Open reading frame (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Open reading frame" in English language version.

refsWebsite

Global rank English rank

24nih.gov

4^th place

16doi.org

2^nd place

3worldcat.org

5^th place

3semanticscholar.org

11^th place

8^th place

1genome.gov

9,308^th place

8,899^th place

1inrae.fr

low place

1harvard.edu

18^th place

17^th place

1web.archive.org

1^st place

1ysu.edu

low place

1bioconductor.org

low place

1github.com

383^rd place

320^th place

bioconductor.org

Kornel Labun, Haakon Tjeldnes (2018). "ORFik - Open reading frames in genomics". bioconductor.org. doi:10.18129/B9.bioc.ORFik.

doi.org

Sieber P, Platzer M, Schuster S (March 2018). "The Definition of Open Reading Frame Revisited". Trends in Genetics. 34 (3): 167–170. doi:10.1016/j.tig.2017.12.009. PMID 29366605.
Claverie JM (1997). "Computational methods for the identification of genes in vertebrate genomic sequences". Human Molecular Genetics. 6 (10): 1735–44. doi:10.1093/hmg/6.10.1735. PMID 9300666.
Claverie JM, Poirot O, Lopez F (1997). "The difficulty of identifying genes in anonymous vertebrate sequences". Computers & Chemistry. 21 (4): 203–14. doi:10.1016/s0097-8485(96)00039-3. PMID 9415985.
Leong, Alyssa Zi-Xin; Lee, Pey Yee; Mohtar, M. Aiman; Syafruddin, Saiful Effendi; Pung, Yuh-Fen; Low, Teck Yew (2022). "Short open reading frames (sORFs) and microproteins: an update on their identification and validation measures". Journal of Biomedical Science. 29 (1): 19. doi:10.1186/s12929-022-00802-5. PMC 8928697. PMID 35300685.
Vakirlis, Nikolaos; Vance, Zoe; Duggan, Kate M.; McLysaght, Aoife (2022). "De novo birth of functional microproteins in the human lineage". Cell Reports. 41 (12): 111808. doi:10.1016/j.celrep.2022.111808. PMC 10073203. PMID 36543139. S2CID 254966620.
Kute, Preeti Madhav; Soukarieh, Omar; Tjeldnes, Håkon; Trégouët, David-Alexandre; Valen, Eivind (2022). "Small Open Reading Frames, How to Find Them and Determine Their Function". Frontiers in Genetics. 12: 796060. doi:10.3389/fgene.2021.796060. PMC 8831751. PMID 35154250.
Zanet J, Benrabah E, Li T, Pélissier-Monier A, Chanut-Delalande H, Ronsin B, et al. (September 2015). "Pri sORF peptides induce selective proteasome-mediated protein processing" (PDF). Science. 349 (6254): 1356–1358. Bibcode:2015Sci...349.1356Z. doi:10.1126/science.aac5677. PMID 26383956. S2CID 206639549.
Wethmar K, Barbosa-Silva A, Andrade-Navarro MA, Leutz A (January 2014). "uORFdb--a comprehensive literature database on eukaryotic uORF biology". Nucleic Acids Research. 42 (Database issue): D60 – D67. doi:10.1093/nar/gkt952. PMC 3964959. PMID 24163100.
Geballe, A. P.; Morris, D. R. (April 1994). "Initiation codons within 5'-leaders of mRNAs as regulators of translation". Trends in Biochemical Sciences. 19 (4): 159–164. doi:10.1016/0968-0004(94)90277-1. ISSN 0968-0004. PMID 8016865.
Lee S, Liu B, Lee S, Huang SX, Shen B, Qian SB (September 2012). "Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution". Proceedings of the National Academy of Sciences of the United States of America. 109 (37): E2424 – E2432. doi:10.1073/pnas.1207846109. PMC 3443142. PMID 22927429.
Schwartz AM, Putlyaeva LV, Covich M, Klepikova AV, Akulich KA, Vorontsov IE, et al. (October 2016). "Early B-cell factor 1 (EBF1) is critical for transcriptional control of SLAMF1 gene in human B cells". Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms. 1859 (10): 1259–1268. doi:10.1016/j.bbagrm.2016.07.004. PMID 27424222.
Pearson WR, Wood T, Zhang Z, Miller W (November 1997). "Comparison of DNA sequences with protein sequences". Genomics. 46 (1): 24–36. doi:10.1006/geno.1997.4995. PMID 9403055. S2CID 6413018.
Carrington JC, Freed DD (April 1990). "Cap-independent enhancement of translation by a plant potyvirus 5' nontranslated region". Journal of Virology. 64 (4): 1590–7. doi:10.1128/JVI.64.4.1590-1597.1990. PMC 249294. PMID 2319646.
Kornel Labun, Haakon Tjeldnes (2018). "ORFik - Open reading frames in genomics". bioconductor.org. doi:10.18129/B9.bioc.ORFik.
Tjeldnes, Håkon; Labun, Kornel; Torres Cleuren, Yamila; Chyżyńska, Katarzyna; Świrski, Michał; Valen, Eivind (2021). "ORFik: A comprehensive R toolkit for the analysis of translation". BMC Bioinformatics. 22 (1): 336. doi:10.1186/s12859-021-04254-w. PMC 8214792. PMID 34147079.
Singh U, Wurtele ES (February 2021). "orfipy: a fast and flexible tool for extracting ORFs". Bioinformatics. 37 (18): 3019–3020. doi:10.1093/bioinformatics/btab090. ISSN 1367-4803. PMC 8479652. PMID 33576786.

