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    Academic Journals

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• Select Studies from Queen's University Update Current Data on DNA-Binding Proteins (Valproic acid increases NF-kappa B transcriptional activation despite decreasing DNA binding ability in P19 cells, which may play a role in VPA-initiated teratogenesis)

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  Studies from Queen's University Update Current Data on DNA-Binding Proteins (Valproic acid increases NF-kappa B transcriptional activation despite decreasing DNA binding ability in P19 cells, which may play a role in VPA-initiated teratogenesis)

  From:Obesity, Fitness & Wellness Week

  Jan. 13, 2018477 words Report 1410L2018 JAN 13 (NewsRx) -- By a News Reporter-Staff News Editor at Obesity, Fitness & Wellness Week -- Investigators publish new report on Proteins - DNA-Binding Proteins. According to news reporting out of Kingston,...
• Select Targeting Id protein interactions by an engineered HLH domain induces human neuroblastoma cell differentiation

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  Targeting Id protein interactions by an engineered HLH domain induces human neuroblastoma cell differentiation

  Authors:R. Ciarapica, D. Annibali, L. Raimondi, M. Savino, S. Nasi, and R. RotaFrom:Oncogene (Vol. 28, Issue 17) Peer-Reviewed

  Apr. 30, 20095,976 words Report Inhibitor of DNA-binding (Id) proteins prevent cell differentiation, promote growth and sustain tumour development. They do so by binding to E proteins and other transcription factors through the helix-loop-helix (HLH)...
• Select A domain-resolution map of in vivo DNA binding reveals the regulatory consequences of somatic mutations in zinc finger transcription factors (Updated June 16, 2020).

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  A domain-resolution map of in vivo DNA binding reveals the regulatory consequences of somatic mutations in zinc finger transcription factors (Updated June 16, 2020).

  From:Obesity, Fitness & Wellness Week

  July 4, 2020270 words Brief article 1380L2020 JUL 4 (NewsRx) -- By a News Reporter-Staff News Editor at Obesity, Fitness & Wellness Week -- According to news reporting based on a preprint abstract, our journalists obtained the following quote sourced from...
• Select H. Lee Moffitt Cancer Center Reports Findings in Oncogenetics (Inhibition of p53 DNA binding by a small molecule protects mice from radiation toxicity).

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  H. Lee Moffitt Cancer Center Reports Findings in Oncogenetics (Inhibition of p53 DNA binding by a small molecule protects mice from radiation toxicity).

  From:Obesity, Fitness & Wellness Week

  July 4, 2020512 words Article 1260L2020 JUL 4 (NewsRx) -- By a News Reporter-Staff News Editor at Obesity, Fitness & Wellness Week -- Researchers detail new data in Oncology - Oncogenetics. According to news reporting out of Tampa, Florida, by NewsRx...
• Select Computational study of associations between histone modification and protein-DNA binding in yeast genome by integrating diverse information

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  Computational study of associations between histone modification and protein-DNA binding in yeast genome by integrating diverse information

  Author:Junbai WangFrom:BMC Genomics (Vol. 12, Issue 1) Peer-Reviewed

  Apr. 1, 20116,452 words Article 1610LBackground In parallel with the quick development of high-throughput technologies, in vivo (vitro) experiments for genome-wide identification of protein-DNA interactions have been developed. Nevertheless, a few...
• Select G = MAT: Linking Transcription Factor Expression and DNA Binding Data

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  G = MAT: Linking Transcription Factor Expression and DNA Binding Data

  Authors:Konstantin Tretyakov, Sven Laur, and Jaak ViloFrom:PLoS ONE (Vol. 6, Issue 1) Peer-Reviewed

  Jan. 31, 20119,305 words Article 1440LTranscription factors are proteins that bind to motifs on the DNA and thus affect gene expression regulation. The qualitative description of the corresponding processes is therefore important for a better understanding...
• Select Genome-wide analyses of Shavenbaby target genes reveals distinct features of enhancer organization

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  Genome-wide analyses of Shavenbaby target genes reveals distinct features of enhancer organization

  Authors:Delphine Menoret, Marc Santolini, Isabelle Fernandes, Rebecca Spokony, Jennifer Zanet, Ignacio Gonzalez, et al.From:Genome Biology (Vol. 14, Issue 8) Peer-Reviewed

