Results 61 to 70 of about 483,132 (293)
Incremental Multiple Sequence Alignment [PDF]
, 2007 This work proposes a new approach to the alignment of multiple sequences. We take profit from some results on Grammatical Inference that allow us to build iteratively an abstract machine that considers in each inference step an increasing amount of sequences.
Marcelino Campos +2 more
openaire +1 more source
OrthoSelect: a protocol for selecting orthologous groups in phylogenomics [PDF]
, 2009 Background: Phylogenetic studies using expressed sequence tags (EST) are becoming a standard approach to answer evolutionary questions. Such studies are usually based on large sets of newly generated, unannotated, and error-prone EST sequences from ...
Schreiber Fabian +16 more
core +1 more source
pH‐mediated activation of the lysosomal arginine sensor SLC38A9
FEBS Letters, EarlyView.Cells monitor nutrient levels via the lysosomal transporter SLC38A9 to activate the mechanistic target of rapamycin complex 1 (mTORC1). This study reveals that SLC38A9 function is regulated by pH. We identified histidine 544 as a critical pH sensor that undergoes conformational changes to control amino acid efflux from lysosomes; therefore, it ...
Xuelang Mu, Ampon Sae Her, Tamir Gonen
wiley +1 more source
Multiple sequence alignment accuracy and evolutionary distance estimation
BMC Bioinformatics, 2005 Background Sequence alignment is a common tool in bioinformatics and comparative genomics. It is generally assumed that multiple sequence alignment yields better results than pair wise sequence alignment, but this assumption has rarely been tested, and ...
Rosenberg Michael S
doaj +1 more source
Cognitively Economical Heuristic for Multiple Sequence Alignment under Uncertainties
Axioms, 2022 This paper introduces a heuristic for multiple sequence alignment aimed at improving real-time object recognition in short video streams with uncertainties.
Milan Gnjatović +5 more
doaj +1 more source
, 2008 Wagner H, Morgenstern B, Dress A. Stability of multiple alignments and phylogenetic trees: an analysis of ABC-transporter proteins family. Algorithms for Molecular Biology.
Andreas Dress +8 more
core +1 more source
Modulation of Homer1 EVH1 domain internal dynamics by putative autism‐associated mutations
FEBS Letters, EarlyView.The putative autism‐associated M65I and S97L variants of the EVH1 domain of the postsynaptic scaffold protein Homer1 do not exhibit substantial changes in their overall structure or partner binding. Both of them, but especially the M65I variant, show altered internal dynamics relative to the wild‐type domain on the μs‐ms timescale, indicated by the ...
Fanni Farkas +6 more
wiley +1 more source
The ubiquitin‐proteasome system and autophagy as guardians of the cellular proteome
FEBS Letters, EarlyView.This Perspective covers the three principles governing the crosstalk between the ubiquitin‐proteasome system and autophagy in cellular proteostasis: (1) a shared ubiquitin code routing substrates via shuttle factors or autophagy receptors; (2) spatial compartmentalization into phase‐separated degradation hubs and organelle‐specific modules (exemplified
Ivan Dikic
wiley +1 more source
An Optimized System for Multiple Sequence Alignment
2009 International Conference on Reconfigurable Computing and FPGAs, 2009 Multiple sequence alignment (MSA) is one of the essential operations for identifying functional and structural relations among proteins. The execution of an MSA algorithm requires high-performance platforms. This paper presents a hardware system that speeds up the popular MSA software ClustalW.
Çaglar Yilmaz, Mustafa Gök
openaire +2 more sources
Fine-tuning structural RNA alignments in the twilight zone
, 2010 Bremges A, Schirmer S, Giegerich R. Fine-tuning structural RNA alignments in the twilight zone. BMC Bioinformatics. 2010;11(1): 222.Background A widely used method to find conserved secondary structure in RNA is to first construct a multiple sequence ...
Bremges Andreas +8 more
core +1 more source