Promoter (genetics) (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Promoter (genetics)" in English language version.

refsWebsite

Global rank English rank

92nih.gov

4^th place

61doi.org

2^nd place

13harvard.edu

18^th place

17^th place

9semanticscholar.org

11^th place

8^th place

1tau.ac.il

4,464^th place

4,468^th place

1molbiol-tools.ca

low place

1bioinformatics.org

low place

1psu.edu

207^th place

136^th place

1sdsu.edu

3,103^rd place

2,242^nd place

bioinformatics.org (Global: low place; English: low place)

"YAPP Eukaryotic Core Promoter Predictor". www.bioinformatics.org.

doi.org (Global: 2^nd place; English: 2^nd place)

LaFleur TL, Hossain A, Salis HM (September 2022). "Automated model-predictive design of synthetic promoters to control transcriptional profiles in bacteria". Nature Communications. 13 (1) 5159. Bibcode:2022NatCo..13.5159L. doi:10.1038/s41467-022-32829-5. PMC 9440211. PMID 36056029.
Wenck, BR; Santangelo, TJ (October 2020). "Archaeal transcription". Transcription. 11 (5): 199–210. doi:10.1080/21541264.2020.1838865. PMC 7714419. PMID 33112729.
Yaniv M (September 2014). "Chromatin remodeling: from transcription to cancer". Cancer Genetics. 207 (9): 352–7. doi:10.1016/j.cancergen.2014.03.006. PMID 24825771.
Civas A, Génin P, Morin P, Lin R, Hiscott J (February 2006). "Promoter organization of the interferon-A genes differentially affects virus-induced expression and responsiveness to TBK1 and IKKepsilon". The Journal of Biological Chemistry. 281 (8): 4856–66. doi:10.1074/jbc.M506812200. PMID 16380379.
Yona AH, Alm EJ, Gore J (April 2018). "Random sequences rapidly evolve into de novo promoters". Nature Communications. 9 (1) 1530. Bibcode:2018NatCo...9.1530Y. doi:10.1038/s41467-018-04026-w. PMC 5906472. PMID 29670097.
Kuo, Syue-Ting; Chang, Joshua Kevin; Chang, Clara; Shen, Wei-Yi; Hsu, Christine; Lai, Sheng-Wen; Chou, Hsin-Hung David (2025-01-01). "Unravel the start element and promoter architecture across the domain Bacteria". bioRxiv: 2025–01.23.634641. doi:10.1101/2025.01.23.634641.
Ross W, Gosink KK, Salomon J, Igarashi K, Zou C, Ishihama A, et al. (November 1993). "A third recognition element in bacterial promoters: DNA binding by the alpha subunit of RNA polymerase". Science. 262 (5138): 1407–1413. Bibcode:1993Sci...262.1407R. doi:10.1126/science.8248780. PMID 8248780.
Estrem ST, Ross W, Gaal T, Chen ZW, Niu W, Ebright RH, Gourse RL (August 1999). "Bacterial promoter architecture: subsite structure of UP elements and interactions with the carboxy-terminal domain of the RNA polymerase alpha subunit". Genes & Development. 13 (16): 2134–2147. doi:10.1101/gad.13.16.2134. PMC 316962. PMID 10465790.
Adachi N, Lieber MR (June 2002). "Bidirectional gene organization: a common architectural feature of the human genome". Cell. 109 (7): 807–809. doi:10.1016/S0092-8674(02)00758-4. PMID 12110178.
Herbert M, Kolb A, Buc H (May 1986). "Overlapping promoters and their control in Escherichia coli: the gal case". Proceedings of the National Academy of Sciences of the United States of America. 83 (9): 2807–2811. Bibcode:1986PNAS...83.2807H. doi:10.1073/pnas.83.9.2807. PMC 323395. PMID 3010319.
Korbel JO, Jensen LJ, von Mering C, Bork P (July 2004). "Analysis of genomic context: prediction of functional associations from conserved bidirectionally transcribed gene pairs". Nature Biotechnology. 22 (7): 911–917. doi:10.1038/nbt988. PMID 15229555. S2CID 3546895.
Sneppen K, Dodd IB, Shearwin KE, Palmer AC, Schubert RA, Callen BP, Egan JB (February 2005). "A mathematical model for transcriptional interference by RNA polymerase traffic in Escherichia coli". Journal of Molecular Biology. 346 (2): 399–409. doi:10.1016/j.jmb.2004.11.075. PMID 15670592.
Martins L, Mäkelä J, Häkkinen A, Kandhavelu M, Yli-Harja O, Fonseca JM, Ribeiro AS (May 2012). "Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time". Journal of Theoretical Biology. 301: 83–94. Bibcode:2012JThBi.301...83M. doi:10.1016/j.jtbi.2012.02.015. PMID 22370562.
