcriptomic sequencing by comparing transcription levels of specifically chosen genes. (osti.gov)
  • Alice: Endosperm-preferred expression of maize genes as revealed by transcriptome-wide analysis of expressed sequence tags. (embrapa.br)
  • 1. Create an "array design" with all genes of interest (ideally this would be the largest set possible, e.g. known genes + predicted genes of all qualities, perhaps even predicted genes from the new sequence data). (lu.se)
  • Pathogenic germline sequence variants in two major susceptibility genes BRCA1 and BRCA2 confer a high relative risk and explain a proportion of familial breast cancer. (lu.se)
  • Second, a global view of the transcriptome of C. cassiicola spores during germination was evaluated using RNA sequencing (RNA-Seq). (biomedcentral.com)
  • Finally, currently available RNA sequencing (RNA-seq) technologies have become increasingly powerful and economical to allow an unprecedented view of the transcriptome of any species (Ozsolak and Milos, 2011) and this is particularly relevant for species without a sequenced genome, such as the Pacific halibut. (iphc.int)
  • This week, Last maintained that Affy is committed to offering the "best, cutting-edge gene-expression tools available," and said that the GeneChip Human Transcriptome and Splice Junction array "is the next generation of these tools, offering an even better view of the transcriptome. (genomeweb.com)
  • 2013). Therefore, IPHC has embarked on an initial characterization of the transcriptome of the Pacific halibut that will not only represent the first genomic resources for the species but that will lead to the identification of potentially useful markers to monitor growth, reproduction, performance and condition in this species. (iphc.int)
  • A transcriptome dataset will be established, representing an important genomic resource for the Pacific halibut. (iphc.int)
  • Next-generation sequencing is providing researchers with a relatively fast and affordable option for developing genomic resources for organisms that are not among the traditional genetic models. (gkr-forum.de)
  • An annotated transcriptome and other genomic tools will facilitate understanding the genetic and molecular bases of adaptation and variation in a vertebrate species with a uniquely well known natural history. (gkr-forum.de)
  • Background: Whole-genome sequencing (WGS) and whole-transcriptome sequencing (WTS), with the ability to provide comprehensive genomic information, have become the focal point of research interest as novel techniques that can support precision diagnostics in routine clinical care of patients with various cancer types, including hematological malignancies. (lu.se)
  • The AMD program has spent the last eight years investing in the latest next-generation genomic sequencing technologies. (cdc.gov)
  • Project: Genomic sequencing of SARS-CoV-2 to investigate local and cross-border emergence and spread. (cdc.gov)
  • Further by high-throughput genomic sequencing of SARS-CoV-2 the proposal plans to investigate the evolution, emergence and spread of infections in communities and populations and identify viral signatures of virulence. (cdc.gov)
  • Following crRNA and tracrRNA hybridization, SpCas9 is targeted to genomic loci matching a 20-nt guide sequence within the crRNA, immediately upstream of a required 5′-NGG protospacer adjacent motif (PAM) 11 . (cdc.gov)
  • Transposable elements (TEs) are mobile genetic sequences that comprise around 50% of our genomic DNA. (lu.se)
  • To understand how the genome and epigenome regulates cellular function, development of high-throughput sequencing methods, known as next-generation sequencing, are beginning to unravel genome-wide correlations between the genome, epigenome and transcriptome within a large population of cells or tissues. (confex.com)
  • The power of RNA sequencing (RNA-seq) is the fact that the twin aspects of discovery and quantification can be combined in a single high-throughput RNA sequencing experiment. (biomedcentral.com)
  • Background: We have applied a high-throughput pyrosequencing technology for transcriptome profiling ofCaenorhabditis elegans in its first larval stage. (sfu.ca)
  • 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)
  • The Centre is strengthened by the Single Cell Genomics Core Facility that implements state-of-the-art single-cell technologies and provides high throughput single-cell isolation and sequence library preparation services. (sanger.ac.uk)
  • Single-cell RNA-sequencing methods are now robust and economically practical and are becoming a powerful tool for high-throughput, high-resolution transcriptomic analysis of cell states and dynamics. (github.io)
