Structural and sequence analysis. Medical search. Frequent questions

A comparative genomic analysis supported the high quality of the F. equiseti assembly, exhibiting good collinearity with the reference strains, 3,483 species-specific genes, and 1,805 core genes. (researchsquare.com)
have analyzed the tef-1α sequences of F. equiseti , as well as the toxin-related genes PKS13 , PKS4, and TRI5 [26], and Kari has successfully cloned a protease gene [27]. (researchsquare.com)
The assembly was characterized, including analyses of the genomic structure, with the aim of providing data to support the discovery of beneficial or harmful genes and to improve our understanding of the molecular pathogenesis. (researchsquare.com)
which are detectable by chromosomal microarrays), and pathogenic sequence variants in developmental genes . (bvsalud.org)
We therefore aimed to evaluate the proportion of fetuses with structural abnormalities that had identifiable variants in genes associated with developmental disorders when assessed with whole- exome sequencing (WES). (bvsalud.org)
We used whole- exome sequencing (WES) to evaluate the presence of genetic variants in developmental disorder genes (diagnostic genetic variants) in a cohort of fetuses with structural anomalies and samples from their parents , after exclusion of aneuploidy and large CNVs. (bvsalud.org)
Sequencing results were interpreted with a targeted virtual gene panel for developmental disorders that comprised 1628 genes . (bvsalud.org)
To date, pathogenic variants in at least 30 genes, coding for different structural cilia proteins, are reported to cause skeletal ciliopathies. (scilifelab.se)
Molecular diagnostic testing was performed using massively parallel sequencing (MPS) in combination with copy number variant (CNV) analyses and in silico filtering for variants in known skeletal ciliopathy genes. (scilifelab.se)
If so, those genes known to be associated with specific cancer or syndrome predisposition are analysed by a state-of-the-art technology known as next-generation sequencing (NGS). (bmj.com)
The physical map provides a framework for assembly of genome sequence and information for localization of genes that are difficult to find through positional cloning. (frontiersin.org)
Computational analysis of potential candidate genes involved in the cold stress response of ten Rosaceae members. (ncbs.res.in)
We will also utilize the domain-centric protein sequence and structural analyses to understand the potential functions of the identified genes. (usda.gov)
These analyses revealed a mean exonic somatic mutation rate of 12.0 events/megabase and identified the majority of genes previously reported as significantly mutated in lung adenocarcinoma. (mit.edu)
Analysis of nucleotide context-specific mutation signatures grouped the sample set into distinct clusters that correlated with smoking history and alterations of reported lung adenocarcinoma genes. (mit.edu)
This entailed mining available transcriptomic and/or genomic sequence datasets for the presence of homologues of known TIMPs, predicting secondary structures of defined protein sequences, systematic phylogenetic analyses and assessment of differential expression of genes encoding putative TIMPs in the developmental stages of A. suum , N. americanus and Schistosoma haematobium which infect the mammalian hosts. (biomedcentral.com)
It seems likely that viral structural proteins originated from cellular genes. (virology.ws)
With the rising application of informatics solutions, gene sequencing is done through the identification of proteins and genes, which could further help in the development of potential drugs. (marketresearch.com)
The unique synonymous mutations detected in the E and Non-structural 2a genes of Usutu-BONN strains may suggest an adaptive evolution. (cdc.gov)
now, however, they are often classified by sequence and phylogenetic analyses of their respective genes ( 2 ). (cdc.gov)
Consequently, we further characterized 10 of these novel simian adenovirus strains by sequencing the entire open-reading frames of the hexon genes. (cdc.gov)

Structural alignments are especially useful in analyzing data from structural genomics and proteomics efforts, and they can be used as comparison points to evaluate alignments produced by purely sequence-based bioinformatics methods. (wikipedia.org)
Computational studies and Bioinformatics is an interdisciplinary field that progresses and applies computational methods to explore biological data collections such as protein samples, cell populations and genetic sequences for newer predictions or find out new Biology. (wikicfp.com)
Bioinformatics analysis of mutations sheds light on the evolution of Dengue NS1 protein with implications in the identification of potential functional and druggable sites. (ncbs.res.in)
For sequence analysis, bioinformatics tools play an important role. (marketresearch.com)
A secondary goal that should be sought by a bioinformatics facility is to make algorithms and analysis methods accessible for non-computational biologists. (lu.se)