Häkkinen A, Oliveira SM, Neeli-Venkata R, Ribeiro AS (December 2019). "Transcription closed and open complex formation coordinate expression of genes with a shared promoter region". Journal of the Royal Society, Interface. 16 (161) 20190507. doi:10.1098/rsif.2019.0507. PMC 6936044. PMID 31822223.
Bordoy AE, Varanasi US, Courtney CM, Chatterjee A (December 2016). "Transcriptional Interference in Convergent Promoters as a Means for Tunable Gene Expression". ACS Synthetic Biology. 5 (12): 1331–1341. doi:10.1021/acssynbio.5b00223. PMID 27346626.
Chauhan V, Bahrudeen MN, Palma CS, Baptista IS, Almeida BL, Dash S, et al. (January 2022). "Analytical kinetic model of native tandem promoters in E. coli". PLOS Computational Biology. 18 (1) e1009824. Bibcode:2022PLSCB..18E9824C. doi:10.1371/journal.pcbi.1009824. PMC 8830795. PMID 35100257.
Smale ST, Kadonaga JT (2003). "The RNA polymerase II core promoter". Annual Review of Biochemistry. 72: 449–479. doi:10.1146/annurev.biochem.72.121801.161520. PMID 12651739.
Gershenzon NI, Ioshikhes IP (April 2005). "Synergy of human Pol II core promoter elements revealed by statistical sequence analysis". Bioinformatics. 21 (8): 1295–1300. doi:10.1093/bioinformatics/bti172. PMID 15572469.
Lagrange T, Kapanidis AN, Tang H, Reinberg D, Ebright RH (January 1998). "New core promoter element in RNA polymerase II-dependent transcription: sequence-specific DNA binding by transcription factor IIB". Genes & Development. 12 (1): 34–44. doi:10.1101/gad.12.1.34. PMC 316406. PMID 9420329.
Levine M, Tjian R (July 2003). "Transcription regulation and animal diversity". Nature. 424 (6945): 147–151. Bibcode:2003Natur.424..147L. doi:10.1038/nature01763. PMID 12853946. S2CID 4373712.
Liefke R, Windhof-Jaidhauser IM, Gaedcke J, Salinas-Riester G, Wu F, Ghadimi M, Dango S (June 2015). "The oxidative demethylase ALKBH3 marks hyperactive gene promoters in human cancer cells". Genome Medicine. 7 (1) 66. doi:10.1186/s13073-015-0180-0. PMC 4517488. PMID 26221185.
Juven-Gershon T, Kadonaga JT (March 2010). "Regulation of gene expression via the core promoter and the basal transcriptional machinery". Developmental Biology. 339 (2): 225–229. doi:10.1016/j.ydbio.2009.08.009. PMC 2830304. PMID 19682982.
Yang C, Bolotin E, Jiang T, Sladek FM, Martinez E (March 2007). "Prevalence of the initiator over the TATA box in human and yeast genes and identification of DNA motifs enriched in human TATA-less core promoters". Gene. 389 (1): 52–65. doi:10.1016/j.gene.2006.09.029. PMC 1955227. PMID 17123746.
Bird A (January 2002). "DNA methylation patterns and epigenetic memory". Genes & Development. 16 (1): 6–21. doi:10.1101/gad.947102. PMID 11782440.
Weingarten-Gabbay S, Nir R, Lubliner S, Sharon E, Kalma Y, Weinberger A, Segal E (February 2019). "Systematic interrogation of human promoters". Genome Research. 29 (2): 171–183. doi:10.1101/gr.236075.118. PMC 6360817. PMID 30622120.
Beagan JA, Pastuzyn ED, Fernandez LR, Guo MH, Feng K, Titus KR, et al. (June 2020). "Three-dimensional genome restructuring across timescales of activity-induced neuronal gene expression". Nature Neuroscience. 23 (6): 707–717. doi:10.1038/s41593-020-0634-6. PMC 7558717. PMID 32451484.
Verheul TC, van Hijfte L, Perenthaler E, Barakat TS (2020). "The Why of YY1: Mechanisms of Transcriptional Regulation by Yin Yang 1". Frontiers in Cell and Developmental Biology. 8 592164. doi:10.3389/fcell.2020.592164. PMC 7554316. PMID 33102493.
Spitz F, Furlong EE (September 2012). "Transcription factors: from enhancer binding to developmental control". Nature Reviews. Genetics. 13 (9): 613–626. doi:10.1038/nrg3207. PMID 22868264. S2CID 205485256.
Schoenfelder S, Fraser P (August 2019). "Long-range enhancer-promoter contacts in gene expression control". Nature Reviews. Genetics. 20 (8): 437–455. doi:10.1038/s41576-019-0128-0. PMID 31086298. S2CID 152283312.
Weintraub AS, Li CH, Zamudio AV, Sigova AA, Hannett NM, Day DS, et al. (December 2017). "YY1 Is a Structural Regulator of Enhancer-Promoter Loops". Cell. 171 (7): 1573–1588.e28. doi:10.1016/j.cell.2017.11.008. PMC 5785279. PMID 29224777.
