• As a global trend, we concluded that the replicate number has a larger impact than the library size on the power of the DE analysis, except for low-expressed genes, for which both parameters seem to have the same impact. (frontiersin.org)
  • Differentially expressed genes (DEGs) for each treatment were identified with DESeq2 and uploaded to Ingenuity Pathway Analysis to identify and compare major changes in signaling pathways and cell functions. (cdc.gov)
  • RNA-seq offers several advantages over microarrays or RT-qPCR for detecting differentially expressed genes (DEGs). (biomedcentral.com)
  • This course covers several aspects of NGS data analysis and visualization, ranging from quality control, filtering and alignment to more specific tasks such as finding differentially expressed genes and detecting copy number aberrations, variants, methylation and ChIP-seq peaks. (csc.fi)
  • Scasa, an isoform-level quantification method for high-throughput single-cell RNA sequencing by exploiting the concepts of transcription clusters and isoform paralogs. (ne.jp)
  • This technique enables the sequencing of all RNA molecules in a high-throughput manner. (biomedcentral.com)
  • Then you may branch into RNA-seq transcriptomics and then other types, like high throughput PCR and NanoString. (biostars.org)
  • As of today, a high-throughput DNA sequencing machine can run millions of sequencing reactions in parallel, and it is becoming faster and cheaper to sequence the entire genome of an organism. (mst.edu)
  • Chipster integrates a comprehensive collection of analysis tools for high-throughput data such as NGS, microarrays and proteomics. (csc.fi)
  • RNA-seq has been widely used to study the transcriptome. (nih.gov)
  • Whole transcriptome sequencing (RNA-seq) represents a powerful approach for whole transcriptome gene expression analysis. (biomedcentral.com)
  • The Ion AmpliSeq™ Transcriptome Human Gene Expression Kit (AmpliSeq) was recently introduced by Life Technologies as a whole-transcriptome, targeted gene quantification kit to overcome these limitations of RNA-seq. (biomedcentral.com)
  • Transcriptome analysis has enhanced our understanding of the molecular constituents of cells and tissues. (biomedcentral.com)
  • Whole-transcriptome sequencing (RNA-seq) technology has emerged as a revolutionary platform for genome-wide quantification of mRNA transcripts. (biomedcentral.com)
  • This includes trimming adapter sequences, filtering low-quality reads, and aligning the reads to a reference genome or transcriptome. (pharmiweb.com)
  • Microarray transcriptome analyses have resulted in important advances in both the scientific and clinical domains of biomedicine. (biomedcentral.com)
  • They are also mostly tailored for whole genome (re-)sequencing experiments, whereas in many cases, transcriptome sequencing can be used as a cheaper alternative which already enables to identify SNPs located in transcribed regions. (rna-seqblog.com)
  • Using pooled human RNA-seq data, they clarify the precision and recall of their method and discuss them with respect to other methods which use a reference genome or an assembled transcriptome. (rna-seqblog.com)
  • Still, the 1,100-fold increase in speed for aligning RNA-seq reads to the human transcriptome via the Burrows-Wheeler Aligner (BWA) did not include time spent on steps before and after the alignment, which opens Biodepot to some criticism. (genomeweb.com)
  • PG2 integrates genome and transcriptome sequencing to incorporate protein variants containing amino acid substitutions, insertions, and deletions, as well as non-canonical reading frames, exons, and other variants caused by genomic and transcriptomic variation. (biorxiv.org)
  • Recent advances in nucleic acid sequencing now permit rapid and genome-scale analysis of genetic variation and transcription, enabling population-scale studies of human biology, disease, and diverse organisms. (biorxiv.org)
  • The results showed that those 2 isolates were multi-drug resistant and the DNA sequencing analysis showed that the alignment of nucleic acid of DNA in isolates of mycobacteria other than M. tuberculosis was different from that of M. tuberculosis complex. (who.int)
  • Both methods were validated successfully on the fully sequenced and well studied plant species, Arabidopsis thaliana"--Abstract, page iv. (mst.edu)
  • RNA-Seq is a widely used technology that allows an efficient genome-wide quantification of gene expressions for, for example, differential expression (DE) analysis. (frontiersin.org)
  • Sequences were preprocessed with adapter trimming and alignment-free quantification with Kallisto using Ensembl v96 transcriptomes. (cdc.gov)
  • Our study indicates that AmpliSeq excels in the limiting areas of RNA-seq for gene expression quantification analysis. (biomedcentral.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)
  • Assembly of the alignments into full transcripts and quantification of the expression levels of each gene/transcript. (lu.se)
