Searching journal content for articles similar to Mogno et al. 20 (10): 1391.

Displaying results 1-10 of 14

For checked items

view abstracts
download to citation manager

Select this article
Research: Noise–mean relationship in mutated promoters
- Gil Hornung,
- Raz Bar-Ziv,
- Dalia Rosin,
- Nobuhiko Tokuriki,
- Dan S. Tawfik,
- Moshe Oren,
- and Naama Barkai
Genome Res. December 2012 22: 2409-2417; Published in Advance July 20, 2012, doi:10.1101/gr.139378.112
...of eukaryotic protein synthesis by upstream open reading frames in the 59-untranslated region of an mRNA. Biochem J 367: 1–11. Mogno I, Vallania F, Mitra RD, Cohen BA. 2010. TATA is a modular component of synthetic promoters. Genome Res 20: 1391–1397. Murphy KF, Adams RM, Wang X, Bala´zsi G, Collins JJ. 2010...
OPEN ACCESS ARTICLE
Select this article
Method: Probing the effect of promoters on noise in gene expression using thousands of designed sequences
- Eilon Sharon,
- David van Dijk,
- Yael Kalma,
- Leeat Keren,
- Ohad Manor,
- Zohar Yakhini,
- and Eran Segal
Genome Res. October 2014 24: 1698-1706; Published in Advance July 16, 2014, doi:10.1101/gr.168773.113
...), and TATA boxes have little effect on noise (Mogno et al. 2010). However, due to the difficulties of constructing synthetic promoters, these studies were done on at most dozens of promoters. Thus, since no effective high-throughput method of measuring promoter-driven noise exists, the effect on noise...
Select this article
Method: Massively parallel synthetic promoter assays reveal the in vivo effects of binding site variants
- Ilaria Mogno,
- Jamie C. Kwasnieski,
- and Barak A. Cohen
Genome Res. November 2013 23: 1908-1915; Published in Advance August 6, 2013, doi:10.1101/gr.157891.113
..., Wang L, Rogov P, Feizi S, Gnirke A, Callan CG Jr, Kinney JB, et al. 2012. Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay. Nat Biotechnol 30: 271–277. Mogno I, Vallania F, Mitra RD, Cohen BA. 2010. TATA is a modular component...
Select this article
LETTER: Ecologic Genomics of DNA: Upstream Bending in Prokaryotic Promoters
- Alexander Bolshoy and
- Eviatar Nevo
Genome Res. August 1, 2000 10: 1185-1193; doi:10.1101/gr.10.8.1185
...is more homologous to that in Eukarya than to that in Bacteria ( Bell and Jackson 1998 ; Bell et al. 1998 ). Such homologues as between eukaryotic and archaeal TATA-binding proteins and between basal transcription factors TFIIB and TFB were mentioned. Curved DNA was implied among common DNA structural...
Select this article
Research: Core promoter sequence in yeast is a major determinant of expression level
- Shai Lubliner,
- Ifat Regev,
- Maya Lotan-Pompan,
- Sarit Edelheit,
- Adina Weinberger,
- and Eran Segal
Genome Res. July 2015 25: 1008-1017; Published in Advance May 12, 2015, doi:10.1101/gr.188193.114
...element received little attention. To study this, we first examined the effect of varying TATA box positions in a synthetic setting. As background sequences, we chose the native [−118,−1] regions of the PDC1 and the ENO2 promoters since they are highly expressed (Keren et al. 2013), have a TATA element...
Select this article
Research: High-throughput functional comparison of promoter and enhancer activities
- Thomas A. Nguyen,
- Richard D. Jones,
- Andrew R. Snavely,
- Andreas R. Pfenning,
- Rory Kirchner,
- Martin Hemberg,
- and Jesse M. Gray
Genome Res. August 2016 26: 1023-1033; Published in Advance June 16, 2016, doi:10.1101/gr.204834.116
...) that bind transcriptional activators (Guarente 1984). It also colocalizes with traditional core promoter regions (−40 to +40) that contain elements such as the TATA box and the INR, which facilitate RNA polymerase II initiation (Kadonaga 2012). However, whenwe compared the promoter activities of tiles...
Select this article
Perspective: Gene regulatory networks and the role of robustness and stochasticity in the control of gene expression
- Lesley T. MacNeil and
- Albertha J.M. Walhout
Genome Res. May 2011 21: 645-657; Published in Advance February 4, 2011, doi:10.1101/gr.097378.109
...gene promoters (Tirosh and Barkai 2008). Several studies suggest that gene architecture may also be an important determinant of gene expression noise. For instance, genes that are controlled by promoters that possess a TATA box are noisier in their expression (Becksei and Serrano 2000; Blake et al...
Select this article
Method: A universal framework for detecting cis-regulatory diversity in DNA regions
- Anushua Biswas and
- Leelavati Narlikar
Genome Res. September 2021 31: 1646-1662; Published in Advance July 19, 2021, doi:10.1101/gr.274563.120
...for differential enrichment of established fly promoter motifs. Here we have treated all regions together and note that the detected modules encode information about both motif enrichment and transcriptional activity. Modules characterized by the TATA box, INR, and DPE are significantly enriched with narrow...
Select this article
Research: Genetic control of the dynamic transcriptional response to immune stimuli and glucocorticoids at single-cell resolution
- Justyna A. Resztak,
- Julong Wei,
- Samuele Zilioli,
- Edward Sendler,
- Adnan Alazizi,
- Henriette E. Mair-Meijers,
- Peijun Wu,
- Xiaoquan Wen,
- Richard B. Slatcher,
- Xiang Zhou,
- Francesca Luca,
- and Roger Pique-Regi
Genome Res. June 2023 33: 839-856; Published in Advance July 13, 2023, doi:10.1101/gr.276765.122
...to this work. Corresponding authors: fluca@wayne.edu, rpique@wayne.eduAbstractSynthetic glucocorticoids, such as dexamethasone, have been used as a treatment for many immune conditions, such as asthma and, more recently, severe COVID-19. Single-cell data can capture more fine-grained details on transcriptional...
OPEN ACCESS ARTICLE
Select this article
Research: Local features determine Ty3 targeting frequency at RNA polymerase III transcription start sites
- Kurt Patterson,
- Farbod Shavarebi,
- Christophe Magnan,
- Ivan Chang,
- Xiaojie Qi,
- Pierre Baldi,
- Virginia Bilanchone,
- and Suzanne B. Sandmeyer
Genome Res. August 2019 29: 1298-1309; Published in Advance June 27, 2019, doi:10.1101/gr.240861.118
...).Investigations in vivo and in vitro showed that Ty3 integration is dependent on intact promoter elements of tDNAs, implicating transcription factors in targeting (Chalker and Sandmeyer 1992, 1993; Kirchner et al. 1995). Transcription of tDNAs by RNAP3 is mediated by general transcription factors TFIIIC...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Mogno et al. 20 (10): 1391.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: