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Local alignment
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The study underscores the importance of adaptable strategies and highlights factors enabling successful sustainability integration. Our findings emphasize aligning business approaches with sustainability principles for resilience and competitiveness. This research contributes to understanding how localized strategies interact with global dynamics, guiding businesses toward sustainable success in a changing world.
10p
longtimenosee09
08-04-2024
1
1
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Ebook "Java for bioinformatics and biomedical applications" represents an important development, giving the reader an opportunity to discover how the use of open and reusable Java code can solve large bioinformatics problems in a software engineered and robust way. This has lead to an explosion of interest in the subject, and a similar explosion in tools and data resources for researchers to learn and use in their work.
353p
tachieuhoa
28-01-2024
8
5
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Interaction between xylan and cellulose microfibrils is required to maintain the integrity of secondary cell walls. However, the mechanisms governing their assembly and the effects on cellulose surface polymers are not fully clear. Here, molecular dynamics simulations are used to study xylan adsorption onto hydrated cellulose fibrils.
13p
viginny
30-12-2022
8
2
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The paper "Origin and evolution of structure for galaxies in the local group" summarizes a review of recent attempts to reconstruct this complex evolution. We compare simulated properties with various observed properties of the Local Group. Among the generic features of simulated systems is the tendency for galactic halos to form within the dark matter filaments that define a supergalactic plane. Gravitational interaction along this structure leads to a streaming flow toward the two dominant galaxies in the cluster.
3p
runordie3
27-06-2022
20
3
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Genomic differences range from single nucleotide differences to complex structural variations. Current methods typically annotate sequence differences ranging from SNPs to large indels accurately but do not unravel the full complexity of structural rearrangements, including inversions, translocations, and duplications, where highly similar sequence changes in location, orientation, or copy number.
13p
vielonmusk
30-01-2022
47
0
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Lecture Bioinformatics I present the content: introduction to bioinformatics, sequence analysis, molecular evolution, RNA secondary structure prediction, protein sequences, protein structures, storage of biological sequence information, similarities & differences in sequences, introduction to alignment approaches, introduction to dynamic programming, dynamic programming methodology, moving from global to local alignment,...
320p
bachkhinhdaluu
03-12-2021
14
0
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A phylogeny postulates shared ancestry relationships among organisms in the form of a binary tree. Phylogenies attempt to answer an important question posed in biology: what are the ancestor-descendent relationships between organisms? At the core of every biological problem lies a phylogenetic component.
12p
viwyoming2711
16-12-2020
17
1
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The maximal sensitivity for local alignments makes the Smith-Waterman algorithm a popular choice for protein sequence database search based on pairwise alignment. However, the algorithm is compute-intensive due to a quadratic time complexity. Corresponding runtimes are further compounded by the rapid growth of sequence databases.
10p
viwyoming2711
16-12-2020
17
0
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Primer design for highly variable DNA sequences is difficult, and experimental success requires attention to many interacting constraints. The advent of next-generation sequencing methods allows the investigation of rare variants otherwise hidden deep in large populations, but requires attention to population diversity and primer localization in relatively conserved regions, in addition to recognized constraints typically considered in primer design.
9p
viwyoming2711
16-12-2020
11
1
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In Vietnam, from the first decade of the twenty-first century, efforts have been made to set up indicators and measure the effectiveness of the public authority aligning to the principles of "good governance".
13p
nguaconbaynhay9
03-12-2020
29
3
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Adapter trimming is a prerequisite step for analyzing next-generation sequencing (NGS) data when the reads are longer than the target DNA/RNA fragments. Although typically used in small RNA sequencing, adapter trimming is also used widely in other applications, such as genome DNA sequencing and transcriptome RNA/cDNA sequencing, where fragments shorter than a read are sometimes obtained because of the limitations of NGS protocols.
12p
vikentucky2711
26-11-2020
10
0
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Short sequence mapping methods for Next Generation Sequencing consist on a combination of seeding techniques followed by local alignment based on dynamic programming approaches. Most seeding algorithms are based on backward search alignment, using the Burrows Wheeler Transform, the Ferragina and Manzini Index or Suffix Arrays.
11p
vikentucky2711
26-11-2020
19
1
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The Smith-Waterman algorithm is known to be a more sensitive approach than heuristic algorithms for local sequence alignment algorithms. Despite its sensitivity, a greater time complexity associated with the Smith-Waterman algorithm prevents its application to the all-pairs comparisons of base sequences, which aids in the construction of accurate phylogenetic trees.
15p
vikentucky2711
24-11-2020
6
1
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Alignment of large and diverse sequence sets is a common task in biological investigations, yet there remains considerable room for improvement in alignment quality. Multiple sequence alignment programs tend to reach maximal accuracy when aligning only a few sequences, and then diminish steadily as more sequences are added.
14p
vikentucky2711
24-11-2020
6
1
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We consider data from a time course microarray experiment that was conducted on grapevines over the development cycle of the grape berries at two different vineyards in South Australia. Although the underlying biological process of berry development is the same at both vineyards, there are differences in the timing of the development due to local conditions.
9p
vikentucky2711
24-11-2020
12
1
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Sequence alignment algorithms are a key component of many bioinformatics applications. Though various fast Smith-Waterman local sequence alignment implementations have been developed for x86 CPUs, most are embedded into larger database search tools.
11p
vioklahoma2711
19-11-2020
10
1
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Insertions and deletions (indels) account for more nucleotide differences between two related DNA sequences than substitutions do, and thus it is imperative to develop a method to reliably calculate the occurrence probabilities of sequence alignments via evolutionary processes on an entire sequence.
21p
vioklahoma2711
19-11-2020
18
2
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GATK Best Practices workflows are widely used in large-scale sequencing projects and recommend post-alignment processing before variant calling. Two key post-processing steps include the computationally intensive local realignment around known INDELs and base quality score recalibration (BQSR).
13p
vioklahoma2711
19-11-2020
10
1
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Many critical biological processes are strongly related to protein-RNA interactions. Revealing the protein structure motifs for RNA-binding will provide valuable information for deciphering protein-RNA recognition mechanisms and benefit complementary structural design in bioengineering.
13p
vioklahoma2711
19-11-2020
5
0
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Alignment of sequence families described by profiles provides a sensitive means for establishing homology between proteins and is important in protein evolutionary, structural, and functional studies.
13p
vijisoo2711
27-10-2020
9
1
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