  • High-throughput deep sequencing of S. constricta using 454 pyrosequencing technology yielded 859,313 high-quality reads with an average read length of 489 bp. (syr.edu)
  • MUSCLE: multiple sequence alignment with high accuracy and high throughput. (cdc.gov)
  • I'm just thinking out loud about how to incorporate high throughput transcriptome sequencing data into BASE. (lu.se)
  • This project will expand collaboration with California laboratories to improve laboratory and bioinformatic methods for cost-effective, high-throughput sequencing. (cdc.gov)
  • However, these results exhibited large differences, particularly in the total number of reconstructed transcripts and the quality of the assembled transcriptomes. (biomedcentral.com)
  • Although the total number of assembled transcripts increased with increasing sequencing data, the proportion of unassembled transcripts became saturated as revealed by plant BUSCO datasets. (biomedcentral.com)
  • In addition, the de novo assembled transcripts using the default parameters in most current assemblers are usually short in length, which hampers further sequence-based analysis and experiments. (biomedcentral.com)
  • 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)
  • 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)
  • Here we present a de novo assembly of the guppy (Poecilia reticulata) transcriptome using 454 sequence reads, and we evaluate potential uses of this transcriptome, including detection of sex-specific transcripts and deployment as a reference for gene expression analysis in guppies and a related species. (gkr-forum.de)
  • However, these methods typically rely on sequencing short fragments of cDNA, then attempting to assemble the pieces into full-length transcripts. (pacb.com)
  • In conjunction with SMRT Sequencing, which has average readlengths of 10-15 kb, we are able to sequence entire transcripts, including polycistronic RNAs, in a single read. (pacb.com)
  • We also show full-length bacterial transcripts sequenced after being treated with NEB's Cappable-Seq, which is an alternative method for depleting rRNA and enriching for full-length transcripts with intact 5' ends. (pacb.com)
  • Combining Cappable-Seq with PacBio long reads allows for the detection of transcription start sites, with the additional benefit of sequencing entire transcripts. (pacb.com)
  • At this depth, a near complete snapshot of the transcriptome was observed consisting of over 90% of the annotated transcripts, including lowly expressed transcription factors. (pacb.com)
  • For the purposes of RNA-Seq experiments, transcripts with highly redundant sequence should be removed. (stanford.edu)
  • Circular and apparently trans-spliced RNAs have recently been reported as abundant types of transcripts in mammalian transcriptome data. (nih.gov)
  • To classify and quantify IKZF1 mutant transcripts in B- cell acute lymphoblastic leukemia (B-ALL) by RNA sequencing ( RNA-seq ) and bioinformatics analysis . (bvsalud.org)
  • An integrated bioinformatics pipeline was developed to adapt the classification and quantification of IKZF1 transcripts from RNA-seq and was applied to sequencing data of these cases. (bvsalud.org)
  • IKZF1 mutant transcripts were identified in 53 B-ALL patients by RT-PCR and Sanger sequencing, among which IK6 and IK10 transcripts accounted for 67.9% (36/53) and 28.3% (15/53) respectively. (bvsalud.org)
  • Previous studies have combined quantitative PCR and Next Generation Sequencing to identify viral transcripts and splice junctions, however the fragmentation and selective amplification used in short read sequencing precludes the resolution of full length RNAs. (ox.ac.uk)
  • This methodology provides sequencing libraries where up to 25 % of reads are of viral origin and enable the identification of canonical (unspliced), non-canonical (spliced) and chimeric viral-human transcripts. (ox.ac.uk)
  • Although cell isolation methods such as fluorescence-activated cell sorting (FACS) in combination with transcriptome analysis have widely been used so far, their time-consuming and harsh procedures limit their applications. (nih.gov)
  • METHODS: We sorted a SCC into CD133- and CD133+ subpopulations and then examined both by copy number analysis (CNA) and whole genome and transcriptome sequencing. (ca.gov)
  • We are developing and applying methods to explore the genome, epigenome and transcriptome of single cells in order to better understand normal development and disease processes. (sanger.ac.uk)
  • Standard methods sequence DNA that has been extracted from a population of cells, such that not only the genetic composition of individual cells is lost, but also de novo mutations in cell(s) are effectively concealed by the bulk signal. (sanger.ac.uk)