PurposeCurrent clinical genomics assays primarily utilize short-read sequencing (SRS), but SRS has limited ability to evaluate repetitive regions and structural variants. (nih.gov)
The deletion was classified as pathogenic based on guidelines for interpretation of sequence variants.ConclusionThis first successful application of genome LRS to identify a pathogenic variant in a patient suggests that LRS has significant potential for the identification of disease-causing structural variation. (nih.gov)
This would identify the majority of structural variants, however there are many regions in genomic sequences which are complex in nature, defined as consisting of multiple neighboring or overlapping chromosomal rearrangements that are challenging to resolve with typical SV detection approaches. (grantome.com)
However, the overall detection of diagnostic genetic variants in a prospectively ascertained cohort with a broad range of fetal structural anomalies is lower than that suggested by previous smaller-scale studies of fewer phenotypes . (bvsalud.org)
Four variants located in non-canonical splice sites of DYNC2H1, EVC, and KIAA0753 led to aberrant splicing that was shown by sequencing of cDNA. (scilifelab.se)
These and other strategies are providing researchers and clinicians a variety of tools to probe genomes in greater depth, leading to an enhanced understanding of how genome sequence variants underlie phenotype and disease. (nature.com)

Gopinathan, Karumathil P. (1994) Structural proteins of mycobacteriophage I3: cloning, expression and sequence analysis of a gene encoding a 70-kDa structural protein Gene, 143 (1). (ias.ac.in)
The structural proteins of mycobacteriophage 13 have been analysed by sodium dodecyl sulfate-polyacrylamide-gel electrophoresis (SDS-PAGE), radioiodination and immunoblotting. (ias.ac.in)
Based on their abundance the 34-and 70-kDa bands appeared to represent the major structural proteins. (ias.ac.in)
Furthermore, our mass spectrometric analysis revealed an expanded family of chromatophore-targeted helical repeat proteins. (frontiersin.org)
Structural alignment is a valuable tool for the comparison of proteins with low sequence similarity, where evolutionary relationships between proteins cannot be easily detected by standard sequence alignment techniques. (wikipedia.org)
Structural alignment can therefore be used to imply evolutionary relationships between proteins that share very little common sequence. (wikipedia.org)
Non-structural (NS) 1 proteins from recombinant influenza A/Udorn/72 (H3N2) and influenza A/Finland/554/09 (H1N1pdm09) viruses were purified and used in Western blot analysis to determine specific antibody responses in human sera. (plos.org)
Analysis of worldwide sequence mutations in Zika virus proteins E, NS1, NS3 and NS5 from a structural point of view. (bvsalud.org)
We present here an analysis of all ZIKV sequences available in Genbank up to April 2016, studying the mutations in the whole polyprotein and their possible structural implications for the proteins E, NS1, NS3 and NS5. (bvsalud.org)
Moreover, the structural analysis of ZIKV proteins , together with the mutational landscape of ZIKV and a structure-sequence comparison with other flaviviruses , allows the suggestion of regions that could be exploited as anti- ZIKV targets, including some allosteric sites found in the NS3 and NS5 proteins of DENV. (bvsalud.org)
172 Computational analysis and prediction of proteins that undergo domain swapping. (ncbs.res.in)
Sequence analysis shows a conservation of the intramolecular chaperones in functionally unrelated proteins sharing beta-helices as a common structural motif. (rcsb.org)
We have previously discussed the idea that viruses originated from selfish genetic elements such as plasmids and transposons when these nucleic acids acquired structural proteins (see A plasmid on the road to becoming a virus ). (virology.ws)
I want to explore in more detail the idea that the structural proteins of viruses likely originated from cell proteins ( link to paper ). (virology.ws)
Missing from these hypothesis is how nucleic acids became virus particles - that is, how they acquired structural proteins. (virology.ws)
An analysis of the sequence an structure of major virion proteins has identified likely ancestors in cellular proteins. (virology.ws)
The extra sequences at the N-termini of viral jelly roll capsid proteins, involved in recognizing the viral genome, likely evolved after the capture of these proteins from cells. (virology.ws)
The core proteins of alphaviruses (think Semliki Forest virus) has structural similarity with chymotrypsin-like serine proteases. (virology.ws)
Retroviral structural proteins also appear to have originated from cell proteins, with clear homologies with matrix, capsid, and nucleocapsid proteins. (virology.ws)
At some point these genetic elements acquired structural proteins from the cells and became bona fide virus particles. (virology.ws)
In this strain, 1 putative cleavage site of the viral polyprotein responsible for processing of structural proteins was changed. (cdc.gov)