  • Students will be introduced to biological sequence data (DNA and protein sequences, whole genomes, learn to access major sequence databases and use a variety of web-based services. (uit.no)
  • However, most proteomic studies rely on consensus databases to match spectra to peptide and proteins sequences, and thus remain limited to the analysis of canonical protein sequences. (biorxiv.org)
  • Full-envelope protein sequences for each serotype their initial consultation or are still in transit during their were aligned by using the multiple alignment tool of viremic phase. (cdc.gov)
  • A suite of custom software tools have been developed to rapidly integrate, explore, discover and validate molecular profiling data from the NGS modalities of Whole Exome Sequencing (WES) and RNA-seq with each other, as well as with historical microarray and salient clinical datasets. (biomedcentral.com)
  • We have developed PVAAS, a tool to identify single nucleotide variants that associated with aberrant alternative splicing from RNA-seq data. (nih.gov)
  • After a brief review of the main issues, methods and tools related to the DE analysis of RNA-Seq data, this article focuses on the impact of both the replicate number and library size in such analyses. (frontiersin.org)
  • Finally, we recommend to RNA-Seq practitioners the production of a pilot data set to strictly analyze the power of their experimental design, or the use of a public data set, which should be similar to the data set they will obtain. (frontiersin.org)
  • As for any other statistical analysis, one main issue has been finding the probabilistic model that best fits the data, as well as the optimal parameter estimates of this model. (frontiersin.org)
  • Investigators should submit data to the relevant NIH-designated data repository, e.g., dbGaP (for controlled access), the Single Nucleotide Polymorphism Database (dbSNP), GEO - Gene Expression Omnibus , or SRA - Sequence Read Archive , in a timely manner (see below). (nih.gov)
  • Using published data from two standard RNA reference samples, we observed a strong concordance of log2 fold change for all genes when comparing AmpliSeq to Illumina HiSeq (Pearson's r = 0.92) and Ion Torrent Proton (Pearson's r = 0.92). (biomedcentral.com)
  • To determine the KIF12 major splice variant, RNA-sequencing data and sequence alignments of KIF12 homologues were used. (nottingham.ac.uk)
  • Raw RNA-seq data contains a wealth of information but requires preprocessing steps to ensure accurate and reliable results. (pharmiweb.com)
  • In this tutorial participants will learn about biological data analysis with R and Unix/Linux tools. (r-bloggers.com)
  • We begin with an introduction to bioinformatics and omics data analysis, and conclude with the walkthrough of a simple bioinformatics workflow for aligning transcriptomic sequences with genomic data. (r-bloggers.com)
  • Be able to use bioinformatics software tools to prepare omics data for analysis. (r-bloggers.com)
  • It is a computational field that involves the analysis of complex omics data. (r-bloggers.com)
  • This commonly includes DNA, RNA, or protein sequence data. (r-bloggers.com)
  • The following graphic depicts a typical workflow for preparing, analyzing, and visualizing results from transcriptomic RNA sequencing data. (r-bloggers.com)
  • In this lesson you will gain experience in performing omics data analysis by working through part of a bioinformatics pipeline for analyzing gene expression data. (r-bloggers.com)
  • As a first step, we will begin with collecting some data for analysis. (r-bloggers.com)
  • Single-cell sequencing data has transformed the understanding of biological heterogeneity. (techscience.com)
  • Bioinformatic analysis of differential biology within the population of cells studied relies on inferences and grouping of cells due to the spotty nature of data within individual cell scRNA-seq gene counts. (techscience.com)
  • Authors are encouraged to attempt these aneuploid analyses when reporting scRNA-seq data, much like copy-number variants are commonly reported in bulk genome sequencing data. (techscience.com)
  • In this viewpoint, we direct investigators to select scRNA-seq CNA data analysis tools. (techscience.com)
  • Intuitive "eyeball" calls are uncommon in bulk RNA-seq or DNA-seq determination of aneuploidy and CNAs, so it is unsurprising that a simple stacking of read counts is insufficient for quality inference of aneuploidy in scRNA-seq data. (techscience.com)
  • Specialized software has thus been developed to appropriately handle RNA-seq data in the context of CNA determination. (techscience.com)
  • Given increasing numbers of RNA-seq samples in the public domain, we here studied to what extent eQTLs and ASE effects can be identified when using public RNA-seq data while deriving the genotypes from the RNA-sequencing reads themselves. (biomedcentral.com)
