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PMID: 15790807 Published · ppublish English Journal Article

Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution.

Science (New York, N.Y.) ·Vol. 308 ·No. 5725 ·2005-05-20 ·Pages 1149-54

Cheng J, Kapranov P, Drenkow J, Dike S, Brubaker S, Patel S, Long J, Stern D, Tammana H, Helt G, Sementchenko V, Piccolboni A, Bekiranov S, Bailey DK, Ganesh M, Ghosh S, Bell I, Gerhard DS, Gingeras TR

Abstract

Sites of transcription of polyadenylated and nonpolyadenylated RNAs for 10 human chromosomes were mapped at 5-base pair resolution in eight cell lines. Unannotated, nonpolyadenylated transcripts comprise the major proportion of the transcriptional output of the human genome. Of all transcribed sequences, 19.4, 43.7, and 36.9% were observed to be polyadenylated, nonpolyadenylated, and bimorphic, respectively. Half of all transcribed sequences are found only in the nucleus and for the most part are unannotated. Overall, the transcribed portions of the human genome are predominantly composed of interlaced networks of both poly A+ and poly A- annotated transcripts and unannotated transcripts of unknown function. This organization has important implications for interpreting genotype-phenotype associations, regulation of gene expression, and the definition of a gene.

MeSH Terms

Cell Line Cell Line, Tumor Cell Nucleus/metabolism Chromosomes, Human/genetics Chromosomes, Human, Pair 13/genetics Chromosomes, Human, Pair 14/genetics Chromosomes, Human, Pair 19/genetics Chromosomes, Human, Pair 20/genetics Chromosomes, Human, Pair 21/genetics Chromosomes, Human, Pair 22/genetics Chromosomes, Human, Pair 6/genetics Chromosomes, Human, Pair 7/genetics Chromosomes, Human, X/genetics Chromosomes, Human, Y/genetics Computational Biology Cytosol/metabolism DNA, Complementary DNA, Intergenic Exons Female Genome, Human Humans Introns Male Molecular Sequence Data Nucleic Acid Amplification Techniques Oligonucleotide Array Sequence Analysis Physical Chromosome Mapping RNA Splicing RNA, Messenger/analysis Transcription, Genetic

Chemicals

DNA, Complementary DNA, Intergenic RNA, Messenger

Authors & Affiliations

19 authors, click to expand affiliations / ORCID

Cheng Jill

Affymetrix Inc., Santa Clara, CA 95051, USA.

Kapranov Philipp

Drenkow Jorg

Dike Sujit

Brubaker Shane

Patel Sandeep

Long Jeffrey

Stern David

Tammana Hari

Helt Gregg

Sementchenko Victor

Piccolboni Antonio

Bekiranov Stefan

Bailey Dione K

Ganesh Madhavan

Ghosh Srinka

Bell Ian

Gerhard Daniela S

Gingeras Thomas R

Article Info

Journal

Science (New York, N.Y.)

Abbr.

Science

ISSN

1095-9203

DOI

10.1126/science.1108625

Published

2005-05-20

Epub

2005-00-24

Pages

1149-54

Language

English

Region

United States

NLM ID

0404511

Subset

Databases

GENBANK

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External Links

PubMed source DOI: 10.1126/science.1108625 View journal details

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Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution.

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