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[BBON] »ý¹°Á¤º¸ÇÐ ´º½º·¹ÅÍ Vol 4/5, 2008
[BBON] »ý¹°Á¤º¸ÇÐ ´º½º·¹ÅÍ Vol 4/5, 2008 ÀúÀÚ
µî·ÏÀÏ 2009.03.06
Á¶È¸ 4901  ÀμâÇϱâ ÁÖ¼Òº¹»ç Æ®À§ÅÍ °øÀ¯ ÆäÀ̽ººÏ °øÀ¯ 
Ű¿öµå: BBON, »ý¹°Á¤º¸ÇÐ, Bioinformatics
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Communication Recruit Resources Events Books and Reports Gossip

[Communication]


1. 2008³â 4¿ù ±¹³» ¿¬±¸³í¹® ¹ßÇ¥ ½ÇÀû
  2008³â 4¿ù ÇÑ´Þ µ¿¾È PubMed¿¡ µî·ÏµÈ ±¹³» »ý¹°Á¤º¸ÇÐ °ü·Ã ¹ßÇ¥ ³í¹®(Á¦1 ÀúÀÚ¸¦ ±âÁØÀ¸·Î Çѱ¹¿¡¼­ ¹ßÇ¥ÇÑ ³í¹®À» ´ë»óÀ¸·Î 12°¡ÁöÀÇ »ý¹°Á¤º¸ÇÐ °ü·Ã keyword·Î °Ë»öÇÏ¿© Á¤¸®ÇÑ °á°ú)


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3) ÁÖ¿ä ¿¬±¸ºÐ¾ß

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Predictive Method

5

Functional Genomics

5

MicroArray

4

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3

Datamining

3

New Frontier

3

Phylogeny & Evolution

1

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2. ±¹¿Ü ´º½º
2008³â 4¿ù ÁÖ¿ä ±¹¿Ü ´º½º Ŭ¸®ÇÎ

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4¿ù 29ÀÏ Scientists form International Cancer Genome Consortium
Scientists join together to form the International Cancer Genome Consortium, one of most ambitious biomedical research efforts since the Human Genome Project. The consortium will help to coordinate current and future large-scale projects to understand the genomic changes involved in cancer. This genomic information will accelerate efforts to develop better ways of diagnosing, treating and preventing many types of cancer.
4¿ù 18ÀÏ Beijing Genomics Institute adds AB SOLiD system to its next generation sequencing technologies
The Beijing Genomics Institute announced today that BGI has added Applied Biosystems SOLiD System to BGI's rapidly expanding next-generation sequencing technologies.
4¿ù 10ÀÏ Scientists develop strategy to rapidly describe outbreak strains with next-generation DNA sequencing
Following an outbreak or a bioterrorist attack, standard DNA sequencing and analysis of a pathogen genome for rapid identification of genetic changes or manipulations is time-intensive and likely impractical during an emergency. Researchers have now developed a comparative genomics strategy to drastically reduce the time needed to accurately identify unique genetic properties of a potential outbreak strain. This report, which demonstrates the approach using next-generation sequencing technology, is published online today in Genome Research (www.genome.org).
4¿ù 2ÀÏ Researchers ID gene linked to lung cancer
Researchers at Johns Hopkins, as part of a large, multi-institutional study, have found one gene variant that is linked to an increased risk of lung cancer. The study will be published in the April 3 issue of Nature Genetics.


3. ±¹³»¿Ü Àü¹®¿¬±¸µ¿Çâ (»ê¾÷µ¿Çâ Æ÷ÇÔ)

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4¿ù 29ÀÏ Áúº´Á¤º¹ÀÇ ²Þ, 'Æ÷½ºÆ® °Ô³ð'¡¦¾Æ½Ã¾Æ¸¦ Àâ¾Æ¶ó!
4¿ù 28ÀÏ ïÙ, À¯ÀüÁ¤º¸ µî ÀÎüÀÚ¿ø Á÷Á¢ °ü¸®
4¿ù 24ÀÏ º¸¸®¿Í ¹Ð¿¡¼­ Çü±¤ºÐ¼®±â¸¦ ÀÌ¿ëÇÑ ¸ÖƼÇ÷º½º ·¹µð PCR¹æ¹ý °³¹ß
4¿ù 24ÀÏ EST Ç¥Áö¸¦ ÀÌ¿ëÇÑ »ç°úÀÇ ¿¬°üÁöµµ
4¿ù 23ÀÏ ¿Á¼ö¼öÀÇ ¿¬°üÁöµµ ÀÛ¼º°ú Åë±âÁ¶Á÷Çü¼º°ü·Ã QTL È®ÀÎ
4¿ù 17ÀÏ "'IT+BT+NT=÷´ÜÀÇ·á±â'¸¦ Á¶±â»ç¾÷È­ Ç϶ó!"
4¿ù 9ÀÏ ½ÅÀå°ú À¯Àü Á¤º¸¿ÍÀÇ °ü°è ¹àÇôÁ®
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3¿ù 31ÀÏ ³ó¾÷ ÇØÃæÀÎ ¹Ù±¸¹ÌÀÇ À¯Àüü ÇØµ¶ ¿Ï°á


