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BIOCOMP
2010
9 years 4 months ago
Extraction of Protein Sequence Motifs Information by Bi-Clustering Algorithm
- The activities and function of proteins can potentially be determined by protein sequence motifs. Therefore, obtaining the universally conserved and crossed protein family bounda...
Vincent Yip, Bernard Chen, Sinan Kockara
BIOCOMP
2010
9 years 4 months ago
Intrinsic Contact Geometry of Protein Dynamics
Yosi Shibberu, Mark Brandt, David Cooper
BIBM
2010
IEEE
161views Bioinformatics» more  BIBM 2010»
9 years 4 months ago
Cis-regulatory module detection using constraint programming
We propose a method for finding CRMs in a set of co-regulated genes. Each CRM consists of a set of binding sites of transcription factors. We wish to find CRMs involving the same t...
Tias Guns, Hong Sun, Kathleen Marchal, Siegfried N...
BIBM
2010
IEEE
286views Bioinformatics» more  BIBM 2010»
9 years 4 months ago
Evaluation of short read metagenomic assembly
Advances in sequencing technologies have equipped researchers with the ability to sequence the collective genome of entire microbial communities commonly referred to as metagenomi...
Anveshi Charuvaka, Huzefa Rangwala
BIBM
2010
IEEE
180views Bioinformatics» more  BIBM 2010»
9 years 4 months ago
CAMBer: An approach to support comparative analysis of multiple bacterial strains
There is a large amount of inconsistency in gene structure annotations of bacterial strains. This inconsistency is a frustrating impedance to effective comparative genomic analysi...
Michal Wozniak, Limsoon Wong, Jerzy Tiuryn
BIBM
2010
IEEE
158views Bioinformatics» more  BIBM 2010»
9 years 4 months ago
Protein-protein interaction prediction via Collective Matrix Factorization
Abstract--Protein-protein interactions (PPI) play an important role in cellular processes and metabolic processes within a cell. An important task is to determine the existence of ...
Qian Xu, Evan Wei Xiang, Qiang Yang
BIBM
2010
IEEE
151views Bioinformatics» more  BIBM 2010»
9 years 4 months ago
Probabilistic topic modeling for genomic data interpretation
Recently, the concept of a species containing both core and distributed genes, known as the supra- or pangenome theory, has been introduced. In this paper, we aim to develop a new ...
Xin Chen, Xiaohua Hu, Xiajiong Shen, Gail Rosen
BIBM
2010
IEEE
277views Bioinformatics» more  BIBM 2010»
9 years 4 months ago
Accurate prediction of ATP-binding residues using sequence and sequence-derived structural descriptors
ATP is a ubiquitous nucleotide that provides energy for cellular activities, catalyzes chemical reactions, and is involved in cellular signaling. The knowledge of the ATPprotein in...
Ke Chen 0003, Marcin J. Mizianty, Lukasz A. Kurgan
BIBM
2010
IEEE
157views Bioinformatics» more  BIBM 2010»
9 years 4 months ago
Decomposing PPI networks for complex discovery
Abstract--Protein complexes are important for understanding principles of cellular organization and functions. With the availability of large amounts of high-throughput proteinprot...
Guimei Liu, Chern Han Yong, Limsoon Wong, Hon Nian...
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