Prenatal exome sequencing analysis in fetal structural anomalies detected by ultrasonography (PAGE): a cohort study. (bvsalud.org)
Here, we report exome and genome sequences of 183 lung adenocarcinoma tumor/normal DNA pairs. (mit.edu)
If the results of these tests are nondiagnostic, whole exome sequencing analysis is recommended. (msdmanuals.com)

Successful cloning and expression of the 70-kDa protein-encoding gene of phage I3 in Escherichia coli and its complete nucleotide sequence determination have been accomplished. (ias.ac.in)
In conclusion, combined single nucleotide variant, CNV and cDNA analyses lead to a high yield of genetic diagnoses (90%) in a cohort of patients with skeletal ciliopathies. (scilifelab.se)
Figure 4: Sequencing by synthesis: single-nucleotide addition approaches. (nature.com)
The Usutu virus positive blackbird sample, which exhibited numerous nucleotide and amino acid changes compared with the other sequences, had been found outside of the Usutu virus endemic area. (cdc.gov)
Molecular Properties of Poliovirus Isolates: Nucleotide Sequence Analysis, Typing by PCR and Real-Time RT-PCR. (cdc.gov)
We performed alignment analysis of the complete nucleotide hexon sequences of the 10 novel strains and of reference human and simian adenoviruses by using the MUSCLE program within the MEGA5 software package ( 6 ). (cdc.gov)
Phylogenetic analysis of complete hexon gene nucleotide sequences from human and simian adenoviruses. (cdc.gov)

Since the completion of the human genome project in 2003, extraordinary progress has been made in genome sequencing technologies, which has led to a decreased cost per megabase and an increase in the number and diversity of sequenced genomes. (nature.com)
Some patients with suspected autosomal recessive disorders were recruited for whole genome sequencing (WGS) through the 100,000 Genomes Project after only one causative variant was detected. (bmj.com)
Whole genome profiling (WGP) is a sequence-based physical mapping technology and uses sequence tags generated by next generation sequencing for construction of bacterial artificial chromosome (BAC) contigs of complex genomes. (frontiersin.org)
Here, as part of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA), we analyze patterns of chromothripsis across 2,658 tumors from 38 cancer types using whole-genome sequencing data. (lu.se)

F. equiseti was most closely related to Fusarium pseudograminearum based on a phylogenetic analysis at the whole-genome level. (researchsquare.com)
2021. Antimicrobial Resistance Profiling and Phylogenetic Analysis of Neisseria gonorrhoeae Clinical Isolates From Kenya in a Resource-Limited Setting . (ncbs.res.in)
Phylogenetic analysis demonstrated that Usutu bond constitutes a putative novel African Usutu virus lineage, which was probably, recently, introduced to Central Europe. (cdc.gov)
The possibility of an African origin of this virus strain is strengthened by the fact that phylogenetic analysis of complete polyprotein sequence established a separate basal lineage for the Usutu-BONN strain in a sister relationship with the African Usutu virus strains. (cdc.gov)
Sequences for all reference strains used in the phylogenetic analysis were obtained from GenBank. (cdc.gov)

Sequencing results will be further incorporated into comparative genomics and phylogenetic analyses (approaches in Objective 1) to correlate genotypic data with our phenotypic knowledge. (usda.gov)
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)
A large amount of data is being generated in the post genomic era through research in genomics, proteomics, and structural biology. (lu.se)

Those RNA nucleic acid sequences are taken up by other cells in the organism and act as signalling molecules. (virology.ws)
They are widely used for the development of in-proprietary databases of protein, nucleic acid, and other biomolecule sequences. (marketresearch.com)
Direct sequencing of the pan-flavavirus PCR amplicons showed Usutu virus nucleic acid sequences in each sample. (cdc.gov)

In this study, the complete genomic sequence of Fusarium equiseti D25-1 was determined using multiple sequencing platforms. (researchsquare.com)