4. PubMed¿¡ ¼Ò°³µÈ »ý¹°Á¤º¸Çаü·Ã 4¿ù Áֿ丮ºä(ÆíÁýÀÚ ÁÖ)

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Lagerstrom MC, Schioth HB. Structural diversity of G protein-coupled receptors and significance for drug discovery.
(Nat Rev Drug Discov. 2008 Apr;7(4):339-57)
Margulies EH, Birney E. Approaches to comparative sequence analysis: towards a functional view of vertebrate genomes.
(Nat Rev Genet. 2008 Apr;9(4):303-13. Review.)
Gresham D, Dunham MJ, Botstein D. Comparing whole genomes using DNA microarrays.
(Nat Rev Genet. 2008 Apr;9(4):291-302.)
Kreek MJ. Role of a functional human gene polymorphism in stress responsivity and addictions.
(Clin Pharmacol Ther. 2008 Apr;83(4):615-8.)
Duffy S, Shackelton LA, Holmes EC. Rates of evolutionary change in viruses: patterns and determinants.
(Nat Rev Genet. 2008 Apr;9(4):267-76.)
Kruglyak L. The road to genome-wide association studies.
(Nat Rev Genet. 2008 Apr;9(4):314-8.)
Phoebe Chen YP, Chen F. Identifying targets for drug discovery using bioinformatics.
(Expert Opin Ther Targets. 2008 Apr;12(4):383-9.)
Rinn JL, Wang JK, Liu H, Montgomery K, van de Rijn M, Chang HY. A systems biology approach to anatomic diversity of skin.
(J Invest Dermatol. 2008 Apr;128(4):776-82)


5. PLoS Computational Biology Journals(ÆíÁýÀÚ ÁÖ: Editor's Pick)
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A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach Bjoern Peters et al. from La Jolla and California State provide an unbiased ranking of the performance of publicly available MHC class II prediction tools and highlight the binding core identification as a critical issue that limits the prediction performance.
PLoS Comput Biol 4(4): e1000048.
The Role of Elastic Stresses on Leaf Venation Morphogenesis Laguna, Bohn & Jagla explore the idea that elastic stresses play an important role in the development of leaf venation patterns. Through a comparison of actual and simulated patterns, their hypothesis explains the existence of hierarchical structures not accounted for by auxin canalization.
PLoS Comput Biol 4(4): e1000055.


6. Bioinformatics Àú³Î ÁÖ¿ä³í¹®(ÆíÁýÀÚ ÁÖ, IF, ÀοëÁö¼ö=4.894)
Number Title
Bioinformatics
Volume 24, Number 7
The effect of sequence quality on sequence alignment
PCCA: a program for phylogenetic canonical correlation analysis
Statistical search on the Semantic Web
Bioinformatics
Volume 24, Number 8
The Taverna Interaction Service: enabling manual interaction in workflows
In silico Biochemical Reaction Network Analysis (IBRENA): a package for simulation and analysis of reaction networks

* Korean Scientist in Bioinformatics Journal (2008 / 4)

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Yung-Keun Kwon and Kwang-Hyun Cho Quantitative analysis of robustness and fragility in biological networks based on feedback dynamics ., Bioinformatics Advance Access published on February 19, 2008 Bioinformatics 2008 24: 987-994;
Jongsun Park, Jaejin Park, Suwang Jang, Seryun Kim, Sunghyung Kong, Jaeyoung Choi, Kyohun Ahn, Juhyeon Kim, Seungmin Lee, Sunggon Kim, Bongsoo Park, Kyongyong Jung, Soonok Kim, Seogchan Kang, and Yong-Hwan Lee FTFD: an informatics pipeline supporting phylogenomic analysis of fungal transcription factors., Bioinformatics Advance Access published on February 26, 2008 Bioinformatics 2008 24: 1024-1025;
Bongshin Lee, Kristy Brown, Yetrib Hathout, and Jinwook Seo GOTreePlus: an interactive gene ontology browser., Bioinformatics Advance Access published on February 21, 2008., Bioinformatics 2008 24: 1026-1028;


7. BMC Journals
  7-1. BMC Bioinformatics (IF, ÀοëÁö¼ö = 3.62)

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Integrating proteomic and microarray data
BMC Bioinformatics 2008, 9:118
Combining microarray and proteomics datasets at the level of individual exons and isoforms helps to obtain higher correlation between the datasets and to account for alternative splicing.
Scoring function for protein design 2008, 9:148 An extended coulomb/accessible surface area solvent model acts as an empirical scoring function for assessing protein stability and ligand binding affinities in protein structure prediction and computational protein design
Mind the GAPscreener
BMC Bioinformatics 2008, 9:205
PubMed abstracts can now be effectively screened for articles related to human genetic association studies and genome epidemiology using GAPscreener, a free java-based tool.