Lambert SA, Jolma A, Campitelli LF, Das PK, Yin Y, Albu M, et al. (February 2018). "The Human Transcription Factors". Cell. 172 (4): 650–665. doi:10.1016/j.cell.2018.01.029. PMID 29425488.
Grossman SR, Engreitz J, Ray JP, Nguyen TH, Hacohen N, Lander ES (July 2018). "Positional specificity of different transcription factor classes within enhancers". Proceedings of the National Academy of Sciences of the United States of America. 115 (30): E7222 – E7230. Bibcode:2018PNAS..115E7222G. doi:10.1073/pnas.1804663115. PMC 6065035. PMID 29987030.
Allen BL, Taatjes DJ (March 2015). "The Mediator complex: a central integrator of transcription". Nature Reviews. Molecular Cell Biology. 16 (3): 155–166. doi:10.1038/nrm3951. PMC 4963239. PMID 25693131.
Mikhaylichenko O, Bondarenko V, Harnett D, Schor IE, Males M, Viales RR, Furlong EE (January 2018). "The degree of enhancer or promoter activity is reflected by the levels and directionality of eRNA transcription". Genes & Development. 32 (1): 42–57. doi:10.1101/gad.308619.117. PMC 5828394. PMID 29378788.
Li QJ, Yang SH, Maeda Y, Sladek FM, Sharrocks AD, Martins-Green M (January 2003). "MAP kinase phosphorylation-dependent activation of Elk-1 leads to activation of the co-activator p300". The EMBO Journal. 22 (2): 281–291. doi:10.1093/emboj/cdg028. PMC 140103. PMID 12514134.
Carullo NV, Phillips Iii RA, Simon RC, Soto SA, Hinds JE, Salisbury AJ, et al. (September 2020). "Enhancer RNAs predict enhancer-gene regulatory links and are critical for enhancer function in neuronal systems". Nucleic Acids Research. 48 (17): 9550–9570. doi:10.1093/nar/gkaa671. PMC 7515708. PMID 32810208.
Trinklein ND, Aldred SF, Hartman SJ, Schroeder DI, Otillar RP, Myers RM (January 2004). "An abundance of bidirectional promoters in the human genome". Genome Research. 14 (1): 62–66. doi:10.1101/gr.1982804. PMC 314279. PMID 14707170.
Yang MQ, Koehly LM, Elnitski LL (April 2007). "Comprehensive annotation of bidirectional promoters identifies co-regulation among breast and ovarian cancer genes". PLOS Computational Biology. 3 (4) e72. Bibcode:2007PLSCB...3...72Y. doi:10.1371/journal.pcbi.0030072. PMC 1853124. PMID 17447839.
Adachi N, Lieber MR (June 2002). "Bidirectional gene organization: a common architectural feature of the human genome". Cell. 109 (7): 807–809. doi:10.1016/S0092-8674(02)00758-4. PMID 12110178. S2CID 8556921.
Koyanagi KO, Hagiwara M, Itoh T, Gojobori T, Imanishi T (July 2005). "Comparative genomics of bidirectional gene pairs and its implications for the evolution of a transcriptional regulation system". Gene. 353 (2): 169–176. doi:10.1016/j.gene.2005.04.027. PMID 15944140.
Liu B, Chen J, Shen B (May 2011). "Genome-wide analysis of the transcription factor binding preference of human bi-directional promoters and functional annotation of related gene pairs". BMC Systems Biology. 5 (Suppl 1) S2. doi:10.1186/1752-0509-5-S1-S2. PMC 3121118. PMID 21689477.
Shu J, Jelinek J, Chang H, Shen L, Qin T, Chung W, et al. (May 2006). "Silencing of bidirectional promoters by DNA methylation in tumorigenesis". Cancer Research. 66 (10): 5077–5084. doi:10.1158/0008-5472.CAN-05-2629. PMID 16707430.
Wei W, Pelechano V, Järvelin AI, Steinmetz LM (July 2011). "Functional consequences of bidirectional promoters". Trends in Genetics. 27 (7): 267–276. doi:10.1016/j.tig.2011.04.002. PMC 3123404. PMID 21601935.
Mahpour A, Scruggs BS, Smiraglia D, Ouchi T, Gelman IH (2018-10-17). "A methyl-sensitive element induces bidirectional transcription in TATA-less CpG island-associated promoters". PLOS ONE. 13 (10) e0205608. Bibcode:2018PLoSO..1305608M. doi:10.1371/journal.pone.0205608. PMC 6192621. PMID 30332484.
Lin JM, Collins PJ, Trinklein ND, Fu Y, Xi H, Myers RM, Weng Z (June 2007). "Transcription factor binding and modified histones in human bidirectional promoters". Genome Research. 17 (6): 818–827. doi:10.1101/gr.5623407. PMC 1891341. PMID 17568000.