genome.gov

Brody LC (2021-08-25). "Stop Codon". National Human Genome Research Institute. National Institutes of Health. Retrieved 2021-08-25.

github.com

Singh U (2021-02-13), urmi-21/orfipy, retrieved 2021-02-13

harvard.edu

ui.adsabs.harvard.edu

Zanet J, Benrabah E, Li T, Pélissier-Monier A, Chanut-Delalande H, Ronsin B, et al. (September 2015). "Pri sORF peptides induce selective proteasome-mediated protein processing" (PDF). Science. 349 (6254): 1356–1358. Bibcode:2015Sci...349.1356Z. doi:10.1126/science.aac5677. PMID 26383956. S2CID 206639549.

inrae.fr

hal.inrae.fr

Zanet J, Benrabah E, Li T, Pélissier-Monier A, Chanut-Delalande H, Ronsin B, et al. (September 2015). "Pri sORF peptides induce selective proteasome-mediated protein processing" (PDF). Science. 349 (6254): 1356–1358. Bibcode:2015Sci...349.1356Z. doi:10.1126/science.aac5677. PMID 26383956. S2CID 206639549.

nih.gov

pubmed.ncbi.nlm.nih.gov

Sieber P, Platzer M, Schuster S (March 2018). "The Definition of Open Reading Frame Revisited". Trends in Genetics. 34 (3): 167–170. doi:10.1016/j.tig.2017.12.009. PMID 29366605.
Claverie JM (1997). "Computational methods for the identification of genes in vertebrate genomic sequences". Human Molecular Genetics. 6 (10): 1735–44. doi:10.1093/hmg/6.10.1735. PMID 9300666.
Claverie JM, Poirot O, Lopez F (1997). "The difficulty of identifying genes in anonymous vertebrate sequences". Computers & Chemistry. 21 (4): 203–14. doi:10.1016/s0097-8485(96)00039-3. PMID 9415985.
Leong, Alyssa Zi-Xin; Lee, Pey Yee; Mohtar, M. Aiman; Syafruddin, Saiful Effendi; Pung, Yuh-Fen; Low, Teck Yew (2022). "Short open reading frames (sORFs) and microproteins: an update on their identification and validation measures". Journal of Biomedical Science. 29 (1): 19. doi:10.1186/s12929-022-00802-5. PMC 8928697. PMID 35300685.
Vakirlis, Nikolaos; Vance, Zoe; Duggan, Kate M.; McLysaght, Aoife (2022). "De novo birth of functional microproteins in the human lineage". Cell Reports. 41 (12): 111808. doi:10.1016/j.celrep.2022.111808. PMC 10073203. PMID 36543139. S2CID 254966620.
Kute, Preeti Madhav; Soukarieh, Omar; Tjeldnes, Håkon; Trégouët, David-Alexandre; Valen, Eivind (2022). "Small Open Reading Frames, How to Find Them and Determine Their Function". Frontiers in Genetics. 12: 796060. doi:10.3389/fgene.2021.796060. PMC 8831751. PMID 35154250.