  Aug. 23, 20139,701 words Report 1590LBackground Developmental programs are implemented by regulatory interactions between Transcription Factors (TFs) and their target genes, which remain poorly understood. While recent studies have focused on regulatory...
• Select Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions

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  Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions

  Authors:Stewart MacArthur, Xiao-Yong Li, Jingyi Li, James B. Brown, Hou Cheng Chu, Lucy Zeng, et al.From:Genome Biology (Vol. 10) Peer-Reviewed

  July 23, 200913,579 words Report Authors: Stewart MacArthur (equal contributor) [1,6]; Xiao-Yong Li (equal contributor) [1,2]; Jingyi Li (equal contributor) [3]; James B Brown [3]; Hou Cheng Chu [1]; Lucy Zeng [1]; Brandi P Grondona [1]; Aaron Hechmer...
• Select Structure of the intact PPAR-[gamma]-RXR-[alpha] nuclear receptor complex on DNA

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  Structure of the intact PPAR-[gamma]-RXR-[alpha] nuclear receptor complex on DNA

  Authors:Vikas Chandra, Pengxiang Huang, Yoshitomo Hamuro, Srilatha Raghuram, Yongjun Wang, Thomas P. Burris, et al.From:Nature (Vol. 456, Issue 7220) Peer-Reviewed

  Nov. 20, 20085,732 words Report 1380LNuclear receptors are multi-domain transcription factors that bind to DNA elements from which they regulate gene expression. The peroxisome proliferator-activated receptors (PPARs) form heterodimers with the retinoid X...
• Select Oncogenic transformation by the FOX protein Qin requires DNA binding

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  Oncogenic transformation by the FOX protein Qin requires DNA binding

  Authors:Yan Ma, Douglas W Geerdes, and Peter K VogtFrom:Oncogene (Vol. 19, Issue 42) Peer-Reviewed

  Oct. 5, 20003,971 words Report Some functions of the Qin oncoprotein are not dependent on DNA binding. In order to test the requirement for DNA binding in Qin-induced oncogenic transformation, site directed mutations were introduced in the winged...
• Select Functional Analysis of a Dominant Negative Mutation of Interferon Regulatory Factor 5

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  Functional Analysis of a Dominant Negative Mutation of Interferon Regulatory Factor 5

  Authors:Long Yang, Tiejun Zhao, Xiaoliu Shi, Peyman Nakhaei, Yunling Wang, Qiang Sun, et al.From:PLoS ONE (Vol. 4, Issue 5) Peer-Reviewed

  May 11, 20096,874 words Article 1530LBackground Interferon regulatory factor (IRF) family members have been implicated as critical transcription factors that function in immune response, hematopoietic differentiation and cell growth regulation....
• Select Evidence of changes in protease sensitivity and subunit exchange rate on DNA binding by C/EBP

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  Evidence of changes in protease sensitivity and subunit exchange rate on DNA binding by C/EBP

  Authors:Jon D. Shuman, Charles R. Vinson, and Steven L. McKnightFrom:Science (Vol. 249, Issue 4970) Peer-Reviewed

  Aug. 17, 19903,226 words Article Evidence of Changes in Protease Sensitivity and Subunit Exchange Rate on DNA Binding by C/EBP THE TRANSCRIPTION FACTOR C/EBP regulates gene expression in a variety of tissues, including liver, adipose, lung, and...
• Select DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus

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  DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus

  Authors:Xiao Wang and James N CulverFrom:BMC Plant Biology (Vol. 12, Issue 1) Peer-Reviewed

  Aug. 31, 20127,646 words Report 1530LBackground Control of the host transcriptome represents a key battleground in the interaction of plants and pathogens. Specifically, plants have evolved complex defense systems that induce profound transcriptional...
• Select The male germ cell gene regulator CTCFL is functionally different from CTCF and binds CTCF-like consensus sites in a nucleosome composition-dependent manner

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  The male germ cell gene regulator CTCFL is functionally different from CTCF and binds CTCF-like consensus sites in a nucleosome composition-dependent manner

  Authors:Frank Sleutels, Widia Soochit, Marek Bartkuhn, Helen Heath, Sven Dienstbach, Philipp Bergmaier, et al.From:Epigenetics & Chromatin (Vol. 5, Issue 1) Peer-Reviewed

