Transcriptional control of gene expression

Section edited by Jean-Francois Beaulieu

This section will consider submissions that focus on the analysis of gene expression levels and patterns, transcription mechanisms and the regulation of transcription.

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  1. Research article

    Growth arrest specific gene 2 in tilapia (Oreochromis niloticus): molecular characterization and functional analysis under low-temperature stress

    Growth arrest specific 2 (gas2) gene is a component of the microfilament system that plays a major role in the cell cycle, regulation of microfilaments, and cell morphology during apoptotic processes. However, li...

    ChangGeng Yang, Fan Wu, Xing Lu, Ming Jiang, Wei Liu, Lijuan Yu, Juan Tian and Hua Wen

    BMC Molecular Biology 2017 18:18

    Published on: 17 July 2017

  2. Research article

    Identification of G-quadruplex structures that possess transcriptional regulating functions in the Dele and Cdc6 CpG islands

    G-quadruplex is a DNA secondary structure that has been shown to play an important role in biological systems. In a previous study, we identified 1998 G-quadruplex-forming sequences using a mouse CpG islands D...

    Daniyah H. Bay, Annika Busch, Fred Lisdat, Keisuke Iida, Kazunori Ikebukuro, Kazuo Nagasawa, Isao Karube and Wataru Yoshida

    BMC Molecular Biology 2017 18:17

    Published on: 27 June 2017

  3. Research article

    Mitochondrial RNA processing in absence of tRNA punctuations in octocorals

    Mitogenome diversity is staggering among early branching animals with respect to size, gene density, content and order, and number of tRNA genes, especially in cnidarians. This last point is of special interes...

    Gaurav G. Shimpi, Sergio Vargas, Angelo Poliseno and Gert Wörheide

    BMC Molecular Biology 2017 18:16

    Published on: 17 June 2017

  4. Research article

    Microarray expression profiling in the denervated hippocampus identifies long noncoding RNAs functionally involved in neurogenesis

    The denervated hippocampus provides a proper microenvironment for the survival and neuronal differentiation of neural progenitors. While thousands of lncRNAs were identified, only a few lncRNAs that regulate n...

    Bingying Deng, Xiang Cheng, Haoming Li, Jianbing Qin, Meiling Tian and Guohua Jin

    BMC Molecular Biology 2017 18:15

    Published on: 6 June 2017

  5. Research article

    Early growth response protein 1 regulates promoter activity of α-plasma membrane calcium ATPase 2, a major calcium pump in the brain and auditory system

    Along with sodium/calcium (Ca2+) exchangers, plasma membrane Ca2+ ATPases (ATP2Bs) are main regulators of intracellular Ca2+ levels. There are four ATP2B paralogs encoded by four different genes. Atp2b2 encodes t...

    Rebecca R. Minich, Jin Li and Bruce L. Tempel

    BMC Molecular Biology 2017 18:14

    Published on: 22 May 2017

  6. Research article

    Selective measurement of α smooth muscle actin: why β-actin can not be used as a housekeeping gene when tissue fibrosis occurs

    Prevalence of fibroproliferative diseases, including chronic kidney disease is rapidly increasing and has become a major public health problem worldwide. Fibroproliferative diseases are characterized by increa...

    Apor Veres-Székely, Domonkos Pap, Erna Sziksz, Eszter Jávorszky, Réka Rokonay, Rita Lippai, Kálmán Tory, Andrea Fekete, Tivadar Tulassay, Attila J. Szabó and Ádám Vannay

    BMC Molecular Biology 2017 18:12

    Published on: 27 April 2017

  7. Research article

    Identification of suitable reference genes for real-time quantitative PCR analysis of hydrogen peroxide-treated human umbilical vein endothelial cells

    Oxidative stress can induce cell injury in vascular endothelial cells, which is the initial event in the development of atherosclerosis. Although quantitative real-time polymerase chain reaction (qRT-PCR) has ...

    Tianyi Li, Hongying Diao, Lei Zhao, Yue Xing, Jichang Zhang, Ning Liu, Youyou Yan, Xin Tian, Wei Sun and Bin Liu

    BMC Molecular Biology 2017 18:10

    Published on: 5 April 2017

  8. Research article

    RUNX1 induces DNA replication independent active DNA demethylation at SPI1 regulatory regions

    SPI1 is an essential transcription factor (TF) for the hematopoietic lineage, in which its expression is tightly controlled through a −17-kb upstream regulatory region and a promoter region. Both regulatory re...

    Shubham Goyal, Takahiro Suzuki, Jing-Ru Li, Shiori Maeda, Mami Kishima, Hajime Nishimura, Yuri Shimizu and Harukazu Suzuki

    BMC Molecular Biology 2017 18:9

    Published on: 4 April 2017

    The Erratum to this article has been published in BMC Molecular Biology 2017 18:11

  9. Research article

    Properties of STAT1 and IRF1 enhancers and the influence of SNPs

    STAT1 and IRF1 collaborate to induce interferon-γ (IFNγ) stimulated genes (ISGs), but the extent to which they act alone or together is unclear. The effect of single nucleotide polymorphisms (SNPs) on in vivo ...