  • Even though these data originated from many different laboratories, samples reflecting the same cell type clustered together, suggesting that technical biases due to different sequencing protocols are limited. (biomedcentral.com)
  • By deriving and imputing genotypes from RNA-seq data, it is possible to identify both eQTLs and ASE effects. (biomedcentral.com)
  • Ideally, eQTL data on many tissues and many different samples should be available since this would permit eQTL mapping and ASE analyses on rare and low-frequency variants within different cell types. (biomedcentral.com)
  • Fortunately, the raw data of many RNA-seq experiments are being deposited in public databases, and the number of available human RNA-seq samples is growing exponentially, for example, in the European Nucleotide Archive (ENA) (Figure 1 a). (biomedcentral.com)
  • The need for automating genome analysis is a result of the tremendous amount of genomic data. (mst.edu)
  • Public databases containing genomic data are growing exponentially, and hence the rise in demand for intuitive automated methods of DNA analysis and subsequent gene identification. (mst.edu)
  • The second method is a massively parallel data mining algorithm that searches a whole genome for inverted repeats (palindromic sequences) and identifies potential precursors of non-coding RNA genes. (mst.edu)
  • The book is organized into clusters of chapters on the following topics:* Overview of modern molecular biology and a broad spectrum of techniques from computer science - data mining, machine learning, mathematical modeling, sequence alignment, data integration, workflow development, etc. (whsmith.co.uk)
  • As the user-friendly Chipster software is used for the exercises, no prior knowledge of NGS data analysis or unix is required. (csc.fi)
  • Researchers at the University of Lyon have developed a method that identifies, quantifies and annotates SNPs without any reference genome, using RNA-seq data only. (rna-seqblog.com)
  • The researchers then validate experimentally the predictions of their method using RNA-seq data from two non-model species. (rna-seqblog.com)
  • CHICAGO - Computational biologists and data scientists at the University of Washington-Tacoma have developed a methodology using "serverless" cloud computing that accelerates alignment of human RNA sequencing data by more than a thousandfold. (genomeweb.com)
  • Her academic laboratory designs computational workflows for next-generation sequencing data, with a particular focus on RNA-seq data. (genomeweb.com)
  • And there are a lot of RNA-seq data out there, so we believe the impact will be substantial," Yeung said. (genomeweb.com)
  • Each instance then aligns a small chunk of the RNA-seq data, which the algorithm collects and pieces back together into a full sequence. (genomeweb.com)
  • We benchmarked PG2 using synthetic data and genomic, transcriptomic, and proteomic analysis of human leukemia cells. (biorxiv.org)
  • CTG uses secure LSENS servers hosted by LUNARC for internal data management and analysis. (lu.se)
  • After sequencing, data will be kept by CTG for 3 months and subsequently deleted . (lu.se)
  • Demultiplexed data files generated from the Illumina sequencing run. (lu.se)
  • LAPIS is a fast web API for massive open virus sequencing data. (cdc.gov)
  • ViralConsensus: A fast and memory-efficient tool for calling viral consensus genome sequences directly from read alignment data. (cdc.gov)
  • VirBot: an RNA viral contig detector for metagenomic data. (cdc.gov)
  • Analysis of DENV sequence data facilitates rapid disease USA). (cdc.gov)
  • Sequence data obtained were deposited in GenBank tracking and vector control. (cdc.gov)
  • During my Ph.D. studies, my focus has been analyzing sequencing data in relation to transposable elements. (lu.se)
  • I have been mainly involved in the data analysis and interpretation of this data, working closely with biologists who conduct experiments in the lab. (lu.se)
  • My focus has been on the data analysis side of things, employing different computational methods to deal with mapping ambiguity and adapting new technologies such as single-cell RNA sequencing to better understand three families of transposable elements. (lu.se)
  • SARS-CoV-2 genome has 79.5% sequence similarity with SARS-CoV and only 50% homology with MERS-CoV (Lu et al. (springeropen.com)
  • Areas covered include sequence databases, pairwise and multiple sequence alignment, homology searches in sequence databases and subcellular localization prediction. (lu.se)
  • It was also able to reduce the time required for analysis by over 15-fold, making it a far superior method for analyzing large datasets. (biomedcentral.com)
  • We downloaded the raw reads for all available human RNA-seq datasets. (biomedcentral.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)
