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The Top Bioinformatics Challenges according to Chris Burge at MIT and his colleagues are as follows...

HI HexiRPA000010
DN (Velculescu VE, 1997) Characterization of the Yeast Transcriptome @Cell #20060730
DA 2006.07.30
CP Cell. 1997 Jan 24;88(2):243-51.
TI Characterization of the yeast transcriptome.
AU Velculescu VE, Zhang L, Zhou W, Vogelstein J, Basrai MA, Bassett DE Jr, Hieter P, Vogelstein B, Kinzler KW.
IN Program in Human Genetics and Molecular Biology, The Johns Hopkins University School of Medicine, Baltimore, Maryland 21231, USA.
AB We have analyzed the set of genes expressed from the yeast genome, herein called the transcriptome, using serial analysis of gene expression. Analysis of 60,633 transcripts revealed 4,665 genes, with expression levels ranging from 0.3 to over 200 transcripts per cell. Of these genes, 1981 had known functions, while 2684 were previously uncharacterized. The integration of positional information with gene expression data allowed for the generation of chromosomal expression maps identifying physical regions of transcriptional activity and identified genes that had not been predicted by sequence information alone. These studies provide insight into global patterns of gene expression in yeast and demonstrate the feasibility of genome-wide expression studies in eukaryotes.

Hexi Reading Professional Articles (HexiRPA):

Readme for the docment:

for Each entry, there are 5 sections:Paper Tag (Line 1-2), Read Date (Line 3), PubMed Citation (Line 4-9), MyNotes (Line 10-12) and End Tag (Line 13)
Line 1 : Paper No. --(HI:HexiRRA Idendifier)
Line 2 : Document Name on myPC --(DN: Document Name)
Line 3 : Date read the paper --(DA:Date)
LIne 4 : Citation of PubMed Format (CP: Citation of PubMed)
Line 5 : Title (TI: Title)
LIne 6 : Authors (AU : Author)
Line 7 : Institutes [one or more lines] (IN : INstitutes)
Line 8 : Abstract (AB : ABstract)
Line 9 : PubMed ID (PM : PubMed ID)

Based on the comparison of different sequencing strategies in six small marine microbial genome, the paper evaluated the utility and cost-effectiveness of a hybrid sequencing approach using 3730xl Sanger sequecing and 454 run to generate higher-quality lower-quality lower-cost assemblies compared to current Sanger sequencing strategies alone. For the genome more than 3Mb with many sequencing gaps and hard stops, the sequence strategy of 5.3X Sanger sequencing plus two 454 runs is the best choice.

Proc Natl Acad Sci U S A. 2006 Jul 13; [Epub ahead of print] Books, LinkOut

A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes.

The paper described a framework for comparisons across gene expression microarray platforms and laboratories, which including: 1) Affymetrix; 2) Agilent; 3) Applied Biosystems (ABI); 4) Amersham (now GE Healthcare); 5) cDNA arrays provided by the Cepko laboratory (academic cDNA); 6) Compugen (now Sigma-Genosys); 7) Mergen; 8) long oligonuceotide arrays from the Microarray Core facility at Massachusetts General Hospital (MGH long oligo); 9) MWG BioTech (now Ocimum Biosolutions); 10) Operon. As a result, the commercial platform ABI has the best performace, where the academic cDNA from Harvard poorest.

A new Journal list on Bioinformatics, as a guide to publication and reference in my bioinformatics study life and research work.
Nature
Science
Nature Review Genetics
Nature Genetics
Nature Biotechnology
Nature Molecualr System Biology
PLoS Biology
PLoS Genetics
PLoS Computational Biology
PNAS
Journal of Proteome Research
Genome Biology
Genome Research
Genomics, Proteomics & Bioinformatics (GPB)

Hi, I am new Nodalpointer. It is my first time here. Thanks Greg for the excellent work. I am very intereted in Bioinformatics.Wish I could learn more from NThanks Nodalpoint.