  • We are developing wet-lab and computational methods to explore the transcriptomes of single cells, allowing for instance the discovery of novel cell types in complex tissues, the exploration of cell types/cell states and molecular processes involved in normal development and disease processes, and constructing roadmaps of cellular differentiation by pseudo-time ordering of single-cell transcriptomes. (sanger.ac.uk)
  • The novel methods for identifying accurate splice junctions and transcription start/end sites are widely applicable and will improve single-molecule sequencing analysis from any species. (dundee.ac.uk)
  • They also performed standard culturing methods to compare that to sequencing. (genomeweb.com)
  • The work presented in this thesis focuses on the bioinformatic methods for a TE-centric analysis of next- and third-generation sequencing technologies. (lu.se)
  • This method has successfully identified the cell type-specific transcriptome in three different tissues: endothelial cells in brain, epithelial cells in intestine and adipocytes in white adipose tissue. (nih.gov)
  • RNA sequencing (RNA-Seq) in CRC tissues and adjacent normal tissues from 6 CRC patients was performed and functional lncRNA-mRNA co-expression network was constructed afterwards. (biomedcentral.com)
  • Twelve samples (harboring 6 CRC tissues and 6 paired adjacent normal tissues) used in RNA-Sequencing (RNA-Seq) were collected from six Chinese patients who were diagnosed with stage II b or IIIb CRC. (biomedcentral.com)
  • The raw sequencing data is secondary analyzed, and the 6 pairs of CRC tissues were divided into two groups (group 1 and group 2, corresponding to clinical stage II and III, Table S 1 ) based on their clinical stages. (biomedcentral.com)
  • An intriguing study surveying the transcriptome of murine brain tissues revealed over 1300 imprinted gene loci (approximately 10-fold more than previously reported) by RNA-sequencing from F1 hybrids resulting from reciprocal crosses. (wikipedia.org)
  • The issue is that some RNA sequences that match CDSs from the genome, match them partially, and I'm looking for a way to tell which of these partially matching RNAs are functional, and which aren't and should be discarded. (biostars.org)
  • Whole transcriptome sequencing is designed to profile all types of RNA molecules, including coding (mRNA) and non-coding RNAs (including lncRNA, circRNA and miRNA) which are transcribed by specific cells at a certain time. (bmkgene.com)
  • We observe more than 8,000 lincRNAs with normal gene structure and several thousands of circularized and trans-spliced products, showing that such atypical RNAs form a substantial contribution to the transcriptome. (nih.gov)
  • Our study coupled an oligonucleotide enrichment protocol with state-of-the-art long read sequencing (PacBio) to identify the repertoire of HBV RNAs. (ox.ac.uk)
  • Enrichment capture and PacBio sequencing allows the assignment of canonical and non-canonical HBV RNAs using an open-source analysis pipeline that enables the accurate mapping of the HBV transcriptome. (ox.ac.uk)
  • De novo assembly, characterization and functional annotation of Senegalese sole (Solea senegalensis) and common sole (Solea solea) transcriptomes. (iphc.int)
  • Taking advantage of NGS technology, sequences of entire transcriptome products are available for ceRNA analysis and joint RNA analysis, which provides the first step towards functional characterization. (bmkgene.com)
  • New sequencing technology provides thorough characterization of the genome and transcriptome. (lu.se)
  • Here, we describe a method that uses PacBio long reads to sequence full-length cDNAs from individual transcriptomes and metatranscriptome samples. (pacb.com)
  • Accurate and comprehensive annotation of transcript sequences is essential for transcript quantification and differential gene and transcript expression analysis. (dundee.ac.uk)
  • Increasing the number of reads should increase the level of uniquely mapped reads to facilitate the de novo assembly and quantification analysis, but this approach can also increase the cost of library preparation and sequencing [ 2 ], which can be wasteful in terms of data storage and processing. (biomedcentral.com)
  • The assembly included transcript sequences from both the coral host and its symbionts, which are related to the thermotolerant C3-Gulf ITS2 type Symbiodinium . (nature.com)
  • Outside BASE, align the new sequences to genome or transcript sequences and calculate "intensities" for each gene on the "array design" and dump into a tab delimited raw data file. (lu.se)