Martinez, GS; Sarkar, S; Kumar, A; Pérez-Rueda, E; de Avila E Silva, S (October 2021). "Characterization of promoters in archaeal genomes based on DNA structural parameters". MicrobiologyOpen. 10 (5) e1230. doi:10.1002/mbo3.1230. PMC 8553660. PMID 34713600.
Koev G, Miller WA (July 2000). "A positive-strand RNA virus with three very different subgenomic RNA promoters". Journal of Virology. 74 (13): 5988–5996. doi:10.1128/jvi.74.13.5988-5996.2000. PMC 112095. PMID 10846080.
Umarov, RK; Solovyev, VV (2017). "Recognition of prokaryotic and eukaryotic promoters using convolutional deep learning neural networks". PLOS ONE. 12 (2) e0171410. Bibcode:2017PLoSO..1271410U. doi:10.1371/journal.pone.0171410. PMC 5291440. PMID 28158264.
deHaseth PL, Zupancic ML, Record MT (June 1998). "RNA polymerase-promoter interactions: the comings and goings of RNA polymerase". Journal of Bacteriology. 180 (12): 3019–3025. doi:10.1128/jb.180.12.3019-3025.1998. PMC 107799. PMID 9620948.
Singer P, Wu CW (October 1987). "Promoter search by Escherichia coli RNA polymerase on a circular DNA template". The Journal of Biological Chemistry. 262 (29): 14178–14189. doi:10.1016/S0021-9258(18)47921-5. PMID 3308887.
Borukhov S, Nudler E (April 2003). "RNA polymerase holoenzyme: structure, function and biological implications". Current Opinion in Microbiology. 6 (2): 93–100. doi:10.1016/s1369-5274(03)00036-5. PMID 12732296.
Copland JA, Sheffield-Moore M, Koldzic-Zivanovic N, Gentry S, Lamprou G, Tzortzatou-Stathopoulou F, et al. (June 2009). "Sex steroid receptors in skeletal differentiation and epithelial neoplasia: is tissue-specific intervention possible?". BioEssays. 31 (6): 629–641. doi:10.1002/bies.200800138. PMID 19382224. S2CID 205469320.
Vlahopoulos SA, Logotheti S, Mikas D, Giarika A, Gorgoulis V, Zoumpourlis V (April 2008). "The role of ATF-2 in oncogenesis". BioEssays. 30 (4): 314–327. doi:10.1002/bies.20734. PMID 18348191. S2CID 678541.
Saxonov S, Berg P, Brutlag DL (January 2006). "A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters". Proceedings of the National Academy of Sciences of the United States of America. 103 (5): 1412–1417. Bibcode:2006PNAS..103.1412S. doi:10.1073/pnas.0510310103. PMC 1345710. PMID 16432200.
Deaton AM, Bird A (May 2011). "CpG islands and the regulation of transcription". Genes & Development. 25 (10): 1010–1022. doi:10.1101/gad.2037511. PMC 3093116. PMID 21576262.
Chen HY, Shao CJ, Chen FR, Kwan AL, Chen ZP (April 2010). "Role of ERCC1 promoter hypermethylation in drug resistance to cisplatin in human gliomas". International Journal of Cancer. 126 (8): 1944–1954. doi:10.1002/ijc.24772. PMID 19626585.
Hossain A, Lopez E, Halper SM, Cetnar DP, Reis AC, Strickland D, et al. (December 2020). "Automated design of thousands of nonrepetitive parts for engineering stable genetic systems". Nature Biotechnology. 38 (12): 1466–1475. doi:10.1038/s41587-020-0584-2. PMID 32661437. S2CID 220506228.
Hobbs K, Negri J, Klinnert M, Rosenwasser LJ, Borish L (December 1998). "Interleukin-10 and transforming growth factor-beta promoter polymorphisms in allergies and asthma". American Journal of Respiratory and Critical Care Medicine. 158 (6): 1958–1962. doi:10.1164/ajrccm.158.6.9804011. PMID 9847292.
Burchard EG, Silverman EK, Rosenwasser LJ, Borish L, Yandava C, Pillari A, et al. (September 1999). "Association between a sequence variant in the IL-4 gene promoter and FEV(1) in asthma". American Journal of Respiratory and Critical Care Medicine. 160 (3): 919–922. doi:10.1164/ajrccm.160.3.9812024. PMID 10471619.
Kulozik AE, Bellan-Koch A, Bail S, Kohne E, Kleihauer E (May 1991). "Thalassemia intermedia: moderate reduction of beta globin gene transcriptional activity by a novel mutation of the proximal CACCC promoter element". Blood. 77 (9): 2054–2058. doi:10.1182/blood.V77.9.2054.2054. PMID 2018842.
Petrij F, Giles RH, Dauwerse HG, Saris JJ, Hennekam RC, Masuno M, et al. (July 1995). "Rubinstein-Taybi syndrome caused by mutations in the transcriptional co-activator CBP". Nature. 376 (6538): 348–351. Bibcode:1995Natur.376..348P. doi:10.1038/376348a0. PMID 7630403. S2CID 4254507.

