Epigenetics Update - Unstructured transcription factor interactions enable emergent specificity bit.ly/3PcnCE2

Robert Tjian and Thomas G. W. Graham (University of California, Berkeley) in Science

#Epigenetics #TranscriptionFactors
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Gain deeper insights into gene regulation; epigenometech.com

#GrassResearch
26 LpHSF genes in perennial ryegrass regulate multi-abiotic stress responses via hormone and tissue-specific signaling.
Details: maxapress.com/article/doi/10.48130/gra...
#StressResilience #TranscriptionFactors #TurfgrassGenomics

FEBS Press Native holdup allows the quantitative determination of affinities between full-length transcription factors and DNA. Mutations in either the protein or the DNA can modulate binding strength, which ca...

Excited to share our new paper on DNA-native holdup!
An updated method to measure DNA–protein binding affinities at high throughput - even for full-length transcription factors. @teamgogl.bsky.social

#TranscriptionFactors #GATA1 #ProteinDNA #Biophysics #Genomics #MolecularBiology #OpenScience

#VegetableRes
Six AIL transcription factors identified in cucumber regulate tissue-specific growth & stress response. CsAIL1 may interact with ethylene signaling.
Details: maxapress.com/article/doi/10.48130/veg...
#Cucumber #TranscriptionFactors

Cloning and functional analysis of the lobed-leaf gene BjA10.LL in Brassica juncea L. - Stress Biology Leaf shape plays a crucial role in plant growth and development. Among various leaf traits, marginal lobation serves as an ideal morphological marker for breeding programs. However, the genetic mechan...

Cloning and functional analysis of the lobed-leaf gene BjA10.LL in Brassica juncea L.

Jiajia Liu, Yunyun Ma ... Yuan Guo, Mingxun Chen

link.springer.com/article/10.1...

#BrassicaJuncea #TranscriptionFactors #MapBasedCloning #CropImprovement

#FruitRes
Recent review highlights transcription factors that suppress anthocyanin biosynthesis in crops, offering new tools for precise color & quality control.
Details: maxapress.com/article/doi/10.48130/fru...
#Anthocyanins #TranscriptionFactors

🎆 Happy new year and our first 2026 issue is out!
Cover: #epiblast development

👉Perspective: biological clocks
👉Review: #mitosis #CellDeath #inflammation
🔬 #chromatin #cancer #Bcells #Tcells #autophagy #organoids #mechanobiology #TranscriptionFactors #Xist & more!

www.nature.com/ncb/volumes/...

Conservation of non-consensus nucleotides in transcription factor binding sites Transcription factors (TFs) affect gene expression by binding to their sites (TFBSs) in the genome. As regulation of transcription is essential for the optimization of metabolism, evolution of TFBSs i...

Conservation of non-consensus nucleotides in transcription factor binding sites
doi.org/10.64898/202...

Automatic identification and annotation of MYB gene family members in plants
doi.org/10.1101/2021...

#TranscriptionFactors #GeneExpression

Transcription factors play key roles in metabolic dysfunction–associated fatty liver disease (MAFLD), driving inflammation, fibrosis, and metabolic imbalance while pointing to new therapeutic options.
#MAFLD #TranscriptionFactors #Metabolism #Inflammation
www.sciencedirect.com/science/arti...

Lineage-determining transcription factors constrain cohesin to drive multi-enhancer oncogene regulation - Nature Cell Biology Zhou, Jay et al. report that in mantle cell lymphoma and T cell leukaemia, lineage-determining transcription factors share a mechanism to regulate how multiple enhancers control oncogene expression th...

☕Zhou, Jay et al. report that in mantle cell #lymphoma and T cell #leukemia, lineage-determining #TranscriptionFactors share a mechanism to regulate how multiple enhancers control oncogene expression through topological conformation and interaction.
👉https://rdcu.be/eVPIk
bit.ly/4p3cBAT

Transcription factors instruct DNA methylation patterns in plant reproductive tissues - Nature Cell Biology Xu et al. identify REPRODUCTIVE MERISTEM transcription factors that are required for RNA-directed DNA methylation at CLASSY3 target loci in male and female reproductive tissues of Arabidopsis.