Using a multiple alignment of 175 cytochrome P450 (CYP) family 2 sequences, 20 conserved sequence motifs (CSMs) were identified with the program PCPMer. (utmb.edu)

Following our earlier work on sequencing and phasing, and mutation identification, the Mundlos and Vingron groups have joined their efforts in genome analysis. (mpg.de)

Sequence analysis of two tumors failed to reveal any structural changes within exon 1, as found by others in Burkitt's lymphoma. (lu.se)

Genomic analyses of H5N1 isolates from birds sialoside receptors and subsequent entry by membrane and humans showed 2 distinct clades with a nonoverlapping geographic distribution. (cdc.gov)

The whole genome sequencing of large cohorts of individuals is quickly becoming a common tool for researchers to investigate the genetic basis of many disease phenotypes. (grantome.com)
The rearrangement of chromosomal material in the form of structural variation is directly responsible for many disease phenotypes, however our ability to detect and resolve these events from whole genome sequence data is currently limited. (grantome.com)
Genetic results related to fetal structural anomaly phenotypes were then validated and reported postnatally. (bvsalud.org)
Some approaches maximize the number of bases sequenced in the least amount of time, generating a wealth of data that can be used to understand increasingly complex phenotypes. (nature.com)
Using TCR alpha and beta repertoire sequencing for T-cell subsets, as well as single-cell RNAseq and TCRseq, we track the concentrations and phenotypes of individual T-cell clones in response to primary and secondary yellow fever immunization - the model for acute infection in humans - showing their large diversity. (elifesciences.org)
Whole genome sequencing analysis for 100~ liver cancers reveals whole genome landscape of various phenotypes of liver cancers with multiple etiological backgrounds (virus and non-virus) for point mutations, CNVs, SVs, and virus integrations. (selectbiosciences.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)

Comparison of the hexon gene sequences of simian adenovirus types identified in this study with human and simian adenovirus sequences from GenBank revealed 9 previously reported hypervariable regions (HVRs): HVR1-HVR9 ( 5 , 7 ). (cdc.gov)

It is possible to perform a structural alignment on structures produced by structure prediction methods. (wikipedia.org)
For this reason it is common for structural alignment methods to use by default only the backbone atoms included in the peptide bond. (wikipedia.org)
Figure 2: Sequencing by ligation methods. (nature.com)
For this purpose, we are currently exploring normalization and visualization methods (mostly correspondence analysis) that allow us to bridge from single cells to organoids to tissues. (mpg.de)
Computational methods for biological sequence, structure and systems analysis. (jnu.ac.in)
Methods that improve small molecule docking scores, cheminformatics using data-mining methods, simulations of macromolecular systems and analysis of high-throughput data from biological experiments is the current focus of the lab in this area. (jnu.ac.in)
Researchers can use a variety of methods to prepare single cells for analysis. (genomeweb.com)

Structural alignment attempts to establish homology between two or more polymer structures based on their shape and three-dimensional conformation. (wikipedia.org)
A total of 15 protein sequences with high homology to known eukaryotic TIMPs were predicted from the complement of sequence data available for parasitic helminths and subjected to in-depth bioinformatic analyses. (biomedcentral.com)

These differences typicall consist of single base changes (SNPs), but can also encompass larger, more complex chromosomal rearrangements in the form of structural variation (SV) which are much more difficult to detect even with modern sequencing technologies. (grantome.com)
We propose a number of strategies for improving the detection and analysis of structural genomic variation between individuals and resolving their underlying structure and function. (grantome.com)
The different kinds of genomic structural variation to be identified from sequencing data. (mpg.de)
By restricting attention to the analysis of non-target words, we demonstrate that variation in the PN component of the AERP across conditions can be attributed solely to the instructions to the listener as the listening task varies in target complexity, ranging from a simple burst of noise, to a spectral (voice/gender) feature, then to the linguistic features of phonological and semantic analysis of words. (hearingreview.com)

With landmark mutation studies for each cancer type completed and the reduced cost in high throughput sequencing, the pace toward personalized oncology is gaining momentum. (selectbiosciences.com)

Estimating the fraction of the T-cell response directed against the single immunodominant epitope, we identify the sequence features of TCRs that define the high precursor frequency of the two major TCR motifs specific for this particular epitope. (elifesciences.org)
Work is continuing on regulatory sequence motifs and epigenetic regulation. (mpg.de)
1993). Based on these results, together with structural analyses of different ligand-binding models, it is apparent that SH2 domains bind distinct but overlapping sequence motifs. (lu.se)

