BookDOI
Data Mining Techniques for the Life Sciences
Oliviero Carugo,Frank Eisenhaber +1 more
- Iss: 1
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TLDR
"Data Mining Techniques for the Life Sciences" seeks to aid students and researchers in the life sciences who wish to get a condensed introduction into the vital world of biological databases and their many applications.Abstract:
Whereas getting exact data about living systems and sophisticated experimental procedures have primarily absorbed the minds of researchers previously, the development of high-throughput technologies has caused the weight to increasingly shift to the problem of interpreting accumulated data in terms of biological function and biomolecular mechanisms. In "Data Mining Techniques for the Life Sciences", experts in the field contribute valuable information about the sources of information and the techniques used for "mining" new insights out of databases. Beginning with a section covering the concepts and structures of important groups of databases for biomolecular mechanism research, the book then continues with sections on formal methods for analyzing biomolecular data and reviews of concepts for analyzing biomolecular sequence data in context with other experimental results that can be mapped onto genomes. As a volume of the highly successful Methods in Molecular Biology series, this work provides the kind of detailed description and implementation advice that is crucial for getting optimal results. Authoritative and easy to reference, "Data Mining Techniques for the Life Sciences" seeks to aid students and researchers in the life sciences who wish to get a condensed introduction into the vital world of biological databases and their many applications.read more
Citations
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SPAdes, a new genome assembly algorithm and its applications to single-cell sequencing ( 7th Annual SFAF Meeting, 2012)
TL;DR: SPAdes as mentioned in this paper is a new assembler for both single-cell and standard (multicell) assembly, and demonstrate that it improves on the recently released E+V-SC assembler and on popular assemblers Velvet and SoapDeNovo (for multicell data).
Journal ArticleDOI
Feature extraction and classification for EEG signals using wavelet transform and machine learning techniques.
Hafeez Ullah Amin,Aamir Saeed Malik,Rana Fayyaz Ahmad,Nasreen Badruddin,Nidal Kamel,Muhammad Hussain,Weng-Tink Chooi +6 more
TL;DR: It is demonstrated that the proposed feature extraction approach has the potential to classify the EEG signals recorded during a complex cognitive task by achieving a high accuracy rate.
Posted Content
Perceptual Quality Prediction on Authentically Distorted Images Using a Bag of Features Approach
Deepti Ghadiyaram,Alan C. Bovik +1 more
TL;DR: In this paper, a bag-of-features approach is proposed to capture consistencies or departures therefrom, of the statistics of real world images, in different color spaces and transform domains.
Journal ArticleDOI
CONFOLD: Residue-residue contact-guided ab initio protein folding
TL;DR: This paper presents an ab initio protein folding method to build three‐dimensional models using predicted contacts and secondary structures that improves the quality and accuracy of structural models and in particular generates better β‐sheets than other algorithms.
Journal ArticleDOI
SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update.
Luana Licata,Prisca Lo Surdo,Marta Iannuccelli,Alessandro Palma,Elisa Micarelli,Livia Perfetto,Livia Perfetto,Daniele Peluso,Alberto Calderone,Luisa Castagnoli,Gianni Cesareni +10 more
TL;DR: Signor 2.0 now stores almost 23 000 manually-annotated causal relationships between proteins and other biologically relevant entities: chemicals, phenotypes, complexes, etc and has improved the compliance to the FAIR data principles by providing stable identifiers and downloadable data in standard-compliant formats.
References
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Basic Local Alignment Search Tool
TL;DR: A new approach to rapid sequence comparison, basic local alignment search tool (BLAST), directly approximates alignments that optimize a measure of local similarity, the maximal segment pair (MSP) score.
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Yoav Benjamini,Yosef Hochberg +1 more
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Clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
TL;DR: The sensitivity of the commonly used progressive multiple sequence alignment method has been greatly improved and modifications are incorporated into a new program, CLUSTAL W, which is freely available.
Journal ArticleDOI
The Sequence Alignment/Map format and SAMtools
Heng Li,Bob Handsaker,Alec Wysoker,T. J. Fennell,Jue Ruan,Nils Homer,Gabor T. Marth,Gonçalo R. Abecasis,Richard Durbin +8 more
TL;DR: SAMtools as discussed by the authors implements various utilities for post-processing alignments in the SAM format, such as indexing, variant caller and alignment viewer, and thus provides universal tools for processing read alignments.
Journal ArticleDOI
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li,Richard Durbin +1 more
TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.