harvard.edu (Global: 18^th place; English: 17^th place)

ui.adsabs.harvard.edu

LaFleur TL, Hossain A, Salis HM (September 2022). "Automated model-predictive design of synthetic promoters to control transcriptional profiles in bacteria". Nature Communications. 13 (1) 5159. Bibcode:2022NatCo..13.5159L. doi:10.1038/s41467-022-32829-5. PMC 9440211. PMID 36056029.
Yona AH, Alm EJ, Gore J (April 2018). "Random sequences rapidly evolve into de novo promoters". Nature Communications. 9 (1) 1530. Bibcode:2018NatCo...9.1530Y. doi:10.1038/s41467-018-04026-w. PMC 5906472. PMID 29670097.
Ross W, Gosink KK, Salomon J, Igarashi K, Zou C, Ishihama A, et al. (November 1993). "A third recognition element in bacterial promoters: DNA binding by the alpha subunit of RNA polymerase". Science. 262 (5138): 1407–1413. Bibcode:1993Sci...262.1407R. doi:10.1126/science.8248780. PMID 8248780.
Herbert M, Kolb A, Buc H (May 1986). "Overlapping promoters and their control in Escherichia coli: the gal case". Proceedings of the National Academy of Sciences of the United States of America. 83 (9): 2807–2811. Bibcode:1986PNAS...83.2807H. doi:10.1073/pnas.83.9.2807. PMC 323395. PMID 3010319.
Martins L, Mäkelä J, Häkkinen A, Kandhavelu M, Yli-Harja O, Fonseca JM, Ribeiro AS (May 2012). "Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time". Journal of Theoretical Biology. 301: 83–94. Bibcode:2012JThBi.301...83M. doi:10.1016/j.jtbi.2012.02.015. PMID 22370562.
Chauhan V, Bahrudeen MN, Palma CS, Baptista IS, Almeida BL, Dash S, et al. (January 2022). "Analytical kinetic model of native tandem promoters in E. coli". PLOS Computational Biology. 18 (1) e1009824. Bibcode:2022PLSCB..18E9824C. doi:10.1371/journal.pcbi.1009824. PMC 8830795. PMID 35100257.
Levine M, Tjian R (July 2003). "Transcription regulation and animal diversity". Nature. 424 (6945): 147–151. Bibcode:2003Natur.424..147L. doi:10.1038/nature01763. PMID 12853946. S2CID 4373712.
Grossman SR, Engreitz J, Ray JP, Nguyen TH, Hacohen N, Lander ES (July 2018). "Positional specificity of different transcription factor classes within enhancers". Proceedings of the National Academy of Sciences of the United States of America. 115 (30): E7222 – E7230. Bibcode:2018PNAS..115E7222G. doi:10.1073/pnas.1804663115. PMC 6065035. PMID 29987030.
Yang MQ, Koehly LM, Elnitski LL (April 2007). "Comprehensive annotation of bidirectional promoters identifies co-regulation among breast and ovarian cancer genes". PLOS Computational Biology. 3 (4) e72. Bibcode:2007PLSCB...3...72Y. doi:10.1371/journal.pcbi.0030072. PMC 1853124. PMID 17447839.
Mahpour A, Scruggs BS, Smiraglia D, Ouchi T, Gelman IH (2018-10-17). "A methyl-sensitive element induces bidirectional transcription in TATA-less CpG island-associated promoters". PLOS ONE. 13 (10) e0205608. Bibcode:2018PLoSO..1305608M. doi:10.1371/journal.pone.0205608. PMC 6192621. PMID 30332484.
Umarov, RK; Solovyev, VV (2017). "Recognition of prokaryotic and eukaryotic promoters using convolutional deep learning neural networks". PLOS ONE. 12 (2) e0171410. Bibcode:2017PLoSO..1271410U. doi:10.1371/journal.pone.0171410. PMC 5291440. PMID 28158264.
Saxonov S, Berg P, Brutlag DL (January 2006). "A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters". Proceedings of the National Academy of Sciences of the United States of America. 103 (5): 1412–1417. Bibcode:2006PNAS..103.1412S. doi:10.1073/pnas.0510310103. PMC 1345710. PMID 16432200.
Petrij F, Giles RH, Dauwerse HG, Saris JJ, Hennekam RC, Masuno M, et al. (July 1995). "Rubinstein-Taybi syndrome caused by mutations in the transcriptional co-activator CBP". Nature. 376 (6538): 348–351. Bibcode:1995Natur.376..348P. doi:10.1038/376348a0. PMID 7630403. S2CID 4254507.