  • I have used various RNA and DNA-based technologies, including both short-read and long-read sequencing techniques, and worked to integrate these datasets, including bulk and single-cell datasets. (lu.se)
  • Read Mapping: alignment of reads to a specified reference genome (human, mouse or rat). (lu.se)
  • From the beginning, the main issues related to such DE analysis have been pointed out, and many methods and tools have been proposed in the relevant literature. (frontiersin.org)
  • Here, we introduce these issues and review some widely used methods and tools for DE analysis. (frontiersin.org)
  • This review will help us to choose the most relevant methods and tools to perform DE analyses in the present work. (frontiersin.org)
  • All three statistical methods demonstrate AmpliSeq as a highly accurate method for differential gene expression analysis. (biomedcentral.com)
  • Additionally, for genes with high abundance, AmpliSeq outperforms the two RNA-seq methods. (biomedcentral.com)
  • As in other traditional methods of tree construction, sequence alignment has to be performed before construction of the K2P/NJ-tree (i.e., a NJ tree based on the Kimura-2-parameter, K2P, distance). (biomedcentral.com)
  • Next Generation Sequencing (NGS) methods are rapidly providing remarkable advances in our ability to study the molecular profiles of human cancers. (biomedcentral.com)
  • These alignment-free methods have become quite popular especially in RNA-Seq analysis. (biostars.org)
  • This work describes two such automated methods for the identification of novel genes within given DNA sequences. (mst.edu)
  • In this 35-minute webinar, learn to perform NGS sequence assembly and alignment for multiple genomes, exomes, and RNA-Seq samples from a desktop or laptop computer. (dnastar.com)
  • VirPipe: an easy and robust pipeline for detecting customized viral genomes obtained by Nanopore sequencing. (cdc.gov)
  • Next, mRNA libraries were prepared from total RNA from lysed cells and subjected to RNAseq on an Illumina Novaseq. (cdc.gov)
  • Sequencing is performed on NovaSeq 6000, with read structure of 2 x 150 bp and aiming for 25M reads per sample. (lu.se)
  • 2. Install new/updated pipeline scripts === There are new pipeline scripts: http://baseplugins.thep.lu.se/browser/other/pipeline/trunk Download and install at a suitable location on the prime cluster: * `novaseq_status.sh`: Used by auto-confirmation to check status of !NovaSeq sequencing. (lu.se)
  • CamPype: an open-source workflow for automated bacterial whole-genome sequencing analysis focused on Campylobacter. (cdc.gov)
  • Fecal samples were collected from 63 overweight/obese and 37 normal-weight women and analyzed via a multi-omics approach combining 16S rRNA amplicon sequencing, metagenomics, metatranscriptomics, and lipidomics. (biomedcentral.com)
  • We recently demonstrated the feasibility of using unaligned rRNA sequences as barcodes based on a composition vector (CV) approach without sequence alignment ( Bioinformatics 22:1690). (biomedcentral.com)
  • 16S rRNA gene-based analyses showed that less than 10 species-level operational taxonomic units (OTUs) dominated the bacterial communities in the water phase and associated with the bottle wall after a short phase of post-bottling growth. (biomedcentral.com)
  • FAM71E2, also known as Family With Sequence Similarity 71 Member E2, is a protein that, in humans, is encoded by the FAM71E2 gene. (wikipedia.org)
  • In this study, for simplicity, we refer to intergenic lncRNAs as those that are transcribed by RNA-polymerase II, 5′ end capped and polyadenylated. (biomedcentral.com)
  • Next-generation sequencing analyses revealed the expression of TRPV1 in several native breast cancer tissues, which was subsequently validated via reverse transcriptase-polymerase chain reaction. (dovepress.com)
  • 2020 ). RNA-dependent RNA polymerase (RdRp) is the nsp-12 that has the important property to backtracking that causes long pausing at specific site (Dulin et al. (springeropen.com)
  • These canonical subgenomic RNAs are thought to be generated through the complex mechanism that involves pausing of negative sense RNA synthesis by RNA-dependent RNA polymerase (RdRp) (Alexandersen et al. (springeropen.com)
  • While the main drawback of previous relevant studies is the lack of generality, we conducted both an analysis of a two-condition experiment (with eight biological replicates per condition) to compare the results with previous benchmark studies, and a meta-analysis of 17 experiments with up to 18 biological conditions, eight biological replicates and 100 million (M) reads per sample. (frontiersin.org)
  • For individuals working on tomato research, on the basis of the meta-analysis, we recommend at least four biological replicates per condition and 20 M reads per sample to be almost sure of obtaining about 1000 DE genes if they exist. (frontiersin.org)
