OOIR: Observatory of International Research

Papers

(The median citation count of Biochimica et Biophysica Acta-Gene Regulatory Mechanisms is 3. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-11-01 to 2024-11-01.)

Article	Citations
Close to the edge: Heterochromatin at the nucleolar and nuclear peripheries	67
From start to end: Phase separation and transcriptional regulation	60
GCN5 acetyltransferase in cellular energetic and metabolic processes	43
What do the structures of GCN5-containing complexes teach us about their function?	26
Complex functions of Gcn5 and Pcaf in development and disease	24
Non-histone protein acetylation by the evolutionarily conserved GCN5 and PCAF acetyltransferases	23
SAGA and TFIID: Friends of TBP drifting apart	22
Structural insights into piRNA biogenesis	21
Multifaceted activities of the plant SAGA complex	21
Chromatin structure meets cryo-EM: Dynamic building blocks of the functional architecture	20
Crosstalk of promoter and terminator during RNA polymerase II transcription cycle	20
Japanese Encephalitis Virus exploits microRNA-155 to suppress the non-canonical NF-κB pathway in human microglial cells	19
The biochemical and genetic discovery of the SAGA complex	19
Gene Ontology representation for transcription factor functions	19
R-loop and its functions at the regulatory interfaces between transcription and (epi)genome	18
The Ada2/Ada3/Gcn5/Sgf29 histone acetyltransferase module	18
Molecular basis of transcriptional pausing, stalling, and transcription-coupled repair initiation	17
Chemical biology and pharmacology of histone lysine methylation inhibitors	17
WT1 activates transcription of the splice factor kinase SRPK1 gene in PC3 and K562 cancer cells in the absence of corepressor BASP1	16
A GO catalogue of human DNA-binding transcription factors	16
Ser392 phosphorylation modulated a switch between p53 and transcriptional condensates	15
Drosophila architectural protein CTCF is not essential for fly survival and is able to function independently of CP190	14
Transcription initiation as a control point in plastid gene expression	14
Epigenetic modifications of histones during osteoblast differentiation	13
The SAGA continues: The rise of cis- and trans-histone crosstalk pathways	12

The 3D genomic landscape of differential response to EGFR/HER2 inhibition in endocrine-resistant breast cancer cells	12
Ubiquitination and deubiquitination: Implications on cancer therapy	12
Impaired cell migration and structural defects in myeloid cells overexpressing miR-30b and miR-142-3p	11
The Gcn5 complexes in Drosophila as a model for metazoa	11
Entanglement of MAPK pathways with gene expression and its omnipresence in the etiology for cancer and neurodegenerative disorders	11
Differential requirements for different subfamilies of the mammalian SWI/SNF chromatin remodeling enzymes in myoblast cell cycle progression and expression of the Pax7 regulator	10
METTL3 inhibition ameliorates liver damage in mouse with hepatitis B virus-associated acute-on-chronic liver failure by regulating miR-146a-5p maturation	10
Enhanced gene regulation by cooperation between mRNA decay and gene transcription	10
Crystal structure of the BRPF2 PWWP domain in complex with DNA reveals a different binding mode than the HDGF family of PWWP domains	10
Aberrant gene expression induced by a high fat diet is linked to H3K9 acetylation in the promoter-proximal region	9
Tumor-specific overexpression of histone gene, H3C14 in gastric cancer is mediated through EGFR-FOXC1 axis	9
Catalysis by protein acetyltransferase Gcn5	9
Transcriptional responses of four slc30a/znt family members and their roles in Zn homeostatic modulation in yellow catfish Pelteobagrus fulvidraco	9
