Sense-antisense pairs in mammals: functional and evolutionary considerations
Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mous...
Ausführliche Beschreibung
Autor*in: |
Galante, Pedro AF [verfasserIn] |
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E-Artikel |
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Englisch |
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2007 |
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Anmerkung: |
© Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( |
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Übergeordnetes Werk: |
Enthalten in: Genome biology - London : BioMed Central, 2000, 8(2007), 3 vom: 19. März |
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Übergeordnetes Werk: |
volume:8 ; year:2007 ; number:3 ; day:19 ; month:03 |
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DOI / URN: |
10.1186/gb-2007-8-3-r40 |
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10.1186/gb-2007-8-3-r40 doi (DE-627)SPR029998670 (SPR)gb-2007-8-3-r40-e DE-627 ger DE-627 rakwb eng Galante, Pedro AF verfasserin aut Sense-antisense pairs in mammals: functional and evolutionary considerations 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. Additional Data File (dpeaa)DE-He213 Antisense Transcript (dpeaa)DE-He213 Massively Parallel Signature Sequencing (dpeaa)DE-He213 Chimeric Transcript (dpeaa)DE-He213 Antisense Gene (dpeaa)DE-He213 Vidal, Daniel O aut de Souza, Jorge E aut Camargo, Anamaria A aut de Souza, Sandro J aut Enthalten in Genome biology London : BioMed Central, 2000 8(2007), 3 vom: 19. März (DE-627)326173617 (DE-600)2040529-7 1474-760X nnns volume:8 year:2007 number:3 day:19 month:03 https://dx.doi.org/10.1186/gb-2007-8-3-r40 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 3 19 03 |
spelling |
10.1186/gb-2007-8-3-r40 doi (DE-627)SPR029998670 (SPR)gb-2007-8-3-r40-e DE-627 ger DE-627 rakwb eng Galante, Pedro AF verfasserin aut Sense-antisense pairs in mammals: functional and evolutionary considerations 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. Additional Data File (dpeaa)DE-He213 Antisense Transcript (dpeaa)DE-He213 Massively Parallel Signature Sequencing (dpeaa)DE-He213 Chimeric Transcript (dpeaa)DE-He213 Antisense Gene (dpeaa)DE-He213 Vidal, Daniel O aut de Souza, Jorge E aut Camargo, Anamaria A aut de Souza, Sandro J aut Enthalten in Genome biology London : BioMed Central, 2000 8(2007), 3 vom: 19. März (DE-627)326173617 (DE-600)2040529-7 1474-760X nnns volume:8 year:2007 number:3 day:19 month:03 https://dx.doi.org/10.1186/gb-2007-8-3-r40 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 3 19 03 |
allfields_unstemmed |
10.1186/gb-2007-8-3-r40 doi (DE-627)SPR029998670 (SPR)gb-2007-8-3-r40-e DE-627 ger DE-627 rakwb eng Galante, Pedro AF verfasserin aut Sense-antisense pairs in mammals: functional and evolutionary considerations 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. Additional Data File (dpeaa)DE-He213 Antisense Transcript (dpeaa)DE-He213 Massively Parallel Signature Sequencing (dpeaa)DE-He213 Chimeric Transcript (dpeaa)DE-He213 Antisense Gene (dpeaa)DE-He213 Vidal, Daniel O aut de Souza, Jorge E aut Camargo, Anamaria A aut de Souza, Sandro J aut Enthalten in Genome biology London : BioMed Central, 2000 8(2007), 3 vom: 19. März (DE-627)326173617 (DE-600)2040529-7 1474-760X nnns volume:8 year:2007 number:3 day:19 month:03 https://dx.doi.org/10.1186/gb-2007-8-3-r40 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 3 19 03 |
allfieldsGer |
10.1186/gb-2007-8-3-r40 doi (DE-627)SPR029998670 (SPR)gb-2007-8-3-r40-e DE-627 ger DE-627 rakwb eng Galante, Pedro AF verfasserin aut Sense-antisense pairs in mammals: functional and evolutionary considerations 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. Additional Data File (dpeaa)DE-He213 Antisense Transcript (dpeaa)DE-He213 Massively Parallel Signature Sequencing (dpeaa)DE-He213 Chimeric Transcript (dpeaa)DE-He213 Antisense Gene (dpeaa)DE-He213 Vidal, Daniel O aut de Souza, Jorge E aut Camargo, Anamaria A aut de Souza, Sandro J aut Enthalten in Genome biology London : BioMed Central, 2000 8(2007), 3 vom: 19. März (DE-627)326173617 (DE-600)2040529-7 1474-760X nnns volume:8 year:2007 number:3 day:19 month:03 https://dx.doi.org/10.1186/gb-2007-8-3-r40 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 3 19 03 |
allfieldsSound |
10.1186/gb-2007-8-3-r40 doi (DE-627)SPR029998670 (SPR)gb-2007-8-3-r40-e DE-627 ger DE-627 rakwb eng Galante, Pedro AF verfasserin aut Sense-antisense pairs in mammals: functional and evolutionary considerations 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. Additional Data File (dpeaa)DE-He213 Antisense Transcript (dpeaa)DE-He213 Massively Parallel Signature Sequencing (dpeaa)DE-He213 Chimeric Transcript (dpeaa)DE-He213 Antisense Gene (dpeaa)DE-He213 Vidal, Daniel O aut de Souza, Jorge E aut Camargo, Anamaria A aut de Souza, Sandro J aut Enthalten in Genome biology London : BioMed Central, 2000 8(2007), 3 vom: 19. März (DE-627)326173617 (DE-600)2040529-7 1474-760X nnns volume:8 year:2007 number:3 day:19 month:03 https://dx.doi.org/10.1186/gb-2007-8-3-r40 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 3 19 03 |
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Sense-antisense pairs in mammals: functional and evolutionary considerations |
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Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( |
abstractGer |
Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( |
abstract_unstemmed |
Background A significant number of genes in mammalian genomes are being found to have natural antisense transcripts (NATs). These sense-antisense (S-AS) pairs are believed to be involved in several cellular phenomena. Results Here, we generated a catalog of S-AS pairs occurring in the human and mouse genomes by analyzing different sources of expressed sequences available in the public domain plus 122 massively parallel signature sequencing (MPSS) libraries from a variety of human and mouse tissues. Using this dataset of almost 20,000 S-AS pairs in both genomes we investigated, in a computational and experimental way, several putative roles that have been assigned to NATs, including gene expression regulation. Furthermore, these global analyses allowed us to better dissect and propose new roles for NATs. Surprisingly, we found that a significant fraction of NATs are artifacts produced by genomic priming during cDNA library construction. Conclusion We propose an evolutionary and functional model in which alternative polyadenylation and retroposition account for the origin of a significant number of functional S-AS pairs in mammalian genomes. © Galante et al.; licensee BioMed Central Ltd. 2007. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License ( |
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score |
7.402272 |