Âü°í: BMC Bioinformatics: Most viewed articles in past 30 days
  7-2. BMC Genomics Research highlights (Impact Factor=4.03)

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Resequencing genomes improves data quality
BMC Genomics 2008, 9:138
Errors in microbial genome sequences are not restricted to point mutations and may also consist of large-scale rearrangements, such as insertions, which should be rectified so that these data can be of continuing use.
SNP panel for rat genetics
BMC Genomics 2008, 9:95
A genomewide set of 820 SNP assays developed for a wide range of lab rat strains will ease genetic mapping studies and association studies in this important disease model.
Clever genomic tools for bird brains
BMC Genomics 2008, 9:131
The Songbird Neurogenomics initiative (SoNG) provides a genomic database, a set of genomic tools and also a mechanism for community collaboration to enhance research linking the genomics, evolution, neuroscience and behavior of songbirds.

Âü°í: BMC Genomics: Most viewed articles in past 30 days

[Recruit]

ÁÖ) BioJob¿¡ µî·ÏµÈ ±¸ÀÎ Á¤º¸¿¡ bioinformatics, genomics, proteomics¸¦ °Ë»öÇØ¼­ ³ª¿À´Â ÀڷḦ ½Ã°£ ¼øÀ¸·Î Á¤¸® ÇØ¼­ »ç¿ë (¸¶°¨³¯Â¥ ±âÁØ 5¿ù 15ÀÏ ÀÌÈÄ ÀÚ·áÀÓ)

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[Resources] ÃÖ±Ù ÁÖ¿ä Àú³Î¿¡ ¼Ò°³µÈ ¸®¼Ò½º

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swissPIT: A novel approach for pipelined analysis of mass spectrometry data. http://swisspit.cscs.ch
M@IA: A Modular Open-Source Application for Microarray Workflow and Integrative Datamining. http://maia.genouest.org
NetAtlas: A Cytoscape Plugin to Examine Signaling Networks Based on Tissue Gene Expression http://sourceforge.net/projects/netatlas/
VariVis: a visualisation toolkit for variation databases. http://www.genomic.unimelb.edu.au/varivis
GAPscreener: An Automatic Tool for Screening Human Genetic Association Literature in PubMed Using the Support Vector Machine Technique http://www.hugenavigator.net/
HuGENavigator/HNDescription/...
The Vienna RNA Websuite. http://rna.tbi.univie.ac.at/
MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences http://www.megasoftware.net/
e-LiSe--an online tool for finding needles in the '(Medline) haystack'. http://miron.ibb.waw.pl/elise/
PedMine--a simulated annealing algorithm to identify maximally unrelated individuals in population isolates. http://www.hg.med.umich.edu/labs/
douglaslab/software.html
Using genetic markers to orient the edges in quantitative trait networks: the NEO software www.genetics.ucla.edu/labs/horvath/
aten/NEO
EST Express: PHP/MySQL based automated annotation of ESTs from expression libraries http://www.sourceforge.net/projects/
estexpress
Fast Network Component Analysis (FastNCA) for gene regulatory network reconstruction from microarray data. http://www.eee.hku.hk/~cqchang/
FastNCA.htm
PubMedAlertMe-Standalone Windows-based PubMed SDI software application. http://amp.pharm.mssm.edu/PubMedAlertMe/
PubMed...
jModelTest: Phylogenetic Model Averaging http://darwin.uvigo.es
GeneTrack - a genomic data processing and visualization framework http://genetrack.googlecode.com
SubSeqer: a graph-based approach for the detection and identification of repetitive elements in low-complexity sequences. http://compsysbio.org/subseqer/
CGHweb: a tool for comparing DNA copy number segmentations from multiple algorithms. http://compbio.med.harvard.edu/CGHweb
GOTreePlus: an interactive gene ontology browser http://bioinformatics.cnmcresearch.org/
GOTreePlus/
PGMapper: a web-based tool linking phenotype to genes http://www.genediscovery.org/pgmapper/
index.jsp
BioLattice: a framework for the biological interpretation of microarray gene expression data using concept lattice analysis http://www.snubi.org/software/biolattice/
GlycoWorkbench: A Tool for the Computer-Assisted Annotation of Mass Spectra of Glycans http://www.eurocarbdb.org/applications/
ms-tools
KnotSeeker: heuristic pseudoknot detection in long RNA sequences http://www.csse.uwa.edu.au/~datta/
pseudoknot


[Events]

