« Home « Kết quả tìm kiếm

Functional annotation

Tìm thấy 20+ kết quả cho từ khóa "Functional annotation"

Combining multiple functional annotation tools increases coverage of metabolic annotation

tailieu.vn

Combining multiple functional annotation tools increases coverage of metabolic. Annotated genomes typically contain 30 – 50% of genes without functional annotation, severely limiting our knowledge of the “ parts lists ” that the organisms have at their disposal.

Manual Annotation Studio (MAS): A collaborative platform for manual functional annotation of viral and microbial genomes

tailieu.vn

Results: We created Manual Annotation Studio (MAS) to improve the efficiency of the process of manual functional annotation prokaryotic and viral genomes. MAS allows users to perform an ensemble of homology searches at the click of a button and provides interactive visualizations of search results and of the genome being annotated.

Predicting male fertility in dairy cattle using markers with large effect and functional annotation data

tailieu.vn

However, multi-kernel models fitting functional annotation data showed similar predictive per- formance than the standard whole-genome approach.. The use of whole-genome se- quencing data plus a better annotation of the bovine gen- ome might provide new opportunities in this field.. The funding body did not contribute to the design of the study or collection, analysis and interpretation of data and writing the manuscript..

Transcriptome profiling of venom gland from wasp species: De novo assembly, functional annotation, and discovery of molecular markers

tailieu.vn

Transcriptome profile of the Asian giant hornet (Vespa mandarinia) using illumina HiSeq 4000 sequencing: de novo assembly, functional annotation, and discovery of SSR markers. Occurrence of Hymenoptera (wasps and bees) and their foraging in the southwestern part of Jirisan National Park, South Korea. In: The handbook of environmental chemistry, vol. Structural and functional characterization of two novel peptide toxins isolated from the venom of the social wasp Polybia Paulista.

Repertoire analysis of γδ T cells in the chicken enables functional annotation of the genomic region revealing highly variable pan-tissue TCR gamma V gene usage as well as identifying public and private repertoires

tailieu.vn

Repertoire analysis of γδ T cells in the chicken enables functional annotation of the genomic region revealing highly. Arguably, γδ T cell functions might be more prominent in chickens where these cells form a higher proportion of the circulatory T cell compartment.. A deeper understanding of TCR repertoire biology in γδ high and γδ low animals is critical for defining the evolution of the function of γδ T cells.

RNA-Seq reveals differential expression profiles and functional annotation of genes involved in retinal degeneration in Pde6c mutant Danio rerio

tailieu.vn

profiles and functional annotation of genes involved in retinal degeneration in Pde6c mutant Danio rerio. Retinal degeneration has been attributed to a wide variety of causes, such as disruption of genes involved in phototransduction, biosynthesis, folding of the rhodopsin molecule, and the structural support of the retina.

Analysis of molecular mechanism for acceleration of polyembryony using gene functional annotation pipeline in Copidosoma floridanum

tailieu.vn

Functional annotation of genes is not fully available for C.floridanum. Results: We obtained 11,117 transcripts in the JH treatment group and identified 217 differentially expressed genes compared with the control group.

Assessing the performance of different approaches for functional and taxonomic annotation of metagenomes

tailieu.vn

For the functional annotation of the raw reads (F_RR), KEGG [30] was used as the reference functional clas- sification, and the reads were annotated using the best hit to this KEGG database.. This pro- duces taxonomic and functional assignments for the genes in the contigs..

A-GAME: Improving the assembly of pooled functional metagenomics sequence data

tailieu.vn

Moreover, proteins containing functional domains of interest can be retrieved by performing keyword searches of PFAM domain de- scriptions. Selected proteins can be subjected to more thorough functional annotation of protein domains using the Inter- Pro suite [28]. An example of a workflow for the func- tional annotation and characterization of proteins of inter- est is provided in Fig.

Transcriptome analysis of air-breathing land slug, Incilaria fruhstorferi reveals functional insights into growth, immunity, and reproduction

tailieu.vn

RNA sequencing, De novo assembly, functional annotation and SSR analysis of the endangered diving beetle, Cybister chinensis. Sequencing and de novo assembly of the Asian clam (Corbicula fluminea) transcriptome using the Illumina GAIIx method. Transcriptome sequencing and de novo annotation of the critically endangered Adriatic sturgeon. Transcriptomic analysis of the endangered Neritid species Clithon retropictus:.

