Transcriptional Maps of 10 Human Chromosomes at 5-Nucleotide Resolution

Jill Cheng; Philipp Kapranov; Jörg Drenkow; Sujit Dike; Shane Brubaker; Sandeep Patel; Jeffrey C. Long; David L. Stern; Hari Tammana; Gregg Helt; Victor Sementchenko; Antonio Piccolboni; Stefan Bekiranov; Dione K. Bailey; Madhavan Ganesh; Srinka Ghosh; Ian Bell; Daniela S. Gerhard; T Gingeras

doi:10.1126/science.1108625

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.

Keywords

Resolution (logic)GeneticsNucleotideBiologyComputational biologyEvolutionary biologyGeneComputer scienceArtificial intelligence

Affiliated Institutions

National Cancer Institute US

Related Publications

An initial map of insertion and deletion (INDEL) variation in the human genome

Ryan E. Mills , Christopher T. Luttig , Christine E. Larkins +4 more

Although many studies have been conducted to identify single nucleotide polymorphisms (SNPs) in humans, few studies have been conducted to identify alternative forms of natural ...

2006 Genome Research 685 citations

Highly polymorphic DNA sequences in the distal region of the long arm of human chromosome 18

U. Müller , Timothy A. Donlon , Peter C. Harris +4 more

Highly polymorphic repeated DNA sequences were detected at the end of the long arm of human chromosome 18 by a recombinant DNA probe containing 56 bp of human DNA (pERT25). This...

1987 Cytogenetic and Genome Research 17 citations

RNA Maps Reveal New RNA Classes and a Possible Function for Pervasive Transcription

Philipp Kapranov , Jill Cheng , Sujit Dike +19 more

Significant fractions of eukaryotic genomes give rise to RNA, much of which is unannotated and has reduced protein-coding potential. The genomic origins and the associations of ...

2007 Science 2523 citations

Comparative Genomic Sequence Analysis of the Human Chromosome 21 Down Syndrome Critical Region

Atsushi Toyoda , Hideki Noguchi , Todd D. Taylor +5 more

Comprehensive knowledge of the gene content of human chromosome 21 (HSA21) is essential for understanding the etiology of Down syndrome (DS). Here we report the largest comparis...

2002 Genome Research 52 citations

The macrosatellite DXZ4 mediates CTCF-dependent long-range intrachromosomal interactions on the human inactive X chromosome

Andrea Harničarová Horáková , Shawn C. Moseley , Christine R McLaughlin +2 more

The human X-linked macrosatellite DXZ4 is a large tandem repeat located at Xq23 that is packaged into heterochromatin on the male X chromosome and female active X chromosome and...

2012 Human Molecular Genetics 76 citations

Publication Info

Year: 2005
Type: article
Volume: 308
Issue: 5725
Pages: 1149-1154
Citations: 1204
Access: Closed

External Links

View on DOI.org

Social Impact

Altmetric

Transcriptional Maps of 10 Human Chromosomes at 5-Nucleotide Resolution

PlumX Metrics

Social media, news, blog, policy document mentions

Citation Metrics

1204

OpenAlex

Cite This

APA Style

                            
                                
                                    Jill Cheng, 
                                
                                    Philipp Kapranov, 
                                
                                    Jörg Drenkow
                                
                                et al.
                            
                            (2005). 
                            Transcriptional Maps of 10 Human Chromosomes at 5-Nucleotide Resolution. 
                            Science
                            , 308
                            (5725)
                            , 1149-1154.
                            https://doi.org/10.1126/science.1108625
                        

Identifiers

DOI: 10.1126/science.1108625