molbiol-tools.ca (Global: low place; English: low place)

"Online Analysis Tools - Promoters". molbiol-tools.ca.

nih.gov (Global: 4^th place; English: 4^th place)

pubmed.ncbi.nlm.nih.gov

LaFleur TL, Hossain A, Salis HM (September 2022). "Automated model-predictive design of synthetic promoters to control transcriptional profiles in bacteria". Nature Communications. 13 (1) 5159. Bibcode:2022NatCo..13.5159L. doi:10.1038/s41467-022-32829-5. PMC 9440211. PMID 36056029.
Wenck, BR; Santangelo, TJ (October 2020). "Archaeal transcription". Transcription. 11 (5): 199–210. doi:10.1080/21541264.2020.1838865. PMC 7714419. PMID 33112729.
Yaniv M (September 2014). "Chromatin remodeling: from transcription to cancer". Cancer Genetics. 207 (9): 352–7. doi:10.1016/j.cancergen.2014.03.006. PMID 24825771.
Civas A, Génin P, Morin P, Lin R, Hiscott J (February 2006). "Promoter organization of the interferon-A genes differentially affects virus-induced expression and responsiveness to TBK1 and IKKepsilon". The Journal of Biological Chemistry. 281 (8): 4856–66. doi:10.1074/jbc.M506812200. PMID 16380379.
Yona AH, Alm EJ, Gore J (April 2018). "Random sequences rapidly evolve into de novo promoters". Nature Communications. 9 (1) 1530. Bibcode:2018NatCo...9.1530Y. doi:10.1038/s41467-018-04026-w. PMC 5906472. PMID 29670097.
Ross W, Gosink KK, Salomon J, Igarashi K, Zou C, Ishihama A, et al. (November 1993). "A third recognition element in bacterial promoters: DNA binding by the alpha subunit of RNA polymerase". Science. 262 (5138): 1407–1413. Bibcode:1993Sci...262.1407R. doi:10.1126/science.8248780. PMID 8248780.
Estrem ST, Ross W, Gaal T, Chen ZW, Niu W, Ebright RH, Gourse RL (August 1999). "Bacterial promoter architecture: subsite structure of UP elements and interactions with the carboxy-terminal domain of the RNA polymerase alpha subunit". Genes & Development. 13 (16): 2134–2147. doi:10.1101/gad.13.16.2134. PMC 316962. PMID 10465790.
Adachi N, Lieber MR (June 2002). "Bidirectional gene organization: a common architectural feature of the human genome". Cell. 109 (7): 807–809. doi:10.1016/S0092-8674(02)00758-4. PMID 12110178.
Herbert M, Kolb A, Buc H (May 1986). "Overlapping promoters and their control in Escherichia coli: the gal case". Proceedings of the National Academy of Sciences of the United States of America. 83 (9): 2807–2811. Bibcode:1986PNAS...83.2807H. doi:10.1073/pnas.83.9.2807. PMC 323395. PMID 3010319.
Korbel JO, Jensen LJ, von Mering C, Bork P (July 2004). "Analysis of genomic context: prediction of functional associations from conserved bidirectionally transcribed gene pairs". Nature Biotechnology. 22 (7): 911–917. doi:10.1038/nbt988. PMID 15229555. S2CID 3546895.
Sneppen K, Dodd IB, Shearwin KE, Palmer AC, Schubert RA, Callen BP, Egan JB (February 2005). "A mathematical model for transcriptional interference by RNA polymerase traffic in Escherichia coli". Journal of Molecular Biology. 346 (2): 399–409. doi:10.1016/j.jmb.2004.11.075. PMID 15670592.
Martins L, Mäkelä J, Häkkinen A, Kandhavelu M, Yli-Harja O, Fonseca JM, Ribeiro AS (May 2012). "Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time". Journal of Theoretical Biology. 301: 83–94. Bibcode:2012JThBi.301...83M. doi:10.1016/j.jtbi.2012.02.015. PMID 22370562.
Häkkinen A, Oliveira SM, Neeli-Venkata R, Ribeiro AS (December 2019). "Transcription closed and open complex formation coordinate expression of genes with a shared promoter region". Journal of the Royal Society, Interface. 16 (161) 20190507. doi:10.1098/rsif.2019.0507. PMC 6936044. PMID 31822223.
Bordoy AE, Varanasi US, Courtney CM, Chatterjee A (December 2016). "Transcriptional Interference in Convergent Promoters as a Means for Tunable Gene Expression". ACS Synthetic Biology. 5 (12): 1331–1341. doi:10.1021/acssynbio.5b00223. PMID 27346626.
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ncbi.nlm.nih.gov