☕Xu et al. identify REPRODUCTIVE MERISTEM #TranscriptionFactors that are required for RNA-directed #DNAmethylation at CLASSY3 target loci in male and female reproductive tissues of Arabidopsis.
bit.ly/4iYqr6d

New research article from Dr. Ajay Kumar Mahoto's Lab on Genome-wide study in grain amaranth, identifying 70 NAC transcription factors, revealing their structural diversity and regulatory potential.

Read more: nature.com/articles/s41...

@springernature.com

#amaranth #transcriptionfactors

Transcription factors (TFs) involved in alcoholic liver disease (ALD)

This review highlights how #TranscriptionFactors drive lipid dysregulation, #Inflammation, #OxidativeStress, #Fibrosis, & metabolic imbalance in #AlcoholicLiverDisease, and outlines emerging TF-targeted therapeutic strategies to improve ALD management.

Read: doi.org/10.1007/s115...

Transcription factor prediction using protein 3D secondary structures AbstractMotivation. Transcription factors (TFs) are DNA-binding proteins that regulate gene expression. Traditional methods predict a protein as a TF if th

🎄 The first light on our holiday research tree: StrucTFactor! This deep learning method predicts #TranscriptionFactors using 3D structure, shining 17% brighter than existing methods. ✨
#CoSyAdventcalender

🎁 Learn more: academic.oup.com/bioinformati...

Sign In An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms

Depleting #ChromatinRegulators, #DNAmodifyingEnzymes & #TranscriptionFactors linked to #AutismSpectrumDisorder as experimental approaches to decipher mechanisms genome.cshlp.org/content/earl... #TranslationalScience

#FAIRData #bioinformatics #naturalproducts #plantmetabolism #computationalbiology #genomics #plantiSMASH #OpenScience #biorxiv #antiSMASH
#plantscience #specializedmetabolism #biosyntheticgeneclusters #transcriptionfactors #webserver #compbio @antismash.bsky.social

#BPR
Study identifies 100 CsNAC genes in tea; shading boosts chlorophyll & amino acids but lowers polyphenols, with CsNAC65 highly induced.
Details: maxapress.com/article/doi/10.48130/bpr...
#TeaQuality #TranscriptionFactors

This study shows that in #testicular #DLBCL, exhausted T cells cluster around #Tumor B cells, encircled by #Macrophages & targeting #TranscriptionFactors E2F & CREB may unlock new avenues for DLBCL intervention. #medsky

#OpenAccess: www.sciencedirect.com/science/arti...

Big pharma seduced by transcription factors again. What has changed? - Nature Biotechnology Long considered undruggable, transcription factors have finally become fair game for a clutch of innovative biotechs who are combining biological insights with innovative chemistry to bring into play ...

Are #TranscriptionFactors no longer "undruggable"? Recent innovations in small molecule chemistry, peptide design, #chemoproteomics, #structuralbiology make modulating #TranscriptionFactor activity possible ➡️
www.nature.com/articles/s41...

Identification of Transcriptional Regulators Using a Combined Disease Module Identification and Prize-Collecting Steiner Tree Approach Transcription factors play important roles in maintaining normal biological function, and their dysregulation can lead to the development of diseases.

📣 New Article from Network and Systems Medicine on #ScienceOpen!

🆕📄 'Identification of Transcriptional Regulators Using a Combined Disease Module Identification and Prize-Collecting Steiner Tree Approach'

@repo4eu.bsky.social #NetworkMedicine #Bioinformatics #TranscriptionFactors

Profound study on #geneRegulation in E. coli: #transcriptionFactors generally stabilize interaction with RNA polymerase and thus reduce expression range across promoters -> better maintenance of homeostasis. www.science.org/doi/abs/10.1...