  • https://www.biorxiv.org/content/10.1101/2021.11.23.469039v1.full.pdf a new algorithm for aligning both reads in a pair simultaneously by fuzzily intersecting the sets of candidate alignment locations for each read. (ne.jp)
  • However, RNA-seq carries a few limitations, e.g., the requirement of a significant amount of input RNA and complications led by non-specific mapping of short reads. (biomedcentral.com)
  • Short sequence reads are generated by either single-end or paired-end sequencing. (biomedcentral.com)
  • The number of sequencing reads that map to each transcript is used to infer the abundance of mRNA molecules. (biomedcentral.com)
  • We also derived genotypes using the RNA-seq reads and used imputation to infer non-coding variants. (biomedcentral.com)
  • Using a simple local alignment to detect reads which contain the leader sequence, we were able to identify and quantify reads arising from canonical and non-canonical sgRNA. (nanoporetech.com)
  • With RNA-seq , we can capture and quantify the abundance of transcripts, revealing the dynamic landscape of gene expression within a cell or tissue. (pharmiweb.com)
  • These two classes of 5′ capped and polyadenylated RNA transcripts are indistinguishable with regard to their length, number of exons or transcriptional orientation relative to their closest neighboring gene. (biomedcentral.com)
  • In-depth discussion of computational recognition of functional and regulatory sites in DNA sequences. (whsmith.co.uk)
  • Incisive discussion of computational prediction of secondary structure of RNA sequences. (whsmith.co.uk)
  • be able to carry out a functional analysis of (part of) a microbial genome using bioinformatic tools. (bbk.ac.uk)
  • In the present bioinformatics analysis, a consensus secondary structure was identified among negative sense subgenomic RNAs of SARS-CoV-2. (springeropen.com)
  • In the current study, the bioinformatics analysis of negative sense subgenomic RNAs was performed that revealed a consensus hairpin loop secondary structure. (springeropen.com)
  • Comparing to microarray, sequencing-based RNA-seq is able to identify splicing variants and single nucleotide variants in one experiment simultaneously. (nih.gov)
  • Despite the popularity of RNA-seq, no bioinformatics tool has been developed to leverage this advantage to identify variants associated with aberrant splicing. (nih.gov)
  • RNA-sequencing (RNA-seq) is a powerful technique for the identification of genetic variants that affect gene-expression levels, either through expression quantitative trait locus (eQTL) mapping or through allele-specific expression (ASE) analysis. (biomedcentral.com)
  • Given the exponential growth of the number of publicly available RNA-seq samples, we expect this approach will become especially relevant for studying the effects of tissue-specific and rare pathogenic genetic variants to aid clinical interpretation of exome and genome sequencing. (biomedcentral.com)
  • However, recent studies in many organisms and in humans have revealed significant protein sequence variation due to the presence of somatically acquired genetic variants, alternative transcription, and mRNA splicing, which are not necessarily annotated in reference databases. (biorxiv.org)
  • 3. Import variant annotations === In the **RNA library preparation and analysis**/**Variant calling pipeline** section, run the **Import variants for existing variant call raw bioassays** wizard. (lu.se)
  • Is the Subject Area "Phylogenetic analysis" applicable to this article? (plos.org)
  • The primer and probe sets in the HA gene were checked for mismatches, and phylogenetic analyses were performed to determine the molecular epidemiology of these viruses. (who.int)
  • DGE analysis facilitates the identification of genes responsive to specific drug treatments. (pharmiweb.com)
  • The goal of BOLD is to generate a "taxon ID tree" based on a neighbour-joining (NJ) algorithm for every query sequence for easy identification. (biomedcentral.com)
  • Genofunc: genome annotation and identification of genome features for automated pipelining analysis of virus whole genome sequences. (cdc.gov)
  • A bioinformatics pipeline for a tick pathogen surveillance multiplex amplicon sequencing assay. (cdc.gov)
  • 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)
  • This task is potentially further complicated when a multitude of molecular profiling modalities are available, with the goal of a more integrative and comprehensive analysis of the cancer biology. (biomedcentral.com)
  • The mdxvu program is a molecular dynamics and molecular structure analysis code. (keywen.com)
  • Several downstream analyses are performed and their utility in applied ecology, evolutionary biology and molecular biology research will be discussed with guest lecturers. (lu.se)
  • Genotyping and molecular clock epidemics and imported cases, the disease has become a analysis supported Asian origination of a strain that caused major public health issue. (cdc.gov)