Nucleo-cytoplasmic shuttling of RNA-binding factors: mRNA buffering and beyond	9
Metabolic substrates, histone modifications, and heart failure	9
The emerging roles of GCN5L1 in mitochondrial and vacuolar organelle biology	9
The VRK1 chromatin kinase regulates the acetyltransferase activity of Tip60/KAT5 by sequential phosphorylations in response to DNA damage	8
Proteomic approaches to study ubiquitinomics	8
CRISPRi-mediated depletion of Spt4 and Spt5 reveals a role for DSIF in the control of HIV latency	8
The linker histone Hho1 modulates the activity of ATP-dependent chromatin remodeling complexes	8
Pathogenic KDM5B variants in the context of developmental disorders	8
Identification of genome-wide targets and DNA recognition sequence of the Arabidopsis HMG-box protein AtHMGB15 during cold stress response	8
Sinomenine increases the methylation level at specific GCG site in mPGES-1 promoter to facilitate its specific inhibitory effect on mPGES-1	7
Enzymatic nucleosome acetylation selectively affects activity of histone methyltransferases in vitro	7
Molecular underpinnings of the early brain developmental response to differential feeding in the honey bee Apis mellifera	7
Network-driven discovery yields new insight into Shox2-dependent cardiac rhythm control	7
ExTRI: Extraction of transcription regulation interactions from literature	7
Nuclear receptor SHP dampens transcription function and abrogates mitotic chromatin association of PXR and ERα via intermolecular interactions	7
A large-scale analysis of codon usage bias in 4868 bacterial genomes shows association of codon adaptation index with GC content, protein functional domains and bacterial phenotypes	7
Hypoxia regulates allele-specific histone modification of the imprinted H19 gene	7
siRNA enrichment in Argonaute 2-depleted Blattella germanica	7
Sequence-dependent model of genes with dual σ factor preference	7
Function and regulation of the Spt-Ada-Gcn5-Acetyltransferase (SAGA) deubiquitinase module	7
Ubiquitination is a major modulator for the activation of inflammasomes and pyroptosis	7
Integration of transcription coregulator complexes with sequence-specific DNA-binding factor interactomes	7
Selenoprotein F (SELENOF)-mediated AKT1-FOXO3a-PYGL axis contributes to selenium supranutrition-induced glycogenolysis and lipogenesis	7
The emerging regulatory mechanisms and biological function of circular RNAs in skeletal muscle development	6
Cell cycle roles for GCN5 revealed through genetic suppression	6
Disease-associated non-coding variants alter NKX2-5 DNA-binding affinity	6
Sequence Ontology terminology for gene regulation	6
Polymorphisms rs55710213 and rs56334587 regulate SCD1 expression by modulating HNF4A binding	6
Protein post-translational modifications: A key factor in colorectal cancer resistance mechanisms	6
AURTHO: Autoregulation of transcription factors as facilitator of cis-acting element discovery	6
The N-degron pathway: From basic science to therapeutic applications	6
Competitive binding of TET1 and DNMT3A/B cooperates the DNA methylation pattern in human embryonic stem cells	6
Epigenetic oncogenesis, biomarkers and emerging chemotherapeutics for breast cancer	6
Identifying distinct heterochromatin regions using combinatorial epigenetic probes in live cells	6
TRIM25-mediated ubiquitination of G3BP1 regulates the proliferation and migration of human neuroblastoma cells	6
The promiscuity of the SAGA complex subunits: Multifunctional or moonlighting proteins?	6
The ATP-dependent SWI/SNF and RSC chromatin remodelers cooperatively induce unfolded protein response genes during endoplasmic reticulum stress	6