  • These differences largely result from limited knowledge regarding the optimized sequencing depth and assembler for transcriptome assembly of structurally complex plant species genomes. (biomedcentral.com)
  • Our revolutionary sequencing technologies combine the completeness of long reads with the accuracy of short reads to provide the most comprehensive view of genomes, transcriptomes, and epigenomes. (pacb.com)
  • Sequencing RNA isolated from de novo HBV infected cells or those transfected with 1.3 × overlength HBV genomes allowed us to assess the viral transcriptome and to annotate 5′ truncations and polyadenylation profiles. (ox.ac.uk)
  • However, accuracy is significantly affected by sequencing errors, mRNA degradation, or incomplete cDNA synthesis. (dundee.ac.uk)
  • We analyzed The Cancer Genome Atlas (TCGA) transcriptome data of 221 SCCs to determine the generality of our observations. (ca.gov)
  • We employed different amounts of RNA-sequencing data, ranging from 4 to 84 Gb, to assemble the tea plant transcriptome using five well-known and representative transcript assemblers. (biomedcentral.com)
  • With the rapid innovation of sequencing technology, the scale of raw data generation is growing explosively [ 1 ]. (biomedcentral.com)
  • The accurate assembly of a transcript is largely determined by the sequencing depth, which leads to the question of how much data should be generated in an RNA-seq experiment to obtain robust results. (biomedcentral.com)
  • Using RNA sequencing data from whipworm-infected mice, we describe the regulated T helper 1 (T H 1)-like immune response of the chronically infected cecum in unprecedented detail. (nature.com)
  • Ongoing technical improvements to single-cell RNA-sequencing throughput and sensitivity, the development of more sophisticated analytical frameworks for single-cell data, and an increasing array of complementary single-cell assays all promise to expand the usefulness and potential applications of single-cell transcriptomic profiling. (github.io)
  • Because accomplishing this with RNA-seq comes with such high costs and data complexity, we believe the time is right to focus our expertise on the type of analysi?s tools that interrogate the whole transcriptome with better reproducibility and coverage than the equivalent amount of sequencing. (genomeweb.com)
  • Data is being published to demonstrate that as a practical matter for large-scale clinical studies, array-based approaches are a perfect complement to the discovery of transcriptome elements. (genomeweb.com)
  • We generated single-cell transcriptomes for all major apicomplexan groups lacking large-scale sequence data. (elifesciences.org)
  • This hands on course will give you the experience and provide the tools that are needed to analyze next generation sequencing data. (lu.se)
  • Sequencing Data Discovery with MetaSeek. (cdc.gov)
  • Integrating Whole-Genome Sequencing Data Into Quantitative Risk Assessment of Foodborne Antimicrobial Resistance: A Review of Opportunities and Challenges. (cdc.gov)
  • Here, we report a novel in vivo metabolic RNA sequencing method, SLAM-ITseq, which metabolically labels RNA with 4-thiouracil in a specific cell type in vivo followed by detection through an RNA-seq-based method that specifically distinguishes the thiolated uridine by base conversion. (nih.gov)
  • Metatranscriptome assembly yielded 90,817 sequences of which 71% (64,610) could be annotated by comparison to public databases. (nature.com)
  • 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)
  • To facilitate mammalian genome engineering applications, we provide a web-based software tool to guide the selection and validation of target sequences as well as off-target analyses. (cdc.gov)
  • We performed northern blot analyses for the guide RNA truncations and found increased levels of expression for the longer tracrRNA sequences, suggesting that improved target cleavage was at least partially due to higher sgRNA expression or stability ( Fig. 1c ). (cdc.gov)
  • After 4 weeks of conversion, we performed global analyses of RNA and protein levels by RNA-sequencing and mass spectrometry. (lu.se)
  • Teach the fundamentals of NGS workflow from sample preparation to sequencing. (indiabioscience.org)
  • Our technology follows the use of NGS or Sanger sequencing in discovery to take the workflow downstream with the validation performance of catalog or custom expression microarrays," he said. (genomeweb.com)
  • In the area of metatranscriptomics, long reads reveal unambiguous gene sequences without the need for post-sequencing transcript assembly. (pacb.com)
  • In this study, we generated nearly 3 billion RNA-Seq reads, totaling 341 Gb of sequence, from a Zea mays seedling sample. (pacb.com)