Zanet J, Benrabah E, Li T, Pélissier-Monier A, Chanut-Delalande H, Ronsin B, et al. (September 2015). "Pri sORF peptides induce selective proteasome-mediated protein processing" (PDF). Science. 349 (6254): 1356–1358. Bibcode:2015Sci...349.1356Z. doi:10.1126/science.aac5677. PMID 26383956. S2CID 206639549.
Wethmar K, Barbosa-Silva A, Andrade-Navarro MA, Leutz A (January 2014). "uORFdb--a comprehensive literature database on eukaryotic uORF biology". Nucleic Acids Research. 42 (Database issue): D60 – D67. doi:10.1093/nar/gkt952. PMC 3964959. PMID 24163100.
Geballe, A. P.; Morris, D. R. (April 1994). "Initiation codons within 5'-leaders of mRNAs as regulators of translation". Trends in Biochemical Sciences. 19 (4): 159–164. doi:10.1016/0968-0004(94)90277-1. ISSN 0968-0004. PMID 8016865.
Lee S, Liu B, Lee S, Huang SX, Shen B, Qian SB (September 2012). "Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution". Proceedings of the National Academy of Sciences of the United States of America. 109 (37): E2424 – E2432. doi:10.1073/pnas.1207846109. PMC 3443142. PMID 22927429.
Schwartz AM, Putlyaeva LV, Covich M, Klepikova AV, Akulich KA, Vorontsov IE, et al. (October 2016). "Early B-cell factor 1 (EBF1) is critical for transcriptional control of SLAMF1 gene in human B cells". Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms. 1859 (10): 1259–1268. doi:10.1016/j.bbagrm.2016.07.004. PMID 27424222.
Pearson WR, Wood T, Zhang Z, Miller W (November 1997). "Comparison of DNA sequences with protein sequences". Genomics. 46 (1): 24–36. doi:10.1006/geno.1997.4995. PMID 9403055. S2CID 6413018.
Carrington JC, Freed DD (April 1990). "Cap-independent enhancement of translation by a plant potyvirus 5' nontranslated region". Journal of Virology. 64 (4): 1590–7. doi:10.1128/JVI.64.4.1590-1597.1990. PMC 249294. PMID 2319646.
Tjeldnes, Håkon; Labun, Kornel; Torres Cleuren, Yamila; Chyżyńska, Katarzyna; Świrski, Michał; Valen, Eivind (2021). "ORFik: A comprehensive R toolkit for the analysis of translation". BMC Bioinformatics. 22 (1): 336. doi:10.1186/s12859-021-04254-w. PMC 8214792. PMID 34147079.
Singh U, Wurtele ES (February 2021). "orfipy: a fast and flexible tool for extracting ORFs". Bioinformatics. 37 (18): 3019–3020. doi:10.1093/bioinformatics/btab090. ISSN 1367-4803. PMC 8479652. PMID 33576786.