Testing for aneuploidy and CNVs is routine during the investigation of fetal structural anomalies, but there is little information on the clinical usefulness of genome -wide next-generation sequencing in the prenatal setting. (bvsalud.org)
There are two major paradigms in next-generation sequencing (NGS) technology: short-read sequencing and long-read sequencing. (nature.com)
Mardis, E. R. Next-generation sequencing platforms. (nature.com)
WGP is designed based on the use of sequence tags generated by next generation sequencing (NGS) and is a powerful alternative to traditional DNA fingerprinting based physical mapping technologies, and also simultaneously generates a partial genome sequence. (frontiersin.org)
In this talk, I will introduce Chromatin Interaction Analysis with Paired-End Tag sequencing (ChIA-PET), a next-generation sequencing-based method for identifying chromatin interactions between transcription factor binding sites on a genome-wide scale which was part of the ENCODE consortium. (selectbiosciences.com)
Next generation sequencing (NGS) promises much to clinical diagnostics with its digital output, speed, and depth and breadth of coverage. (selectbiosciences.com)
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 the experience and provide the tools that are needed to analyze next generation sequencing data. (lu.se)

Click molecule labels to explore molecular sequence information. (nih.gov)
The Genesis system automates cDNA synthesis, pairing each cell with a unique cellular barcode and molecular indice for downstream analysis. (genomeweb.com)

The total repetitive sequence length was 1,713,918 bp, accounting for 4.2033% of the genome. (researchsquare.com)
To address the challenges of accurate assembly of the pea genome (∼4.2 GB of which approximately 85% is repetitive sequences), we have adopted the WGP technology for assembly of a pea BAC library. (frontiersin.org)
However, understanding of quantitative traits and use of genomic tools for breeding is partly restricted by the large expected genome size of 3,947 to 4,397 Mbp/1C ( Arumuganathan and Earle, 1991 ) and the occurrence of highly repetitive sequences in the pea genome. (frontiersin.org)
In the current study, we have undertaken construction of a sequence-based physical map of pea to address the challenge in the assembly of these repetitive sequences and overcome the shortcomings of traditional restriction digestion based physical maps. (frontiersin.org)

We will utilize several computational strategies to identify the genome difference between Lso haplotypes, including whole genome comparisons, ortholog analysis, gene neighborhood analysis, phylogenetic inference and conservation analysis. (usda.gov)

The latest schedule for the course DNA Sequencing Informatics I in the schedule software TimeEdit. (lu.se)

RNA from an avian sarcoma virus was used to detect cellular sequences (sarc) homologous to the viral transforming gene (src). (princeton.edu)

Complete genomic sequences of 12 different coronavirus strains demonstrated that the viral structure, with small irrelevant mutations, was stable in the transmission chains and showed remarkable traits of infectious traceability. (ersjournals.com)
In conclusion, the authors detected and genetically characterized a putative novel Usutu virus strain (Usutu-BONN) by determining its complete genome sequence and comparing it with Usutu virus strains for which complete polyprotein-encoding sequences are available. (cdc.gov)

We report on phylogenetic, phenotypic, and antigenic cally homogeneous and distinct from avian viruses circulat- analysis of H5N1 viruses from the 2004-2005 outbreak, ing before the end of 2003. (cdc.gov)
Endogenous retrovirus sequences were detected by using a 32 P-labeled avian leukosis viral RNA probe. (princeton.edu)
Drift of avian flu sequences? (cdc.gov)

Following PCR validation, any PCR products that are produced from the novel Lso haplotypes using the targeted primers will then be subjected to sequence analysis. (usda.gov)
Poliovirus serotype-specific VP1 sequencing primers. (cdc.gov)

The deduced amino-acid sequence of the 70-kDa protein and the codon usage patterns indicated the preponderance of codons, as predicted from the high G + C content of the genomic DNA of phage 13. (ias.ac.in)
However, caution should be used in using the results as evidence for shared evolutionary ancestry because of the possible confounding effects of convergent evolution by which multiple unrelated amino acid sequences converge on a common tertiary structure. (wikipedia.org)
Takao T, Hitouji T, Aimoto S, Shimonishi Y, Hara S, Takeda T, Takeda Y, Miwatani T (1983) Amino acid sequence of a heat-stable enterotoxin isolated from enterotoxigentic Escherichia coli strain 18D. (springer.com)
Genomic analysis revealed several unique amino acid substitutions among the polyprotein gene. (cdc.gov)

