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Maskless photolithography genome tiling experiment

ABSTRACT: This experiment was designed to identify transcribed sequences across the human genome, particularly those distinct from previously annotated genes. To measure global transcriptional activity a series of high-density oligonucleotide tiling arrays was constructed to represent sense and antisense strands of the entire nonrepetitive sequence of the genome (1.5 Gb). A total of 51,874,388 36mer oligonucleotide probes, positioned every 46 nt on average, were synthesized via maskless photolithography at a feature density of approximately 390,000 probes per slide. The arrays were hybridized to fluorescence-labeled cDNA reverse-transcribed from triple-selected poly (A)+ liver tissue RNA. Keywords = transcription Keywords = gene expression Keywords = human

ORGANISM(S): Homo sapiens

SUBMITTER: Paul Bertone

PROVIDER: E-GEOD-1904 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Global identification of human transcribed sequences with genome tiling arrays.

Bertone Paul P Stolc Viktor V Royce Thomas E TE Rozowsky Joel S JS Urban Alexander E AE Zhu Xiaowei X Rinn John L JL Tongprasit Waraporn W Samanta Manoj M Weissman Sherman S Gerstein Mark M Snyder Michael M

Science (New York, N.Y.) 20041111 5705

Elucidating the transcribed regions of the genome constitutes a fundamental aspect of human biology, yet this remains an outstanding problem. To comprehensively identify coding sequences, we constructed a series of high-density oligonucleotide tiling arrays representing sense and antisense strands of the entire nonrepetitive sequence of the human genome. Transcribed sequences were located across the genome via hybridization to complementary DNA samples, reverse-transcribed from polyadenylated RN ...[more]

PMID: 15539566

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