  • Although the conserved role of TRS has been identified/proposed in the pausing of transcription, the role of RNA secondary structure has not been identified in this perspective. (springeropen.com)
  • Therefore, in this study investigation of conserved secondary structure pattern was performed nearby the initiation codon/TRS that might be important in pausing of transcription during negative sense RNA synthesis of the SARS-CoV-2 genome. (springeropen.com)
  • We describe the first report of RNA sequencing of 5' capped (Pol II) RNAs isolated from acutely hepatitis C virus (HCV) infected Huh 7.5 cells that provides a general approach to identifying differentially expressed annotated and unannotated genes that participate in viral-host interactions. (mdpi.com)
  • In order to translate the viral proteins and package the RNA genome into virion particles, the SARS-CoV-2 enters the host cell and undergoes replication of the positive sense RNA genome. (springeropen.com)
  • For example: There are a LOT of sequence algorithms. (biostars.org)
  • Beyond, say, the Smith-Waterman and Needleman-Wunsch algorithms for sequence alignment, which ones do you find the most useful for what task? (biostars.org)
  • PG2 can be integrated with current and emerging sequencing technologies, assemblers, variant callers, and mass spectral analysis algorithms, and is available open-source from https://github.com/kentsisresearchgroup/ProteomeGenerator2 . (biorxiv.org)
  • Thus, AmpliSeq stands as a very sensitive and cost-effective approach for very large scale gene expression analysis and mRNA marker screening with high accuracy. (biomedcentral.com)
  • Our RNA service includes mRNA and total RNA library preparation and sequencing on Illumina platforms. (lu.se)
  • To further understand electrotactic migration of tumor cells, we performed RNA-sequencing for pathway discovery to identify signaling that is differentially affected by the exposure of direct-current electrical fields. (nature.com)
  • The structure of the molecules can be incorporated in the alignment. (keywen.com)
  • However, the complexity of gene organization makes automation a challenging task, and smart algorithm design and parallelization are necessary to perform accurate analyses in reasonable amounts of time. (mst.edu)
  • However, according to the preprint, there are limitations to this related to memory, disk space, execution time, and network bandwidth that the UW-Tacoma researchers overcame by developing an algorithm to create an on-demand virtual supercomputer for RNA-seq processing. (genomeweb.com)
  • The method can be used for any species to annotate SNPs and predict their impact on the protein sequence. (rna-seqblog.com)
  • With fasta/fastq input from an RNA-seq experiment, SNPs are found by K is S plice without using a reference. (rna-seqblog.com)
  • Lasergene 17.4.2 is a minor release that includes improvements to the Variant Table in MegAlign Pro and a bug fix addressing an issue with merging unaligned sequences. (dnastar.com)
  • On the other hand, eQTL analyses can be used for any genetic variant, but typically require the use of dozens of samples in order to have sufficient individuals in the different genotype classes. (biomedcentral.com)
  • This analysis enables us to pinpoint genes that play pivotal roles in phenotypic variation, disease development, or response to treatments. (pharmiweb.com)
  • This alignment process enables the determination of the origin of each read, allowing us to associate it with specific genes or genomic regions. (pharmiweb.com)
  • Nanopore sequencing offers advantages in all areas of research. (nanoporetech.com)
  • DGE analysis provides critical insights into the genetic programs governing various stages of development. (pharmiweb.com)
  • During the course, the students will learn to retrieve, analyze, compare and visualize genetic sequences. (uit.no)
  • Given that aneuploidy is (a) known to contribute to cell biology and (b) is present at some detectable level in many cell types, it is valuable for single-cell sequencing studies to include aneuploidy information in their analyses. (techscience.com)
  • Metabolic network reconstruction in combination with metabolomics analysis of bacterial culture supernatants provided insights into the metabolic potential and activity of the individual community members. (nature.com)
  • 2020 ). According to previous research model, it was suggested that strand exchange or 5′ leader (5′ UTR) sequence to body (RNA) fusion occurs at TRS during negative sense RNA synthesis (Kim et al. (springeropen.com)
  • Case studies on analysis of phylogenies, functional annotation of proteins, construction of purpose-built integrated biological databases, and development of workflows underlying the large-scale-effort gene discovery. (whsmith.co.uk)
  • Users can save their analysis pipelines as reusable automatic workflows, and both workflows and analysis sessions can be shared with colleagues. (csc.fi)