ncbi.nlm.nih.gov

Leong, Alyssa Zi-Xin; Lee, Pey Yee; Mohtar, M. Aiman; Syafruddin, Saiful Effendi; Pung, Yuh-Fen; Low, Teck Yew (2022). "Short open reading frames (sORFs) and microproteins: an update on their identification and validation measures". Journal of Biomedical Science. 29 (1): 19. doi:10.1186/s12929-022-00802-5. PMC 8928697. PMID 35300685.
Vakirlis, Nikolaos; Vance, Zoe; Duggan, Kate M.; McLysaght, Aoife (2022). "De novo birth of functional microproteins in the human lineage". Cell Reports. 41 (12): 111808. doi:10.1016/j.celrep.2022.111808. PMC 10073203. PMID 36543139. S2CID 254966620.
Kute, Preeti Madhav; Soukarieh, Omar; Tjeldnes, Håkon; Trégouët, David-Alexandre; Valen, Eivind (2022). "Small Open Reading Frames, How to Find Them and Determine Their Function". Frontiers in Genetics. 12: 796060. doi:10.3389/fgene.2021.796060. PMC 8831751. PMID 35154250.
Wethmar K, Barbosa-Silva A, Andrade-Navarro MA, Leutz A (January 2014). "uORFdb--a comprehensive literature database on eukaryotic uORF biology". Nucleic Acids Research. 42 (Database issue): D60 – D67. doi:10.1093/nar/gkt952. PMC 3964959. PMID 24163100.
Lee S, Liu B, Lee S, Huang SX, Shen B, Qian SB (September 2012). "Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution". Proceedings of the National Academy of Sciences of the United States of America. 109 (37): E2424 – E2432. doi:10.1073/pnas.1207846109. PMC 3443142. PMID 22927429.
"ORFfinder". National Center for Biotechnology Information.
Carrington JC, Freed DD (April 1990). "Cap-independent enhancement of translation by a plant potyvirus 5' nontranslated region". Journal of Virology. 64 (4): 1590–7. doi:10.1128/JVI.64.4.1590-1597.1990. PMC 249294. PMID 2319646.
Tjeldnes, Håkon; Labun, Kornel; Torres Cleuren, Yamila; Chyżyńska, Katarzyna; Świrski, Michał; Valen, Eivind (2021). "ORFik: A comprehensive R toolkit for the analysis of translation". BMC Bioinformatics. 22 (1): 336. doi:10.1186/s12859-021-04254-w. PMC 8214792. PMID 34147079.
Singh U, Wurtele ES (February 2021). "orfipy: a fast and flexible tool for extracting ORFs". Bioinformatics. 37 (18): 3019–3020. doi:10.1093/bioinformatics/btab090. ISSN 1367-4803. PMC 8479652. PMID 33576786.

semanticscholar.org

api.semanticscholar.org

Vakirlis, Nikolaos; Vance, Zoe; Duggan, Kate M.; McLysaght, Aoife (2022). "De novo birth of functional microproteins in the human lineage". Cell Reports. 41 (12): 111808. doi:10.1016/j.celrep.2022.111808. PMC 10073203. PMID 36543139. S2CID 254966620.
Zanet J, Benrabah E, Li T, Pélissier-Monier A, Chanut-Delalande H, Ronsin B, et al. (September 2015). "Pri sORF peptides induce selective proteasome-mediated protein processing" (PDF). Science. 349 (6254): 1356–1358. Bibcode:2015Sci...349.1356Z. doi:10.1126/science.aac5677. PMID 26383956. S2CID 206639549.
Pearson WR, Wood T, Zhang Z, Miller W (November 1997). "Comparison of DNA sequences with protein sequences". Genomics. 46 (1): 24–36. doi:10.1006/geno.1997.4995. PMID 9403055. S2CID 6413018.

web.archive.org

"OrfPredictor". bioinformatics.ysu.edu. Archived from the original on 2015-12-22. Retrieved 2015-12-17.

worldcat.org

search.worldcat.org

Slonczewski J, Foster JW (2009). Microbiology: An Evolving Science. New York: W.W. Norton & Co. ISBN 978-0-393-97857-5. OCLC 185042615.
Geballe, A. P.; Morris, D. R. (April 1994). "Initiation codons within 5'-leaders of mRNAs as regulators of translation". Trends in Biochemical Sciences. 19 (4): 159–164. doi:10.1016/0968-0004(94)90277-1. ISSN 0968-0004. PMID 8016865.
Singh U, Wurtele ES (February 2021). "orfipy: a fast and flexible tool for extracting ORFs". Bioinformatics. 37 (18): 3019–3020. doi:10.1093/bioinformatics/btab090. ISSN 1367-4803. PMC 8479652. PMID 33576786.

ysu.edu

bioinformatics.ysu.edu

"OrfPredictor". bioinformatics.ysu.edu. Archived from the original on 2015-12-22. Retrieved 2015-12-17.