  June 18, 201213,744 words Report 1370LBackground CTCF is a highly conserved and essential zinc finger protein expressed in virtually all cell types. In conjunction with cohesin, it organizes chromatin into loops, thereby regulating gene expression and...
• Select HSA21 Single-Minded 2 (Sim2) Binding Sites Co-Localize with Super-Enhancers and Pioneer Transcription Factors in Pluripotent Mouse ES Cells

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  HSA21 Single-Minded 2 (Sim2) Binding Sites Co-Localize with Super-Enhancers and Pioneer Transcription Factors in Pluripotent Mouse ES Cells

  Authors:Audrey Letourneau, Gilda Cobellis, Alexandre Fort, Federico Santoni, Marco Garieri, Emilie Falconnet, et al.From:PLoS ONE (Vol. 10, Issue 5) Peer-Reviewed

  May 8, 20159,300 words Article 1500LThe HSA21 encoded Single-minded 2 (SIM2) transcription factor has key neurological functions and is a good candidate to be involved in the cognitive impairment of Down syndrome. We aimed to explore the functional...
• Select Structure-function analysis indicates that sumoylation modulates DNA-binding activity of STAT1

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  Structure-function analysis indicates that sumoylation modulates DNA-binding activity of STAT1

  Authors:Juha Gronholm, Sari Vanhatupa, Daniela Ungureanu, Jouni Valiaho, Tuomo Laitinen, Jarkko Valjakka, et al.From:BMC Biochemistry (Vol. 13, Issue 1) Peer-Reviewed

  Oct. 8, 20127,335 words Report 1450LBackground STAT1 is an essential transcription factor for interferon-[gamma]-mediated gene responses. A distinct sumoylation consensus site ([PSIKxE) .sup.702IKTE.sup.705 is localized in the C-terminal region of...
• Select ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos

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  ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos

  Authors:Thomas Sandmann, Janus S Jakobsen, and Eileen E M FurlongFrom:Nature Protocols (Vol. 1, Issue 6) Peer-Reviewed

  Jan. 200710,515 words Article 1480LThis protocol describes a method to detect in vivo associations between proteins and DNA in developing Drosophila embryos. It combines formaldehyde crosslinking and immunoprecipitation of protein-bound sequences with...
• Select Nuclear Receptor HNF4[alpha] Binding Sequences are Widespread in Alu Repeats

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  Nuclear Receptor HNF4[alpha] Binding Sequences are Widespread in Alu Repeats

  Authors:Eugene Bolotin, Karthikeyani Chellappa, Wendy Hwang-Verslues, Jake M. Schnabl, Chuhu Yang, and Frances M. SladekFrom:BMC Genomics (Vol. 12) Peer-Reviewed

  Nov. 15, 20118,915 words Report 1510LBackground Alu repeats, which account for ~10% of the human genome, were originally considered to be junk DNA. Recent studies, however, suggest that they may contain transcription factor binding sites and hence...
• Select The Molecular Mechanism of Leptin Secretion and Expression Induced by Aristolochic Acid in Kidney Fibroblast

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  The Molecular Mechanism of Leptin Secretion and Expression Induced by Aristolochic Acid in Kidney Fibroblast

  Authors:Tsung-Chieh Lin, Tien-Chiang Lee, Shih-Lan Hsu, and Chung-Shi YangFrom:PLoS ONE (Vol. 6, Issue 2) Peer-Reviewed

  Feb. 3, 20115,887 words Article 1420LBackground Leptin is a peptide hormone playing pivotal role in regulating food intake and energy expenditure. Growing evidence has suggested the pro-inflammatory and fibrogenic properties of leptin. In addition,...
• Select Dissecting the Relation between a Nuclear Receptor and GATA: Binding Affinity Studies of Thyroid Hormone Receptor and GATA2 on TSH[beta] Promoter

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  Dissecting the Relation between a Nuclear Receptor and GATA: Binding Affinity Studies of Thyroid Hormone Receptor and GATA2 on TSH[beta] Promoter

  Authors:Ana Carolina Migliorini Figueira, Igor Polikarpov, Dmitry Veprintsev, and Guilherme Martins SantosFrom:PLoS ONE (Vol. 5, Issue 9) Peer-Reviewed

  Sept. 7, 20108,251 words Article 1470LBackground Much is known about how genes regulated by nuclear receptors (NRs) are switched on in the presence of a ligand. However, the molecular mechanism for gene down-regulation by liganded NRs remains a...