Rejuvenate Cells, Slow Aging - Jacob Kimmel and Dwarkesh Patel

#epigenome #transcriptionfactors

REM transcription factors and GDE1 shape the DNA methylation landscape through the recruitment of RNA polymerase IV transcription complexes - Nature Cell Biology Wu et al. demonstrate that REM transcription factors and GDE1 guide RNA polymerase IV to specific genomic loci, establishing a DNA sequence-dependent mechanism for siRNA biogenesis and DNA methylation...

🍹 @jacobsenucla.bsky.social & co demonstrated that REM #TranscriptionFactors and GDE1 guide RNA polymerase IV to specific #genomic loci, establishing a DNA sequence-dependent mechanism for siRNA biogenesis and DNA methylation patterning.
bit.ly/3Upx1Yf

Order of events induced by VND7.

#TansleyInsight: The role of VND #TranscriptionFactors in #xylem vessel development and secondary wall formation

Ulrike Lehmann & René Schneider 👇

📖 nph.onlinelibrary.wiley.com/doi/10.1111/...

#LatestIssue

Genetic factors explaining anthocyanin pigmentation differences - BMC Plant Biology Background Anthocyanins are important contributors to coloration across a wide phylogenetic range of plants. Biological functions of anthocyanins span from reproduction to protection against biotic an...

Genetic factors explaining anthocyanin pigmentation differences
doi.org/10.1186/s128...

#Evolution #PlantSci #Flavonoids #Anthocyanins #TranscriptionFactors #Mutation #SpecializedMetabolism

Automatic annotation of the bHLH gene family in plants - BMC Genomics Background The bHLH transcription factor family is named after the basic helix-loop-helix (bHLH) domain that is a characteristic element of their members. Understanding the function and characteristic...

Automatic annotation of the bHLH gene family in plants
doi.org/10.1186/s128...

#Bioinformatics #Genomics #PlantSci #TranscriptionFactors #DataScience #BigData

Three R2R3-MYB transcription factors from banana (Musa acuminata) activate structural anthocyanin biosynthesis genes as part of an MBW complex - BMC Research Notes Objective Bananas are one of the most popular fruits in the world, providing food security and employment opportunities in several developing countries. Increasing the anthocyanin content of banana fr...

Three R2R3-MYB transcription factors from banana (Musa spp.) activate structural anthocyanin biosynthesis genes as part of an MBW complex
doi.org/10.1186/s131...

#PlantSci #Genomics #Banana #Flavonoids #Anthocyanins #MYBs #CropScience #TranscriptionFactors

Vaccinium as a comparative system for understanding of complex flavonoid accumulation profiles and regulation in fruit Abstract. The genus Vaccinium L. (Ericaceae) contains premium berryfruit crops, including blueberry, cranberry, bilberry, and lingonberry. Consumption of V

Vaccinium as a comparative system for understanding of complex flavonoid accumulation profiles and regulation in fruit
doi.org/10.1093/plph...

#Berries #Flavonoids #MYB #bHLH #TranscriptionFactors #PlantSci #Crops #Review

The R2R3-MYB gene family in Cicer arietinum: genome-wide identification and expression analysis leads to functional characterization of proanthocyanidin biosynthesis regulators in the seed coat - Plan... Main conclusion We identified 119 typical CaMYB encoding genes and reveal the major components of the proanthocyanidin regulatory network. CaPARs emerged as promising targets for genetic engineering t...

The R2R3-MYB gene family in Cicer arietinum: genome-wide identification and expression analysis leads to functional characterization of proanthocyanidin biosynthesis regulators in the seed coat
doi.org/10.1007/s004...

#Genomics #Bioinformatics #TranscriptionFactors #MYB #GeneFamily #Flavonoids

Automatic identification and annotation of MYB gene family members in plants - BMC Genomics Background MYBs are among the largest transcription factor families in plants. Consequently, members of this family are involved in a plethora of processes including development and specialized metabo...

Automatic identification and annotation of MYB gene family members in plants
doi.org/10.1186/s128...

#Bioinformatics #PlantSci #Evolution #TranscriptionFactors #Genomics #Annotation