MicroRNAs mediated regulation of glutathione peroxidase 7 expression and its changes during adipogenesis	6
A membrane-bound cAMP receptor protein, SyCRP1 mediates inorganic carbon response in Synechocystis sp. PCC 6803	5
ERα-dependent estrogen-TNFα signaling crosstalk increases cisplatin tolerance and migration of lung adenocarcinoma cells	5
Genome-wide survey identifies TNNI2 as a target of KLF7 that inhibits chicken adipogenesis via downregulating FABP4	5
Multiple G-quadruplexes in the LMNA promoter regulate LMNA variant 6 transcription and promote colon cancer cell growth	5
Formalization of gene regulation knowledge using ontologies and gene ontology causal activity models	5
Epigenetic modification facilitates proline synthase PYCR1 aberrant expression in gastric cancer	5
Regulation of c-Kit gene transcription selectively by bisacridine derivative through promoter dual i-motif structures	5
HAT discovery: Heading toward an elusive goal with a key biological assist	5
Sirtuin4 impacts mitochondrial homeostasis in pancreatic cancer cells by reducing the stability of AlkB homolog 1 via deacetylation of the HRD1-SEL1L complex	5
The fine-tuned crosstalk between lysine acetylation and the circadian rhythm	4
Histone variant H2B.Z acetylation is necessary for maintenance of Toxoplasma gondii biological fitness	4
Inactivation of CbrAB two-component system hampers root colonization in rhizospheric strain of Pseudomonas aeruginosa PGPR2	4
HSF1-SELENOS pathway mediated dietary inorganic Se-induced lipogenesis via the up-regulation of PPARγ expression in yellow catfish	4
Identification of RBMX as a splicing regulator in Parkinsonian mimetic induced alternative splicing of α-synuclein	4
The functions of FOXP transcription factors and their regulation by post-translational modifications	4
Gcn5: The quintessential histone acetyltransferase	4
Unraveling the battle for lysine: A review of the competition among post-translational modifications	4
Insights on the biological functions and diverse regulation of RNA-binding protein 39 and their implication in human diseases	4
Post-translational modifications in stress granule and their implications in neurodegenerative diseases	4
DDX3X functionally and physically interacts with Estrogen Receptor-alpha	4
Rho-dependent transcription termination is the dominant mechanism in Mycobacterium tuberculosis	4
Multifaceted regulation of enhancers in cancer	4
NFI transcriptionally represses CDON and is required for SH-SY5Y cell survival	4
KDM5A noncanonically binds antagonists MLL1/2 to mediate gene regulation and promotes epithelial to mesenchymal transition	4
Modulation of Krüppel-like factors (KLFs) interaction with their binding partners in cancers through acetylation and phosphorylation	4
Histone acetyltransferase 1 (HAT1) acetylates hypoxia-inducible factor 2 alpha (HIF2A) to execute hypoxia response	4
RNA thermometers in bacteria: Role in thermoregulation	4
Dynamics of epigenetic control in plants via SET domain containing proteins: Structural and functional insights	4
Analysis of the proximal promoter of the human colon-specific B4GALNT2 (Sda synthase) gene: B4GALNT2 is transcriptionally regulated by ETS1	4
LncRNA lncAY is upregulated by sulfatide via Myb/MEF2C acetylation to promote the tumorigenicity of hepatocellular carcinoma cells	4
Viral regulation of mRNA export with potentials for targeted therapy	4
Novel splice variants of LINC00963 suppress colorectal cancer cell proliferation via miR-10a/miR-143/miR-217/miR-512-mediated regulation of PI3K/AKT and Wnt/β-catenin signaling pathways	4
AutoFAIR-A portal for automating FAIR assessments for bioinformatics resources	4
Dietary choline prevents high fat-induced disorder of hepatic cholesterol metabolism through SREBP-2/HNF-4α/CYP7A1 pathway in a freshwater teleost yellow catfish Pelteobagrus fulvidraco	4
Hereditary Vitamin D-Resistant Rickets (HVDRR) associated SNP variants of vitamin D receptor exhibit malfunctioning at multiple levels	4
New roles for elongation factors in RNA polymerase II ubiquitylation and degradation	3
The gene regulation knowledge commons: the action area of GREEKC	3
Regulation of SARS-CoV-2 infection and antiviral innate immunity by ubiquitination and ubiquitin-like conjugation	3
Disruption of the gene regulatory programme in neurodevelopmental disorders	3
From the comparative study of a circRNA originating from an mammalian ATXN2L intron to understanding the genesis of intron lariat-derived circRNAs	3
Sjögren Syndrome antigen B regulates LIN28-let-7 axis in Caenorhabditis elegans and human	3
N6-methyladenosine (m6A) methylation in kidney diseases: Mechanisms and therapeutic potential	3
Lisen&Curate: A platform to facilitate gathering textual evidence for curation of regulation of transcription initiation in bacteria	3
The association of the RSC remodeler complex with chromatin is influenced by the prefoldin-like Bud27 and determines nucleosome positioning and polyadenylation sites usage in Saccharomyces cerevisiae	3
Effect of CDK7 inhibitor on MYCN-amplified retinoblastoma	3
Dealing with different conceptions of pollution in the Gene Regulation Knowledge Commons	3
UBE4A catalyzes NRF1 ubiquitination and facilitates DDI2-mediated NRF1 cleavage	3
The moonlighting of RAD23 in DNA repair and protein degradation	3
Histone H4K20 monomethylation enables recombinant nucleosome methylation by PRMT1 in vitro	3
EP400NL is involved in PD-L1 gene activation by forming a transcriptional coactivator complex	3
Mechanisms behind polyphagia in a pest insect: Responses of Spodoptera frugiperda (J.E. Smith) strains to preferential and alternative larval host plants assessed with gene regulatory networks	3
Unexpected variations in posttranscriptional gene silencing induced by differentially produced dsRNAs in tobacco cells	3
The functional role of the eukaryote-specific motif YxxPKxYxK of the human ribosomal protein eS26 in translation	3
MicroRNA-27a-3p targeting Vangl1 and Vangl2 inhibits cell proliferation in mouse granulosa cells	3
“MiR-7 controls cholesterol biosynthesis through posttranscriptional regulation of DHCR24 expression”	3
The epigenetic regulation of the germinal center response	3
Damaged collagen detected by collagen hybridizing peptide as efficient diagnosis marker for early hepatic fibrosis	3
Quantitative proteomics revealed the transition of ergosterol biosynthesis and drug transporters processes during the development of fungal fluconazole resistance	3
The yeast mRNA-binding protein Cth2 post-transcriptionally modulates ergosterol biosynthesis in response to iron deficiency	3
The cellular pathways that maintain the quality control and transport of diverse potassium channels	3
Formation of aggresomes with hydrogel-like characteristics by proteasome inhibition	3