1. 2008³â ±¹¿Ü Çà»ç

Çà»ç¸í

±â°£

Àå¼Ò

BioMarker World Congress May 19-21, 2008 Philadelphia, PA, USA
Beyond Genome: Tools to Therapies June 08-11, 2008 The Fairmont Hotel, San Francisco
Mathematics and Informatics in Evolution and Phylogeny June 10-12, 2008 France: Hameau de l'Etoile
INTEGRATIVE STATISTICAL ANALYSIS OF GENOME SCALE DATA June 11-24, 2008 Cold Spring Harbor, NY

2. ±¹³» Çà»ç

Çà»ç¸í

³¯Â¥

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KHUPO 8th Annual International Proteomics Conference 2008/05/29~31 Á¦ÁÖ, ¶ó¸¶´ÙÈ£ÅÚ
¹ÙÀÌ¿ÀÀüÀÚ¼ÒÀÚ ÀÌ·Ð ¹× ½Ç½À±³À° 2008/05/23~24 ¼­°­´ëÇб³ ±è´ë°Ç°ü 101È£
Çѱ¹¹ÙÀÌ¿ÀĨÇÐȸ 2008 Ãá°èÇмú´ëȸ 2008/06/12~13 ´ëÀü, Çѱ¹°úÇбâ¼ú¿ø(KAIST) âÀÇÇнÀ°ü


[Books and Reports]

»çÁø

»ó¼¼³»¿ë

Modeling and Control of Complex Systems (Control Engineering)
by Petros A. Ioannou (Editor), Andreas Pitsillides (Editor)
ISBN-10: 0849379857
Hardcover
544 pages
Optimization in Medicine and Biology (Engineering and Management Innovation)
by Gino J. Lim (Editor), Eva K. Lee (Editor)
ISBN-10: 0849305632
Hardcover
592 pages
Data Mining With Ontologies: Implementations, Findings and Frameworks (Premier Reference)
by Hector Oscar Nigro (Editor), Sandra Elizabeth Gonzalez Cisaro (Editor), Daniel Hugo Xodo (Editor)
ISBN-10: 1599046180
289 pages
Computational Intelligence in Medical Informatics
by Arpad Kelemen, Ajith Abraham, Yulan Liang
ISBN-10: 3540757678
380 pages

[Gossip]
½Ì°¡Æ÷¸£¿¡¼­ °³ÃֵǾú´ø RECOMB 2008 (National University of Singapore, 3¿ù30ÀÏ~4¿ù 2ÀÏ)¿¡¼­ ¹ßÇ¥µÈ ±¹³» ¿¬±¸ÀÚ ¹× ¹ßÇ¥ Á¦¸ñ

Authors

Title

Hongseok Tae and Kiejung Park. ASMPKS: an analysis system for modular polyketide synthases
Hongseok Tae and Ki Jung Park. ConView: An easy and fast visualization tool for contig assembly
Kyungsook Kim, Mira Oh, Jangsun Baek and Young Sook Son. Missing Values Estimation for DNA Microarray Gene Expression Data: SPLS
Mira Oh, Kyungsook Kim and Young Sook Son. Neural network imputation for missing values in time-course gene expression data
SeungHeui Ryu, Hwan-Gue Cho, DoHoon Lee COCAW:Comparative Observer for Conserved Areas
Sang Yup Lee, Jin Hwan Park, Kwang Ho Lee and Tae Yong Kim. L-valine production by systematically engineered Escherichia coli
Sang Yup Lee and Tae Yong Kim. Deciphering the evolution and metabolism of Mannheimia succiniciproducens MBEL55E by genome-scale analysis
Tae Yong Kim, Soo Yun Moon, Soon Ho Hong and Sang Yup Lee. Metabolic engineering of Escherichia coli for the production of malic acid
Tae Yong Kim, Hyung Rok Choi and Sang Yup Lee. Metabolic pathway analysis and its optimization for producing succinic acid in Mannheimia succiniciproducens MBEL55E
Sang Yup Lee, Kwang Ho Lee, Jin Hwan Park and Tae Yong Kim. Metabolic engineering of Escherichia coli for L-threonine production based on systems biology
Tae Yong Kim, Hyun Uk Kim, Joon Haeng Rhee and Sang Yup Lee. Application of genome-scale metabolic model of Vibrio vulnificus CMCP6 for in silico drug targeting
Jong Myoung Park, Hongseok Yun and Sang Yup Lee. MFAML: Metabolic Flux Analysis Markup Language
Jong Myoung Park, Hongseok Yun, Jeong Wook Lee, Joonwoo Jeong, Jaesung Chung and Sang Yup Lee. EcoProDB: The protein database for Escherichia coli
Jong Myoung Park, Choamun Yun, Hongseok Yun, Sunwon Park and Sang Yup Lee. Development of an integrative online tool for modeling and simulation of cellular networks
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