  • We assembled the transcriptome of a clonal population of adult, aposymbiotic (dinoflagellate-free) Aiptasia pallida from ~208 million reads, yielding 58,018 contigs. (stanford.edu)
  • The multi-lab effort led by KAUST Reef Genomics lab to sequence the Aiptasia genome culminated in our open access PNAS article . (stanford.edu)
  • An integrative analysis of the transcriptome, epigenome and proteome of distinct TEC subpopulations will be used to attain an unparalleled systems-level understanding of the molecular conditions that select a tolerant T cell repertoire under normal physiological conditions. (sanger.ac.uk)
  • Thus far, single-cell RNA-sequencing has already shown great effectiveness in unraveling complex cell populations, reconstructing developmental trajectories, and modeling transcriptional dynamics. (github.io)
  • First, given that the transcriptome is a reflection of the activation state of the genome (i.e. through the transcription or expression of the genome), transcriptomic assessment provides an opportunity to evaluate physiological responses of organisms to external influences at a molecular level. (iphc.int)
  • NEW YORK (GenomeWeb) - Researchers with Cincinnati Children's Hospital have developed a metagenomic sequencing protocol for fecal samples to detect bacteria resistant to multiple drugs, in order to prevent the spread of infection with such bugs. (genomeweb.com)
  • The researchers noted that their next step would be to develop prediction models in order to better stratify patients according to their risk of developing a multi-drug resistance bacterial based on their metagenomic sequencing profile. (genomeweb.com)
  • To overcome this limitation, recent advances in molecular biology have enabled genome-wide single-cell measurements of the transcriptome, genome or certain epigenetic marks that capture this cell-to-cell heterogeneity. (confex.com)
  • In the last decade, many studies have generated the transcriptomes of tea plants at different developmental stages or under abiotic and/or biotic stresses to investigate the genetic basis of secondary metabolites that determine tea quality. (biomedcentral.com)
  • It is an epigenetic process that involves DNA methylation and histone methylation without altering the genetic sequence. (wikipedia.org)
  • Reference sequences are comprised of full-length sequences from which all 3 genetic segments are available. (cdc.gov)
  • Transcriptome sequencing-based classification and quantification of IKZF1 transcript isoforms in B-cell acute lymphoblastic leukemia]. (bvsalud.org)
  • Transcriptome sequencing is a technology that analyzes the sequence of transcriptome, or RNA transcribed from DNA, using Next Generation Sequencing (NGS). (dnalink.com)
  • To better understand the molecular mechanisms underlying its biology and ecology, we generated a reference transcriptome for H. coerulea using next-generation sequencing. (nature.com)
  • Next-generation sequencing has become a useful tool for studying transcriptomes. (pacb.com)
  • Their results clearly demonstrated array performance that will drive the use of microarrays in concert with the growth of information" from next-generation sequencing. (genomeweb.com)
  • Affy's new product launch comes at a time when the firm is facing pressure in the expression market from next-generation sequencing. (genomeweb.com)
  • PulseNet: Entering the Age of Next-Generation Sequencing. (cdc.gov)
  • Objective To uncover the biologic that means of particular person prognostic radiomics phenotypes in glioblastomas utilizing paired MRI and RNA sequencing information and to validate the reproducibility of the recognized radiogenomics linkages externally. (jivanbio.com)
  • Transcriptome sequencing of tumor subpopulations reveals a spectrum of therapeutic options for squamous cell lung cancer. (ca.gov)
  • Genome sequencing and transcriptome analysis of Trichoderma reesei QM9978 strain reveals a distal chromosome translocation to be responsible for loss of vib1 expression and loss of cellulase induction. (france-genomique.org)
  • Streets and the Chan Zuckerberg Biohub published a patent for microfluidic cell barcoding and sequencing in March 2023. (wikipedia.org)
  • Here, we show full-length bacterial transcriptomes with the ability to visualize transcription of operons. (pacb.com)
  • Single-molecule long-read sequencing technologies provide improved integrity of transcript structures including alternative splicing, and transcription start and polyadenylation sites. (dundee.ac.uk)