Functional analysis of TPM domain containing Rv2345 of Mycobacterium tuberculosis identifies its phosphatase activity. (jnu.ac.in)

In this study, the Illumina HiSeq 4000 and PacBio platforms were used to sequence and assemble the whole genome of Fusarium equiseti D25-1. (researchsquare.com)

Basic drug discovery requires the involvement of different sets of databases, sequence analysis tools, such as BLAST, FASTA, and CLUSTALW. (marketresearch.com)

In contrast to simple structural superposition, where at least some equivalent residues of the two structures are known, structural alignment requires no a priori knowledge of equivalent positions. (wikipedia.org)
Because these alignments rely on information about all the query sequences' three-dimensional conformations, the method can only be used on sequences where these structures are known. (wikipedia.org)
The outputs of a structural alignment are a superposition of the atomic coordinate sets and a minimal root mean square deviation (RMSD) between the structures. (wikipedia.org)
Structural alignment can be complicated by the existence of multiple protein domains within one or more of the input structures, because changes in relative orientation of the domains between two structures to be aligned can artificially inflate the RMSD. (wikipedia.org)
The minimum information produced from a successful structural alignment is a set of residues that are considered equivalent between the structures. (wikipedia.org)
The fitted structures can be used to calculate mutual RMSD values, as well as other more sophisticated measures of structural similarity such as the global distance test (GDT, the metric used in CASP). (wikipedia.org)
The structural alignment also implies a corresponding one-dimensional sequence alignment from which a sequence identity, or the percentage of residues that are identical between the input structures, can be calculated as a measure of how closely the two sequences are related. (wikipedia.org)
Because protein structures are composed of amino acids whose side chains are linked by a common protein backbone, a number of different possible subsets of the atoms that make up a protein macromolecule can be used in producing a structural alignment and calculating the corresponding RMSD values. (wikipedia.org)
When aligning structures with very different sequences, the side chain atoms generally are not taken into account because their identities differ between many aligned residues. (wikipedia.org)
The most basic possible comparison between protein structures makes no attempt to align the input structures and requires a precalculated alignment as input to determine which of the residues in the sequence are intended to be considered in the RMSD calculation. (wikipedia.org)
Structural superposition is commonly used to compare multiple conformations of the same protein (in which case no alignment is necessary, since the sequences are the same) and to evaluate the quality of alignments produced using only sequence information between two or more sequences whose structures are known. (wikipedia.org)
Analysis of long range residue-residue interactions in the CYP2B4 crystal structures indicated strong hydrogen bonds involving Glu 149 -Asn 177 -Arg 187 -Tyr 190 and Asp 192 - Val 194 , which were significantly reduced/abolished by the Arg 187 → Ala and Asp 192 → Ala substitutions, respectively. (utmb.edu)
This topic describes the methodology developed by Just-Evotec Biologics, Inc for the structural alignment and classification of full sequences from antibodies and antibody-like structures using the Antibody Structural Numbering system (ASN). (labkey.org)

The detection of prenatal structural anomalies should lead to further genetic evaluation so that many of these conditions can be identified before birth. (medscape.com)

Short-read sequencing approaches provide lower-cost, higher-accuracy data that are useful for population-level research and clinical variant discovery. (nature.com)
These include integrated long-read and short-read sequencing studies, routine clinical DNA sequencing, real-time pathogen DNA monitoring and massive population-level projects. (nature.com)
The demographics and clinical features of the 35 laboratory-confirmed cases were investigated and viral RNA of 12 cases was sequenced and analysed. (ersjournals.com)

the sequences were deposited in GenBank (accession nos. (cdc.gov)

By contrast, long-read approaches provide read lengths that are well suited for de novo genome assembly applications and full-length isoform sequencing. (nature.com)
Alternatively, other approaches now aim to sequence longer contiguous pieces of DNA, which are essential for resolving structurally complex regions. (nature.com)
Figure 3: Sequencing by synthesis: cyclic reversible termination approaches. (nature.com)
Figure 5: Real-time and synthetic long-read sequencing approaches. (nature.com)