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Beagan JA, Pastuzyn ED, Fernandez LR, Guo MH, Feng K, Titus KR, et al. (June 2020). "Three-dimensional genome restructuring across timescales of activity-induced neuronal gene expression". Nature Neuroscience. 23 (6): 707–717. doi:10.1038/s41593-020-0634-6. PMC 7558717. PMID 32451484.
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Weintraub AS, Li CH, Zamudio AV, Sigova AA, Hannett NM, Day DS, et al. (December 2017). "YY1 Is a Structural Regulator of Enhancer-Promoter Loops". Cell. 171 (7): 1573–1588.e28. doi:10.1016/j.cell.2017.11.008. PMC 5785279. PMID 29224777.
Grossman SR, Engreitz J, Ray JP, Nguyen TH, Hacohen N, Lander ES (July 2018). "Positional specificity of different transcription factor classes within enhancers". Proceedings of the National Academy of Sciences of the United States of America. 115 (30): E7222 – E7230. Bibcode:2018PNAS..115E7222G. doi:10.1073/pnas.1804663115. PMC 6065035. PMID 29987030.
Allen BL, Taatjes DJ (March 2015). "The Mediator complex: a central integrator of transcription". Nature Reviews. Molecular Cell Biology. 16 (3): 155–166. doi:10.1038/nrm3951. PMC 4963239. PMID 25693131.
Mikhaylichenko O, Bondarenko V, Harnett D, Schor IE, Males M, Viales RR, Furlong EE (January 2018). "The degree of enhancer or promoter activity is reflected by the levels and directionality of eRNA transcription". Genes & Development. 32 (1): 42–57. doi:10.1101/gad.308619.117. PMC 5828394. PMID 29378788.
Li QJ, Yang SH, Maeda Y, Sladek FM, Sharrocks AD, Martins-Green M (January 2003). "MAP kinase phosphorylation-dependent activation of Elk-1 leads to activation of the co-activator p300". The EMBO Journal. 22 (2): 281–291. doi:10.1093/emboj/cdg028. PMC 140103. PMID 12514134.
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Trinklein ND, Aldred SF, Hartman SJ, Schroeder DI, Otillar RP, Myers RM (January 2004). "An abundance of bidirectional promoters in the human genome". Genome Research. 14 (1): 62–66. doi:10.1101/gr.1982804. PMC 314279. PMID 14707170.
Yang MQ, Koehly LM, Elnitski LL (April 2007). "Comprehensive annotation of bidirectional promoters identifies co-regulation among breast and ovarian cancer genes". PLOS Computational Biology. 3 (4) e72. Bibcode:2007PLSCB...3...72Y. doi:10.1371/journal.pcbi.0030072. PMC 1853124. PMID 17447839.
Liu B, Chen J, Shen B (May 2011). "Genome-wide analysis of the transcription factor binding preference of human bi-directional promoters and functional annotation of related gene pairs". BMC Systems Biology. 5 (Suppl 1) S2. doi:10.1186/1752-0509-5-S1-S2. PMC 3121118. PMID 21689477.
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Mahpour A, Scruggs BS, Smiraglia D, Ouchi T, Gelman IH (2018-10-17). "A methyl-sensitive element induces bidirectional transcription in TATA-less CpG island-associated promoters". PLOS ONE. 13 (10) e0205608. Bibcode:2018PLoSO..1305608M. doi:10.1371/journal.pone.0205608. PMC 6192621. PMID 30332484.
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Martinez, GS; Sarkar, S; Kumar, A; Pérez-Rueda, E; de Avila E Silva, S (October 2021). "Characterization of promoters in archaeal genomes based on DNA structural parameters". MicrobiologyOpen. 10 (5) e1230. doi:10.1002/mbo3.1230. PMC 8553660. PMID 34713600.
Koev G, Miller WA (July 2000). "A positive-strand RNA virus with three very different subgenomic RNA promoters". Journal of Virology. 74 (13): 5988–5996. doi:10.1128/jvi.74.13.5988-5996.2000. PMC 112095. PMID 10846080.
Umarov, RK; Solovyev, VV (2017). "Recognition of prokaryotic and eukaryotic promoters using convolutional deep learning neural networks". PLOS ONE. 12 (2) e0171410. Bibcode:2017PLoSO..1271410U. doi:10.1371/journal.pone.0171410. PMC 5291440. PMID 28158264.
deHaseth PL, Zupancic ML, Record MT (June 1998). "RNA polymerase-promoter interactions: the comings and goings of RNA polymerase". Journal of Bacteriology. 180 (12): 3019–3025. doi:10.1128/jb.180.12.3019-3025.1998. PMC 107799. PMID 9620948.
Saxonov S, Berg P, Brutlag DL (January 2006). "A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters". Proceedings of the National Academy of Sciences of the United States of America. 103 (5): 1412–1417. Bibcode:2006PNAS..103.1412S. doi:10.1073/pnas.0510310103. PMC 1345710. PMID 16432200.
Deaton AM, Bird A (May 2011). "CpG islands and the regulation of transcription". Genes & Development. 25 (10): 1010–1022. doi:10.1101/gad.2037511. PMC 3093116. PMID 21576262.

