To avoid the computational expense of pairwise alignment, we propose an efficient strategy for keyframe selection, formulated as a submodular optimization problem.
Instead of focusing on detecting alignment, we propose to measure the functional relation between P. falciparum proteins and the annotated proteins in another species by aligning the neighborhood subnetworks of the two proteins.
Based on a multiple sequence alignment, we propose a modified signature for the CDF family that takes account of newly characterised members.
To help validate IT-business strategy alignment, we propose a single model according to Jackson's problem diagram framework to encompass both business strategy and system requirements.
This tool is based on a new type of alignment we propose, called syntenic global alignment, that can deal satisfactorily with sequences that share regions with different rates of conservation.
To facilitate the use of expert knowledge for sequence alignment, we proposed an anchored alignment approach where known homologies can be used to restrict the alignment search space.
To better account for the presence of tandem repeats in pairwise sequence alignments, we propose a simple tractable pair hidden Markov model that explicitly models their presence.
In order to avoid this alignment problem, we propose an alignment based on an alphabet composed of three letters (ACT or AGT) instead of a four-letter alphabet (ACGT).
We then extend the pairwise approach by working with a database of features (indicated with FPdb) which collects the feature sets associated to all the previously aligned range images, so that the feature set associated to the current range image FP k is matched to the database FPdb. Figure 8 illustrates the block diagram of the multi-view alignment pipeline we propose.
Instead, we propose the alignment of the reads in the genome version that has the same alphabet.
To support this claim, we computed a multiple alignment of 38 sequences to what we propose is the common core of the C19MC gene duplication cassette (Figure S8).
