Canonical sequence. Medical search. Frequent questions

Through whole-genome sequencing and canonical single-nucleotide polymorphism (canSNP) genotyping, F. tularensis subsp. (cdc.gov)
However, compared to other flaviviruses, USUV has received less research attention and there is therefore limited access to whole-genome sequences and also to in-depth phylogenetic and phylodynamic analyses. (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)
Whole genome sequencing of group A Streptococcus: development and evaluation of an automated pipeline for emmgene typing. (cdc.gov)
Epidemiology and whole genome sequencing of an ongoing point-source Salmonella Agona outbreak associated with sushi consumption in western Sydney, Australia 2015. (cdc.gov)

In depth analysis of the predicted gene set revealed some errors involving genes with non-canonical splice sites in their introns. (biomedcentral.com)
Since non-canonical splice sites are difficult to predict ab initio, we checked for options to improve the annotation by transferring annotation information from the recently released Columbia-0 reference genome sequence annotation Araport11. (biomedcentral.com)
Incorporation of hints generated from Araport11 enabled the precise prediction of non-canonical splice sites. (biomedcentral.com)
Manual inspection of RNA-Seq read mapping and RT-PCR were applied to validate the structural annotations of non-canonical splice sites. (biomedcentral.com)
GeneSet_Nd-1_v1.1 contains previously missed non-canonical splice sites in 1256 genes. (biomedcentral.com)
Despite attempts to annotate non-canonical splice sites automatically [ 24 , 25 ], ab initio gene prediction without experimental support from e.g. (biomedcentral.com)
RNA-Seq data ("external hints") does not support the detection and annotation of non-canonical splice sites on genome sequence assemblies at a satisfying level [ 26 , 27 , 28 ]. (biomedcentral.com)
There are 17 disruptions of the canonical AG/GT splice sites of the RB1 gene, 13 deleterious intronic, 6 exonic and 3 negative variants. (lu.se)

Each RBH couple consists of two genes, one from each of the two genome sequences (or genomes) to compare, which display the highest scoring hit in the other data set in a reciprocal manner [ 36 ]. (biomedcentral.com)
As the genomes of different organisms are sequenced and annotated it is becoming apparent that the complexity of an organism does not depend on the total number of protein-coding genes. (biologists.com)

Complete Genome Sequences of Identical Zika virus Isolates in a Nursing Mother and Her Infant. (cdc.gov)

Canonical GT-AG and non-canonical intron variants including AT-AC introns can coexist within the same gene, potentially with an effect on gene expression due to the slow removal of U12-type introns [ 10 ]. (biomedcentral.com)
Any spliceosomal complex that forms during the splicing of a messenger RNA primary transcript to excise an intron that has canonical consensus sequences near the 5' and 3' ends. (yeastgenome.org)

To ease future molecular studies, this study compares first- (partial sequencing via Sanger), second- (Illumina), and third-generation (MinION Nanopore) sequencing platforms for USUV. (frontiersin.org)
With emphasis on MinION Nanopore sequencing, cDNA-direct and target-enrichment (amplicon-based) sequencing approaches were validated in parallel. (frontiersin.org)
We concluded that depending on the focus of a research project, amplicon-based MinION Nanopore sequencing can be an ideal cost- and time-effective alternative to Illumina in producing optimal genome coverage. (frontiersin.org)

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)

known as leader sequences, these include the Shine-Dalgarno (SD) sequence required for canonical translation initiation in bacteria. (europa.eu)
Despite previous observations of OIRs generally leading to restored progress after one single-repair initiation, data from a multiperson conversational corpus of Norwegian Sign Language (NTS) show that 68% of 112 individual repair initiations occur in multiple OIR sequences. (degruyter.com)
This article identifies three different trajectories of multiple OIR sequences in the NTS data, which are as follows: (1) a trouble source being targeted by more than one repair initiation, (2) the self-repair becomes a new trouble source, or (3) the repair initiation becomes a new trouble source. (degruyter.com)
The high frequency of multiple OIR sequences provides an opportunity to quantitatively investigate how the various formats of repair initiation are distributed in single- and multiple-OIR sequences, how they occur as first or subsequent, and whether they restore the progress of the conversation or are followed by another repair initiation. (degruyter.com)
The other question is how different formats of repair initiation are distributed in different sequential positions of single and multiple OIR sequences, employing categories such as first and subsequent cases (Rossi 2015 ) and "closing" and "nonclosing" cases. (degruyter.com)
Pyroptosis is a programmed cell death process executed by inﬂammatory caspases upon initiation of canonical or non-canonical mechanisms. (genetex.com)