About half of the human genome is composed of repeated sequences derived from mobile elements, generally without pathogenic effect. (bmj.com)

In addition, the early users commented on Genesis' ability to dramatically reduce the per-cell analysis cost, batch effects, and running time, as well its high throughput due to automated processing. (genomeweb.com)

Steps (2) and (3) are completed largely on the computer by use of CAD software to examine the fit and form of the design and engineering analysis software (finite element) to evaluate simulated performance under structural loading. (cdc.gov)

Indeed, evaluating such predictions often requires a structural alignment between the model and the true known structure to assess the model's quality. (wikipedia.org)
The CoreAb Java library (developed at Just - Evotec Biologics) contains algorithms for the classification and alignment of antibodies and antibody-like sequences. (labkey.org)
To generate an alignment for variable regions, the PSSM-matched sub-sequence is aligned to both germline V-segments and J-segments and these results are combined to synthesize an alignment for the entire variable region. (labkey.org)
The platform enabled analysis, representation, alignment of the small sections of peptides. (marketresearch.com)

Results have revealed that a single restriction endonuclease EcoRI fragment of 13 x 10 6 daltons contains the majority of these sequences and confirm that they are not adjacent to the endogenous provirus. (princeton.edu)
Sequencing results showed that all samples, except one blackbird-derived Usutu virus sequence, were identical and originated from southwest Germany. (cdc.gov)

In Aim 3, we will develop and implement a system that describes and utilizes variant profiles to identify whether an individual's sequence data contains a variant of interest. (grantome.com)
High diagnostic yield in skeletal ciliopathies using massively parallel genome sequencing, structural variant screening and RNA analyses. (scilifelab.se)

When you register a new protein sequence, this methodology is used to apply annotations representing these classifications. (labkey.org)

On the human side, we are currently focusing on the exploitation of long-read sequencing technologies for detection of structural variations in human individuals. (mpg.de)
A Position-Specific Sequence Matrix (PSSM) has been pre-built for each type and is used as a low threshold first pass filter for region detection using the Smith-Waterman algorithm to find local alignments. (labkey.org)
Step 2 of the classification process is the detection of a leader sequence. (labkey.org)

Additionally, the 1.1 million WGP tags will support efficient assignment of sequence scaffolds to the BAC clones, and thus an efficient sequencing of BAC pools with targeted genome regions of interest. (frontiersin.org)

Whole-genome sequencing revealed that the fusion resulted from a ∼400-kilobase (kb) deletion on chromosome 19 (chr19). (medscape.com)

Structural alignments can compare two sequences or multiple sequences. (wikipedia.org)
The germline sequences are stored as ASN-aligned so that the resulting region alignments are also ASN-aligned. (labkey.org)

2020. Distinct Evolutionary Origins of Intron Retention Splicing Events in Antiporter Transcripts Relate to Sequence Specific Distinctions in Species. . (ncbs.res.in)
In 2020, the sequence analysis market segment accounted for the largest share and is likely to register a significant market growth over the study period. (marketresearch.com)

Anatomy6

Organisms39

Diseases1

Chemicals and Drugs70

Analytical, Diagnostic and Therapeutic Techniques and Equipment38

Phenomena and Processes100

Disciplines and Occupations5

Anthropology, Education, Sociology and Social Phenomena1

Technology, Industry, Agriculture3

Information Science6

Health Care8

Geographicals3

Genes21

Bioinformatics5

Variants6

Proteins21

Exome3

Nucleotide7

Genomes4

Phylogenetic analysis5

Genomics3

Nucleic3

Genomic sequence1

Conserved sequence motifs1

Genome analysis1

Tumors1

Isolates1

Phenotypes6

Workflow1

Gene Sequences1

Methods7

Homology2

Variation4

Mutation1

Motifs3

Next-generation8

Molecular2

Repetitive4

Computational1

Informatics1

Homologous1

Strains2

Avian3

Primers2

Amino acid4

Identifies1

Platforms1

FASTA1

Structures13

Prenatal1

Clinical3

Genbank1

Approaches4

Pathogenic1

High-throughput1

Evaluate1

Alignment4

Results2

Variant2

Protein sequence1

Detection3

Additionally1

Deletion1

Alignments2

20202