    Mohamed Abou El Hassan, Katherine Huang, Manoja B. K. Eswara, Zhaodong Xu, Tao Yu, Arthur Aubry, Zuyao Ni, Izzy Livne-bar, Monika Sangwan, Mohamad Ahmad and Rod Bremner

    BMC Molecular Biology 2017 18:6

    Published on: 9 March 2017

  10. Research article

    Identification of microRNAs and their response to the stress of plant allelochemicals in Aphis gossypii (Hemiptera: Aphididae)

    MicroRNAs (miRNAs) are a group of short non-coding RNAs involved in the inhibition of protein translation or in mRNA degradation. Although the regulatory roles of miRNAs in various biological processes have be...

    Kang-Sheng Ma, Fen Li, Ying Liu, Ping-Zhuo Liang, Xue-Wei Chen and Xi-Wu Gao

    BMC Molecular Biology 2017 18:5

    Published on: 16 February 2017

  11. Research article

    Binding affinity of five PBPs to Ostrinia sex pheromones

    Pheromone binding proteins (PBPs) of male Lepidoptera function in chemical communication, mate attraction and recognition. Directional selection was previously predicted between PBP3 orthologs of Ostrinia furnaca...

    Tiantao Zhang, Yaqi Sun, Kevin W. Wanner, Brad S. Coates, Kanglai He and Zhenying Wang

    BMC Molecular Biology 2017 18:4

    Published on: 7 February 2017

  12. Research article

    Transcriptional regulation of human sperm-associated antigen 16 gene by S-SOX5

    The mammalian sperm-associated antigen 16 gene (Spag16) uses alternative promoters to produce two major transcript isoforms (Spag16L and Spag16S) and encode proteins that are involved in the cilia/flagella format...

    Ling Zhang, Yunhao Liu, Wei Li, Qiaoling Zhang, Yanwei Li, Junpin Liu, Jie Min, Chaofan Shuang, Shizheng Song and Zhibing Zhang

    BMC Molecular Biology 2017 18:2

    Published on: 31 January 2017

  13. Research article

    RNA polymerase II depletion promotes transcription of alternative mRNA species

    Cells respond to numerous internal and external stresses, such as heat, cold, oxidative stress, DNA damage, and osmotic pressure changes. In most cases, the primary response to stress is transcriptional induct...

    Lijian Yu, Mayuri Rege, Craig L. Peterson and Michael R. Volkert

    BMC Molecular Biology 2016 17:20

    Published on: 30 August 2016

  14. Research article

    Stearoyl-CoA desaturase 1 expression is downregulated in liver and udder during E. coli mastitis through enhanced expression of repressive C/EBP factors and reduced expression of the inducer SREBP1A

    Stearoyl-CoA desaturase 1 (SCD1) desaturates long chain fatty acids and is therefore a key enzyme in fat catabolism. Its synthesis is downregulated in liver during illnesses caused by high levels of circulatin...

    Tianle Xu, Xiangzhen Shen and Hans-Martin Seyfert

    BMC Molecular Biology 2016 17:16

    Published on: 20 July 2016

  15. Research Article

    Confirmation of translatability and functionality certifies the dual endothelin1/VEGFsp receptor (DEspR) protein

    In contrast to rat and mouse databases, the NCBI gene database lists the human dual-endothelin1/VEGFsp receptor (DEspR, formerly Dear) as a unitary transcribed pseudogene due to a stop [TGA]-codon at codon#14 in ...

    Victoria L. M. Herrera, Martin Steffen, Ann Marie Moran, Glaiza A. Tan, Khristine A. Pasion, Keith Rivera, Darryl J. Pappin and Nelson Ruiz-Opazo

    BMC Molecular Biology 2016 17:15

    Published on: 14 June 2016

  16. Methodology article

    A reliable method for quantification of splice variants using RT-qPCR

    The majority of protein isoforms arise from alternative splicing of the encoding primary RNA transcripts. To understand the significance of single splicing events, reliable techniques are needed to determine t...

    Julia Camacho Londoño and Stephan E. Philipp

    BMC Molecular Biology 2016 17:8

    Published on: 15 March 2016

  17. Research article

    Knockdown of SALL4 inhibits the proliferation and reverses the resistance of MCF-7/ADR cells to doxorubicin hydrochloride

    Breast cancer is the most frequent malignancy in women and drug resistance is the major obstacle for its successful chemotherapy. In the present study, we analyzed the involvement of an oncofetal gene, sal-lik...

    Yuan-Yuan Chen, Zhi-Zhen Li, Yuan-Yuan Ye, Feng Xu, Rui-Jie Niu, Hong-Chen Zhang, Yi-Jian Zhang, Ying-Bin Liu and Bao-San Han

    BMC Molecular Biology 2016 17:6

    Published on: 2 March 2016

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