psu.edu (Global: 207^th place; English: 136^th place)

scholarsphere.psu.edu

Hossain A, Lopez E, Halper SM, Cetnar DP, Reis AC, Strickland D, et al. (December 2020). "Automated design of thousands of nonrepetitive parts for engineering stable genetic systems". Nature Biotechnology. 38 (12): 1466–1475. doi:10.1038/s41587-020-0584-2. PMID 32661437. S2CID 220506228.

sdsu.edu (Global: 3,103^rd place; English: 2,242^nd place)

sci.sdsu.edu

Maloy S. "Expression vectors". San Diego State University.

semanticscholar.org (Global: 11^th place; English: 8^th place)

api.semanticscholar.org

Korbel JO, Jensen LJ, von Mering C, Bork P (July 2004). "Analysis of genomic context: prediction of functional associations from conserved bidirectionally transcribed gene pairs". Nature Biotechnology. 22 (7): 911–917. doi:10.1038/nbt988. PMID 15229555. S2CID 3546895.
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Schoenfelder S, Fraser P (August 2019). "Long-range enhancer-promoter contacts in gene expression control". Nature Reviews. Genetics. 20 (8): 437–455. doi:10.1038/s41576-019-0128-0. PMID 31086298. S2CID 152283312.
Adachi N, Lieber MR (June 2002). "Bidirectional gene organization: a common architectural feature of the human genome". Cell. 109 (7): 807–809. doi:10.1016/S0092-8674(02)00758-4. PMID 12110178. S2CID 8556921.
Copland JA, Sheffield-Moore M, Koldzic-Zivanovic N, Gentry S, Lamprou G, Tzortzatou-Stathopoulou F, et al. (June 2009). "Sex steroid receptors in skeletal differentiation and epithelial neoplasia: is tissue-specific intervention possible?". BioEssays. 31 (6): 629–641. doi:10.1002/bies.200800138. PMID 19382224. S2CID 205469320.
Vlahopoulos SA, Logotheti S, Mikas D, Giarika A, Gorgoulis V, Zoumpourlis V (April 2008). "The role of ATF-2 in oncogenesis". BioEssays. 30 (4): 314–327. doi:10.1002/bies.20734. PMID 18348191. S2CID 678541.
Hossain A, Lopez E, Halper SM, Cetnar DP, Reis AC, Strickland D, et al. (December 2020). "Automated design of thousands of nonrepetitive parts for engineering stable genetic systems". Nature Biotechnology. 38 (12): 1466–1475. doi:10.1038/s41587-020-0584-2. PMID 32661437. S2CID 220506228.
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tau.ac.il (Global: 4,464^th place; English: 4,468^th place)

cs.tau.ac.il

Sharan R (4 January 2007). "Analysis of Biological Networks: Transcriptional Networks – Promoter Sequence Analysis" (PDF). Tel Aviv University. Retrieved 30 December 2012.