RNA-Seq analysis of soft rush (Juncus effusus): Transcriptome sequencing, de novo assembly, annotation, and polymorphism identification

tailieu.vn

transcriptome sequencing, de novo assembly, annotation, and polymorphism identification. Background: Juncus effusus L. Results: In this study we carried out functional annotation and polymorphism analysis of de novo assembled RNA- Seq data from 18 genotypes using 249 million paired-end Illumina HiSeq reads and 2.8 million 454 Titanium reads.. effusus as for the well- studied members of the Poales, Oryza sativa and Sorghum bicolor.

Enhancement of de novo sequencing, assembly and annotation of the Mongolian gerbil genome with transcriptome sequencing and assembly from several different tissues

tailieu.vn

The 22,998 protein-coding genes were aligned to several protein databases, along with the RNA sequences, to identify their possible function, which resulted in 20,760 protein-coding genes that had a functional annotation, or 90.3% of the total gene set (Table 6). Annotation data is available through Figshare, https://figshare.com/arti- cles/Mongolian_gerbil_genome_annotation/9978788.

Prioritizing candidate genes for fertility in dairy cows using gene-based analysis, functional annotation and differential gene expression

tailieu.vn

This indi- cated that, with the emergence of more functional study datasets permits the identification of better candidate genes with higher confidence based on biological support. More- over, the successful combination of information from differ- ent sources to prioritize candidate genes suggested we would gain higher power with the improvement of the un- derstanding of functional genomics.. Limitation of the present study.

Functional prediction of de novo uni-genes from chicken transcriptomic data following infectious bursal disease virus at 3-days post-infection

tailieu.vn

The table provides information on possible functional annotation of the unknown upregulated sequences by comparing against sequences with known functional annotations. This knowledge are worth mentioning as the vital reasons for the suppres- sion of the mentioned proteins possibly due to the redu- cing number of dividing lymphocytes of B-cells or an activity in BF to suppress viral DNA replication.

Liver transcriptome profiling and functional analysis of intrauterine growth restriction (IUGR) piglets reveals a genetic correction and sexual-dimorphic gene expression during postnatal development

tailieu.vn

In female IUGR piglets, the number of DGEs decreased as early as Day 7, whereas the number of DGEs decreased until Day 28 in the male IUGR piglets (Fig. 3 Detailed functional profiling of the DEGs whose expression significantly changed (P <. a Classification of GO terms based on the functional annotation of BP enriched in the IUGR piglets on Day 1. b The GOCircle plot of IUGR piglets on Day 1. c The GOChord plot of the IUGR piglets on Day 1. d The tables show the major functions of the DEGs that

Trait ontology analysis based on association mapping studies bridges the gap between crop genomics and Phenomics

tailieu.vn

TAS is an integrative toolkit for functional annotation and enrichment analysis of genes in crop species. database, and co-expression network data and con- structed TAS, an integrative toolkit for functional genomics in maize and rice (http://tas.hzau.edu.cn/)..

Assembly, annotation, and comparison of Macrophomina phaseolina isolates from strawberry and other hosts

tailieu.vn

The functional annotation of these genomes was com- pleted using RNA-Seq data derived from the 11–12 isolate grown in 10 different conditions to ensure that variation in gene expression was captured to obtain high-quality data for annotation. When searching for genes associated with isolates representing the strawberry genotype, 10 genes from the 11–12 assembly were identified including enzymes, pro- teins involved in DNA binding, and several genes with unknown function.

Identification of functional regulatory elements in the human genome using pooled CRISPR screens

tailieu.vn

Several of the regulatory elements we discovered are located in intergenic regions of the genome that are de- void of any prior functional annotation. to identify functional regulatory elements located deep within intergenic regions the human genome. Regardless, identifying the gene targets of these non- coding regulatory elements will be an exciting area of future research..

Genome-wide identification and functional prediction of long non-coding RNAs in Sprague-Dawley rats during heat stress

tailieu.vn

Furthermore, all the 3909 and 4953 DEGs in the liver and adrenal glands were used as targets for DElncRNAs and performed functional annotation for the DEGs that met various rules of function prediction (Additional file 6: Figure S1 and Additional file 5: Table S5, Additional file 8: Table S7, Additional file 9: Table S8, Additional file 11: Table S10, Additional file 12: Table S11).

Functional genomics of the digestive tract in broilers

tailieu.vn

Functional analysis of the seven transcriptional clusters revealed the main func- tions that are important in key specialized sections of the di- gestive tract. Although functional annotation of the chicken genome remains poor in comparison to model species such as the mouse, functional analysis is still relevant using ortho- logous relationships with well-annotated species..