Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity.

Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity. Research Abstract Details 

Research Abstract Table of Contents

Jump to the:

Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity. Abstract Text:

Y Diao,D Ma,Z Wen,J Yin,J Xiang,M Li,

Transmembrane (TM) proteins represent about 20-30% of the protein sequences in higher eukaryotes, playing important roles across a range of cellular functions. Moreover, knowledge about topology of these proteins often provides crucial hints toward their function. Due to the difficulties in experimental structure determinations of TM protein, theoretical prediction methods are highly preferred in identifying the topology of newly found ones according to their primary sequences, useful in both basic research and drug discovery. In this paper, based on the concept of pseudo amino acid composition (PseAA) that can incorporate sequence-order information of a protein sequence so as to remarkably enhance the power of discrete models (Chou, K. C., Proteins: Structure, Function, and Genetics, 2001, 43: 246-255), cellular automata and Lempel-Ziv complexity are introduced to predict the TM regions of integral membrane proteins including both alpha-helical and beta-barrel membrane proteins, validated by jackknife test. The result thus obtained is quite promising, which indicates that the current approach might be a quite potential high throughput tool in the post-genomic era. The source code and dataset are available for academic users at liml@scu.edu.cn.

Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity. Publishing Authors By Initials

Y Diao,D Ma,Z Wen,J Yin,J Xiang,M Li,

For similar abstracts research abstracts see: abstracts research

PUBMED ID PMID:

MEDLINE DATE:

Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity. Journal Published:

PUBLICATION TYPE: Research Support, Non-U.S. Gov

Journal: Amino acids

VOLUME: 34

Page Numbers: 111-7

Journal Abbreviation: Amino Acids

ISSN: 1438-2199

DAY: 23

MONTH: 05

YEAR: 2007

Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity. Information

Number of References:

LANGUAGE: eng

NlmUniqueID: 9200312

Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity. Keywords Mesh Terms:

KEYWORDS:

MESH TERMS:

Chemical & Substance for Abstract: Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity. Information

Substance Name:

Registry Number:

Grant and Affiliation Information for Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity.

AFFILIATION: College of Chemistry, Sichuan University, Chengdu, Sichuan, China.

Country: Austria

AGENCY:

GRANT:

ACRONYM:

MEDLINETA: Amino Acids

REFSOURCE:

DATABASENAME:

ACCESSION NUMBER:

Number Hits: 0

Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity Related Publications

• Airway epithelium and mucus: intracellular signaling pathways for gene expression and secretion.
• Imaging diagnosis of enlarged superior ophthalmic vein.
• Lung autotransplantation technique for treating central lung cancer of upper lobe.
• Study on the relationship between opioid receptors and fetal distress.
• The clinical value of rearrangement of IgH gene and bcl-2/J(H) fuse gene in the diagnosis of orbital lymphoproliferative disorders.
• The effect of metal copper on fracture healing in chicken.
• Transforming growth factor-beta -Smad signaling pathway cooperates with NF-kappa B to mediate nontypeable Haemophilus influenzae-induced MUC2 mucin transcription.
• [Advances in research on ion-channel gating mechanism]
• [Association of dendritic cell infiltration with prognosis and lymph node metastasis of renal cell carcinoma]
• [Changes in serum concentration of podophyllotoxin after its topical application with liposome on rat skin]
• [ECG signal compression based on best basis of wavelet packets]
• [Effect of lovastatin on proliferation and extracellular matrix secretion of rat hepatic stellate cells in vitro]
• [Effects of hypoxic exposure on coordinative expression of cytochrome oxidase subunits I and IV in rat cerebral cortex]
• [Effects of nitric oxide on pleural lymphatic stomata and lymphatic drainage in the rat]
• [Evaluation of p53, p21waf1, and PCNA in the diagnosis on lung cancer]
• [Evaluation the pathological diagnostic values of koilocyte in condyloma acuminatum]
• [Gap junctions in the nervous tissue]
• [Genotyping of HIV resistant alleles in indigenous Tibetan ethnic group of China: low frequency of CCR5triangle32 and high frequency of CCR2b-64I alleles]
• [Logistic regression analysis of wedge-shaped defects in the middle-aged and elderly]
• [Molecular genetic basis of Gilbert's syndrome]
• [Observation on the effect of disinfection to HBsAg by electrolyzed oxidizing water]
• [P2X purinoceptors and their regulations]
• [Preparation of rhBMP-2/BCB reconstituted bone xenograft and assay of its osteoinductivity]
• [Selective transmission of hepatitis B virus variant with S gene mutation between HBV-carrier mothers and their infants]
• [Surgical repair of postinfarction ventricular septal rupture]
• [Surgical treatment of anomalous origin of the left coronary artery from the pulmonary artery]
• [The correlations between plasma TNF-alpha, NO, NOS levels and brain lateralization in mice]
• [The genotype analysis of glucose-6-phosphate dehydrogenase deficiency in Yunnan province]
• [The relationship of low density lipoprotein receptor gene polymorphism and hyperlipidemia]
• [Umbilical cord blood transplantation (UCBT) in thalassemia children]