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Kumar A, et al.  (2002) An integrated approach for finding overlooked genes in yeast. Nat Biotechnol 20(1):58-63

Abstract: We report here the discovery of 137 previously unappreciated genes in yeast through a widely applicable and highly scalable approach integrating methods of gene-trapping, microarray-based expression analysis, and genome-wide homology searching. Our approach is a multistep process in which expressed sequences are first trapped using a modified transposon that produces protein fusions to beta-galactosidase (beta-gal); non-annotated open reading frames (ORFs) translated as beta-gal chimeras are selected as a candidate pool of potential genes. To verify expression of these sequences, labeled RNA is hybridized against a microarray of oligonucleotides designed to detect gene transcripts in a strand-specific manner. In complement to this experimental method, novel genes are also identified in silico by homology to previously annotated proteins. As these methods are capable of identifying both short ORFs and antisense ORFs, our approach provides an effective supplement to current gene-finding schemes. In total, the genes discovered using this approach constitute 2% of the yeast genome and represent a wealth of overlooked biology.

Status: Published Type: Journal Article PubMed ID: 11753363

Topics addressed in this paper

Number of different genes curated to this paper: 137

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Topics Topics not linked to Genes Genes linked to topics (#1 - 10 )
KSH1 NAG1 TAR1 YAL037C-B YAL067W-A YAL068W-A YAR035C-A YBL006W-A YBL071C-B YBL100W-C
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DNA/RNA Sequence Features blue ball
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Genomic expression study yg ball
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Topics Genes linked to topics (#11 - 20 )
YBL113W-A YBR126W-A YBR131C-A YBR141W-A YBR182C-A YBR223W-A YBR296C-A YBR298C-A YCR045W-A YCR047W-A
Fungal Related Genes/Proteins blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
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Topics Genes linked to topics (#21 - 30 )
YCR081C-A YDL025W-A YDL086C-A YDL159C-B YDR354C-A YDR464C-A YDR510C-A YDR524C-A YDR545C-A YEL008C-A
Additional Literature blue ball
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RNA Levels and Processing blue ball
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Topics Genes linked to topics (#31 - 40 )
YEL030C-A YEL032C-A YEL077W-A YER023C-A YER088W-B YER158W-A YER175W-A YER190C-A YER190C-B YFL013W-A
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Topics Genes linked to topics (#41 - 50 )
YFL031C-A YFR032C-B YFR034W-A YGL007C-A YGL063C-A YGL123C-A YGL188C-A YGR068W-A YGR146C-A YGR174W-A
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Topics Genes linked to topics (#51 - 60 )
YGR204C-A YGR270C-A YGR296C-A YGR296C-B YHL050W-A YHR022C-A YHR032C-A YHR052W-A YHR054W-A YHR137C-A
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Topics Genes linked to topics (#61 - 70 )
YHR212W-A YHR213W-A YHR213W-B YHR214C-D YHR214C-E YHR219C-A YIL021C-A YIL105W-A YIL177W-A YJL020W-A
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Topics Genes linked to topics (#71 - 80 )
YJL026C-A YJL077W-A YJL077W-B YJL222W-A YJL222W-B YJL225W-A YJR140W-A YKL096C-B YKL156C-A YKR075W-A
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Topics Genes linked to topics (#81 - 90 )
YLL019W-A YLL066W-A YLL066W-B YLL067W-A YLR120W-A YLR154W-A YLR154W-E YLR157W-D YLR157W-E YLR286W-A
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Primary Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Jump to Summary Chart for:
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  • displays other papers with information about that topic for that gene.
  • displays other papers in SGD that are associated with that topic.
    The topic is addressed in these papers but does not describe a specific gene or chromosomal feature.
  • To go to the Locus page for a gene, click on the gene name.

Topics Genes linked to topics (#91 - 100 )
YLR299C-A YLR347W-A YLR399W-A YLR406C-A YLR437C-A YLR466C-A YLR466C-B YLR467C-A YML100W-A YML133W-A
Additional Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
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Topics Genes linked to topics (#101 - 110 )
YML133W-B YMR001C-A YMR105W-A YMR182W-A YMR242W-A YMR272W-A YMR272W-B YMR315W-A YNL097C-B YNL097W-A
Additional Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Fungal Related Genes/Proteins blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Primary Literature blue ball blue ball blue ball

Topics Genes linked to topics (#111 - 120 )
YNL103W-A YNL144W-A YNL339W-A YNL339W-B YNR003W-A YNR075C-A YOL019W-A YOL085W-A YOL166W-A YOR032W-A
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Topics Genes linked to topics (#121 - 130 )
YOR108C-A YOR161C-C YOR161W-A YOR161W-B YOR186C-A YOR231C-A YOR335W-A YOR394C-A YOR396C-A YPL135C-A
Additional Literature blue ball
Fungal Related Genes/Proteins blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball
Primary Literature blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball blue ball

Topics Genes linked to topics (#131 - 137 )
YPL152W-A YPL222C-A YPL283W-A YPL283W-B YPR159C-A YPR160C-A YPR204C-A
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