N-glycosylation is well known to occur at asparagine residues in the canonical consensus sequence N-X-S/T, but has also been identified at a small number of N-X-C motifs including the Asn491 residue of human serotransferrin. (nist.gov)
Here we report additional novel glycosylation sites within non-canonical consensus motifs, in the conformation N-X-C, based on mass spectrometry analysis of partially-deglycosylated glycopeptide targets. (nist.gov)
Additionally, we find that A1AG in porcine and canine sources is highly N-glycosylated at a non-canonical motif (N-Q-C) based on semi-quantitative MRM analysis the first report of an N-X-C motif exhibiting substantial N-glycosylation. (nist.gov)
Although reports of non-canonical motif N-glycosylation are uncommon in the literature, this work suggests that it may be more ubiquitous than the current dogma predicts. (nist.gov)

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)

The mean and standard deviation of the DOPE score of a given protein is estimated from its sequence. (salilab.org)
For modeling and analysis - such as in cancer research, for example, which is what we do here - by far the most important parts of the human genome assembly are the parts that code for protein ( transcribed regions and their ORFs ), along with their adjacent regulatory sequences . (bcgsc.ca)
155157 Another vorex is the ability to graft into specific proteins fluorescent tags such as the intact green fluorescent protein (Section J)158,159 or an amino acid sequence such as CCXXCC in which the four SH groups of the cysteines serve to trap an arsenic derivative of fluorescein (see Box 12-B). (forextrading-madeeasy.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)
Additionally, we compared how MD and grand-canonical Monte Carlo (GCMC) can be used to assess dynamics and thermodynamics of protein-ligand binding for both buried and solvent-exposed binding sites. (lu.se)

The pluripotency of the initial cell and the establishment of cell types depend to a large extent on the coordinated deployment of hundreds of transcription factors that bind to specific DNA sequences to activate or repress the transcription of cell lineage genes 1 . (nature.com)
For the vast majority of genes, the sequence in these regions was indeed finished. (bcgsc.ca)

The selected candidate will become an integral part of a research project focused on exploring the non-canonical functions of two complement proteins, C3 and CD59, in the pathophysiology of pancreatic β-cells, particularly in their connection to diabetes development. (lu.se)

The Arabidopsis thaliana Niederzenz-1 genome sequence was recently published with an ab initio gene prediction. (biomedcentral.com)
The improved gene set of the Nd-1 genome assembly (GeneSet_Nd-1_v1.1) was evaluated via comparison to the initial gene prediction (GeneSet_Nd-1_v1.0) as well as against Araport11 for the Col-0 reference genome sequence. (biomedcentral.com)

The maintenance phase often involves a plethora of non-DNA sequence specific chromatin cofactors that set up and maintain chromatin states through cell division and for extended periods of time-sometimes in the absence of the initial transcription factors 3 . (nature.com)
The canonical sequence involves pathogen-associated molecular patterns (PAMPs)- and damage-associated molecular patterns (DAMPs)-mediated inflammasome formation leading to caspase-1 activation, GSDMD cleavage, and IL-1 β and IL-18 maturation. (genetex.com)
Activation of NF-kappaB signaling involves rapid degradation of IkapaBalpha, nuclear accumulation of NF-kappaBp65, binding of NF-kappaB to specific DNA-binding sequences, and transactivation of target gene promoters. (cdc.gov)

This specification describes a method for generating a physical representation, the canonical form, of an XML document that accounts for the permissible changes. (w3.org)
The canonical form of an XML document is physical representation of the document produced by the method described in this specification. (w3.org)

The sheaf cohomology has long exact sequences for arbitrary topological space and short exact sequence of sheaves. (mathoverflow.net)

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 first is how individual OIR occur in sequences of multiple OIR in NTS. (degruyter.com)

Both the canonical and non-canonical pathways lead to the activation of gasdermin D (GSDMD), which forms pores that cause cellular leakage and lysis. (genetex.com)
The non-canonical string of events is characterized by direct interaction of the other three caspases with Gram-negative bacterial lipopolysaccharide (LPS) with subsequent GSDMD activation. (genetex.com)

Modernizing the content of the canonical calculus-based mathematical statistics sequence is necessary to improve the training of modern statisticians and data scientists. (causeweb.org)
Section 3 describes three different trajectories of multiple OIR sequences in the NTS data. (degruyter.com)
In this regard, I am developing pipelines and tools for the analysis of next-generation sequencing (WGS, WES and RNAseq) and proteomics (MS/MS) data analysis. (unil.ch)
I initiated my bioinformatics skills at Vital-IT (Swiss Institute of Bioinformatics) where I worked on diverse projects ranging from next-generation sequencing to data visualization. (unil.ch)
The formalism is first used to compute model forward scattering data, in the form of time-domain decay curves as measured by electromagnetic induction (EMI) or magnetic field, for a sequence of canonical ellipsoidal target shapes of various geometries. (serdp-estcp.org)

By convention, sequences and structures positioned nearer to the 3'-end relative to others are referred to as downstream. (wikipedia.org)

Of particular interest and as a specific case study of this characteristic aspect of Kubrick's mise-en-scene is the sequence in The Shining (1980) where Jack Torrance taunts and threatens his increasingly frightened wife, Wendy, on the Overlook hotel's Colorado Lounge central staircase. (sensesofcinema.com)