  • With built-in UMIs and 384 UDIs for maximised sequencing output, and an all-in-one protocol, this technology allows for the complete and uniform transcript coverage from start to end, and flexible input requirements (1ng to 1 μg). (bioscience.co.uk)
  • Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs. (cdc.gov)
  • A total of 13,563 microsatellites (SSRs) and 13,634 high-confidence single nucleotide polymorphism loci (SNPs) were discovered, of which almost half were validated.Conclusion:De novo sequencing of the razor clam S. constricta transcriptome on the 454 GS FLX platform generated a large number of ESTs. (syr.edu)
  • Although an sgRNA design consisting of a truncated crRNA and tracrRNA had been previously shown to mediate efficient cleavage in vitro 12 , it failed to achieve detectable cleavage at several loci that were efficiently modified by crRNA-tracrRNA duplexes bearing identical guide sequences 1 . (cdc.gov)
  • I did blastn of a transcriptome that was generated with Trinity against the assembly-level annotated genome of the bacterium I work with. (biostars.org)
  • The present study compares the performance of five representative transcript assemblers and investigates the key factors that affect the assembly quality of the transcriptome of the tea plants. (biomedcentral.com)
  • This study will be of significance in helping the tea research community obtain better sequencing and assembly of tea plant transcriptomes under conditions of interest and may thus help to answer major biological questions currently facing the tea industry. (biomedcentral.com)
  • These contigs were uploaded to the NCBI Transcriptome Assembly Shotgun Sequence Database, accession numbers JV077153-JV134524. (stanford.edu)
  • SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. (cdc.gov)
  • Comparative analysis of lung and blood transcriptomes in mice exposed to multi-walled carbon nanotube s. (cdc.gov)
  • To answer this question, we performed mRNA sequencing analysis of the whole blood and lung in mice administered MWCNT or vehicle solution via pharyngeal aspiration and sacrificed 56 days later. (cdc.gov)
  • Here, we analyze the transcriptome of CSC and non-CSC subpopulations by RNA-seq to identify new potential therapeutic strategies for SCC. (ca.gov)
  • In so doing, it demonstrates how transcriptome sequencing provides insights into the molecular underpinnings of cancer propagating cells that, importantly, can be leveraged to identify new potential therapeutic options for cancers beyond what is possible with DNA sequencing. (ca.gov)
  • Genome sequence and spore germination-associated transcriptome analysis will contribute to the understanding of the molecular mechanism of pathogenicity and spore germination of C. cassiicola . (biomedcentral.com)
  • We are developing single-cell genome sequencing technologies to enable the discovery of the entire spectrum of DNA mutation -including the acquisition of ploidy changes, aneuploidies, copy number variants, structural variants, retrotranspositions, indels, and single nucleotide variants. (sanger.ac.uk)
  • Decreasing sequencing cost, increasing number of clinically relevant aberrations and discovery of more complex biomarkers of treatment response, should pave the way for health care systems and laboratories in implementing WGTS into clinical practice, to transform diagnosis and treatment for patients with cancer. (ox.ac.uk)
  • During the firm's Q2 earnings call last month, he acknowledged that sequencing is "drawing a lot of attention and money" from the market, but argued that it is also creating opportunities for the Affy, particularly when it comes to gene-expression profiling ( BAN 7/26/2011 ). (genomeweb.com)
  • The proposed study builds on an extensive pilot study by evaluating the association between change in gene expression and changes in PTSD and LRS symptom severity across an 18-month period, using cutting edge RNA-sequencing. (cdc.gov)
  • RNA sequencing: advances, challenges and opportunities. (iphc.int)
  • This study provides a more complete C. elegans transcriptome profile and,furthermore, gives insight into the evolutionary and biological complexity of this organism. (sfu.ca)
  • We are applying single cell sequencing techniques to profile the majority of the cells in mouse postimplantation embryos. (sanger.ac.uk)
  • The company last week launched its GeneChip Human Transcriptome and Splice Junction Array, a 6.9-million-feature chip designed with researchers from Stanford University. (genomeweb.com)
  • The researchers sequenced the fecal microbiomes of 17 inpatient samples, who were deemed at a higher risk to becoming infected with drug resistant bacteria due to prolonged hospital stays, as well as 11 outpatient samples, who were deemed at a lower risk. (genomeweb.com)