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)
CloVR-Comparative: automated, cloud-enabled comparative microbial genome sequence analysis pipeline. (cdc.gov)
Having prior expertise in the following areas can be highly advantageous for this role: cell biology, diabetes research, beta-cell differentiation, proficiency in microscopy techniques, hands-on experience with mouse models, and a strong background in bioinformatic analysis, particularly in RNA sequencing and ChIP sequencing. (lu.se)

We discuss the interplay between epigenetics and DNA sequence variation as well as the implications of epigenetics for cellular memory and plasticity. (nature.com)

I recently demonstrated that M. tuberculosis expresses an unexpected number of leaderless mRNA transcripts that lack the SD sequence. (europa.eu)

A core genome multi-locus sequence typing scheme for stable, comparative analyses of Campylobacter jejuni and C. coli human disease isolates. (cdc.gov)

The likelihood of interaction was most strongly defined by the three-dimensional (3D) domain structure rather than linear DNA sequence. (elifesciences.org)

Except for limitations regarding a few unusual cases, if two documents have the same canonical form, then the two documents are logically equivalent within the given application context. (w3.org)
Note that two documents may have differing canonical forms yet still be equivalent in a given context based on application-specific equivalence rules for which no generalized XML specification could account. (w3.org)

Alpha-1-acid glycoprotein (A1AG) and serotransferrin (Tf) were observed for the first time to be N-glycosylated at a total of six unique non-canonical motifs. (nist.gov)

Most activators work by binding to a specific sequence located within or near an enhancer or promoter and facilitating the binding of RNA polymerase and other transcription machinery in the same region. (wikipedia.org)
We collected paired PL and LM tumor samples to analyze the organ-specific difference using whole-exome sequencing, RNA sequencing, and multiplex immunohistochemistry. (bvsalud.org)

You've probably already heard - and have been hearing for the last 15 years - that the human genome has been sequenced. (bcgsc.ca)
In this work, we have tested the human canonical members of the RNase family using a spot-culture growth inhibition assay based mycobacteria-infected macrophage model for evaluating their anti-tubercular properties. (frontiersin.org)
11 And human diseases, including cancer in particular, tend to be defined by the presence of proteins with altered and pathogenic sequences. (biorxiv.org)

A quarter of the E. coli proteome is extracytoplasmic, targeted to a final destination by short, canonical N-terminal sequences that for the most part direct them either to the general secretory or Tat pathway machines. (nottingham.ac.uk)

The GAISE recommendations highlight the importance of assessment both for evaluating and improving student learning and in the mathematical statistics sequence, we can achieve both goals by focusing on conceptual understanding. (causeweb.org)

2) I've heard that when $X$ is not paracompact then $H^n(\Gamma(\mathcal{C}^*(X,\mathcal{F}))$ (but not $H^n(\Gamma_\phi(\mathcal{C}^*(X,\mathcal{F}))$) fails to be "functorial" (i think in the sense that short exact sequences don't go to long exact sequences). (mathoverflow.net)

Mutations in K + channel sequences can lead to a variety of clinical disorders exemplifying their physiological importance [ 3 ]. (ersjournals.com)

In this prospective study, we sequenced 761 blood samples from 139 patients with locally advanced non-small cell lung cancer treated with definitive radiation therapy (RT). (bvsalud.org)

Whereas canonical chromothripsis profiles display oscillations between two copy-number states, a considerable fraction of events involve multiple chromosomes and additional structural alterations. (lu.se)

Didier Trono s'est beaucoup intéressé aux interactions entre les virus et leurs hôtes, ce qui l'a conduit à étudier la biologie de pathogènes comme le VIH et le virus de l''hépatite B, et à créer des outils de transfert génétique dérivés du VIH aujourd'hui utilisés avec succès en thérapie génique. (epfl.ch)

in eukaryotes, the most basic cap consists of a methylated guanine nucleoside bonded to the triphosphate group that terminates the 5'-end of an RNA sequence. (wikipedia.org)

A cascade of channels consists of a sequence of individual channels so arranged that the output of the first serves as the input of the second, and so on seriatim. (forextrading-madeeasy.com)

No student may receive more than nine semester hours of credit in mathematics courses numbered below 1530 , with the exception of students who are pursuing the elementary education degree and following the 12-hour sequence specified in that curriculum. (lsu.edu)

Phenomena and Processes1

Information Science2

Whole-genome5

Splice sites8

Genomes2

Genome sequences1

Intron2

Nanopore3

Genomic1

Initiation6

Glycosylation4

Consensus1

Protein5

Genes2

Complement1

Prediction2

Involves3

Representation2

Arbitrary1

Organisms1

Occur1

Activation2

Data5

Structures1

Characteristic1

Analysis3

Variation1

MRNA1

Analyses1

Interaction1

Context2

Total1

Specific2

Human3

Direct1

Assessment1

Short1

Lead1

Cancer1

Events1

Virus1

Group1

Channels1

Student1