OOIR: Observatory of International Research

Papers

(The TQCC of Biochimica et Biophysica Acta-Gene Regulatory Mechanisms is 8. 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 2020-05-01 to 2024-05-01.)

Article	Citations
Non-coding RNA regulatory networks	254
Transfer of regulatory knowledge from human to mouse for functional genomics analysis	92
Gene regulatory network inference resources: A practical overview	87
Understanding the interplay between CpG island-associated gene promoters and H3K4 methylation	82
sRNA-mediated control in bacteria: An increasing diversity of regulatory mechanisms	78
Prevalence of small base-pairing RNAs derived from diverse genomic loci	62
A paradigm shift in medicine: A comprehensive review of network-based approaches	57
From start to end: Phase separation and transcriptional regulation	50
Close to the edge: Heterochromatin at the nucleolar and nuclear peripheries	50
GCN5 acetyltransferase in cellular energetic and metabolic processes	40
Regulation of RNA processing and degradation in bacteria	39
Gaussian and Mixed Graphical Models as (multi-)omics data analysis tools	38
The Sponge RNAs of bacteria – How to find them and their role in regulating the post-transcriptional network	35
RNA-binding activity and regulatory functions of the emerging sRNA-binding protein ProQ	35
The complex activities of the SET1/MLL complex core subunits in development and disease	32
Sequence and chromatin determinants of transcription factor binding and the establishment of cell type-specific binding patterns	29
Bacterial RNA in extracellular vesicles: A new regulator of host-pathogen interactions?	27
Inference of plant gene regulatory networks using data-driven methods: A practical overview	24
The molecular functions of common and atypical MLL fusion protein complexes	23
Insights on the regulation of the MLL/SET1 family histone methyltransferases	23
What do the structures of GCN5-containing complexes teach us about their function?	22
Transcriptomic landscape, gene signatures and regulatory profile of aging in the human brain	22
Regulatory interplay between small RNAs and transcription termination factor Rho	21
Complex functions of Gcn5 and Pcaf in development and disease	21
Copper stress induces zebrafish central neural system myelin defects via WNT/NOTCH-hoxb5b signaling and pou3f1/fam168a/fam168b DNA methylation	20

Non-histone protein acetylation by the evolutionarily conserved GCN5 and PCAF acetyltransferases	19
Crosstalk of promoter and terminator during RNA polymerase II transcription cycle	18
Japanese Encephalitis Virus exploits microRNA-155 to suppress the non-canonical NF-κB pathway in human microglial cells	17
SAGA and TFIID: Friends of TBP drifting apart	17
Interoperable RNA-Seq analysis in the cloud	17
The biochemical and genetic discovery of the SAGA complex	16
R-loop and its functions at the regulatory interfaces between transcription and (epi)genome	15
Molecular basis of transcriptional pausing, stalling, and transcription-coupled repair initiation	15
Multifaceted activities of the plant SAGA complex	15
Gene Ontology representation for transcription factor functions	15
Chromatin structure meets cryo-EM: Dynamic building blocks of the functional architecture	15
Cap-independent translation initiation of the unspliced RNA of retroviruses	15
MLL-rearranged infant leukaemia: A ‘thorn in the side’ of a remarkable success story	14
A GO catalogue of human DNA-binding transcription factors	14
The molecular basis of selective DNA binding by the BRG1 AT-hook and bromodomain	14
The interaction between the F55 virus-encoded transcription regulator and the RadA host recombinase reveals a common strategy in Archaea and Bacteria to sense the UV-induced damage to the host DNA	14
The Ada2/Ada3/Gcn5/Sgf29 histone acetyltransferase module	14
WT1 activates transcription of the splice factor kinase SRPK1 gene in PC3 and K562 cancer cells in the absence of corepressor BASP1	14
Structural insights into piRNA biogenesis	14
Cre-mediated, loxP independent sequential recombination of a tripartite transcriptional stop cassette allows for partial read-through transcription	13
The MLL/SET family and haematopoiesis	13
Deletion of bglC triggers a genetic compensation response by awakening the expression of alternative beta-glucosidase	13
CREB-binding protein regulates metamorphosis and compound eye development in the yellow fever mosquito, Aedes aegypti	13
Bacterial growth physiology and RNA metabolism	13
Drosophila architectural protein CTCF is not essential for fly survival and is able to function independently of CP190	12
The role of SETD1A and SETD1B in development and disease	12
The reciprocal world of MLL fusions: A personal view	12
Keeping RNA polymerase II on the run: Functions of MLL fusion partners in transcriptional regulation	12
Transcription initiation as a control point in plastid gene expression	12
Chemical biology and pharmacology of histone lysine methylation inhibitors	12
Epigenetic modifications of histones during osteoblast differentiation	11
Impaired cell migration and structural defects in myeloid cells overexpressing miR-30b and miR-142-3p	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
ABI3 mediated repression of RAV1 gene expression promotes efficient dehydration stress response in Arabidopsis thaliana	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
Ser392 phosphorylation modulated a switch between p53 and transcriptional condensates	10
The 3D genomic landscape of differential response to EGFR/HER2 inhibition in endocrine-resistant breast cancer cells	10
Long non-coding RNA366.2 controls endometrial epithelial cell proliferation and migration by upregulating WNT6 as a ceRNA of miR-1576 in sheep uterus	10
TOPORS, a tumor suppressor protein, contributes to the maintenance of higher-order chromatin architecture	9
Transcriptional responses of four slc30a/znt family members and their roles in Zn homeostatic modulation in yellow catfish Pelteobagrus fulvidraco	9
A survey of transcripts generated by spinal muscular atrophy genes	9
The SAGA continues: The rise of cis- and trans-histone crosstalk pathways	9
Inferring biosynthetic and gene regulatory networks from Artemisia annua RNA sequencing data on a credit card-sized ARM computer	9
Transcriptional regulation by the KMT2 histone H3K4 methyltransferases	9
Core-clock genes Period 1 and 2 regulate visual cascade and cell cycle components during mouse eye development	9
Novel therapeutic strategies for MLL-rearranged leukemias	8
Nuclear accumulation of MKL1 in luminal breast cancer cells impairs genomic activity of ERα and is associated with endocrine resistance	8
The Gcn5 complexes in Drosophila as a model for metazoa	8
Sp4 controls constitutive expression of neuronal serine racemase and NF-E2-related factor-2 mediates its induction by valproic acid	8
The lysine demethylase KDM4A controls the cell-cycle expression of replicative canonical histone genes	8

Differential requirements for different subfamilies of the mammalian SWI/SNF chromatin remodeling enzymes in myoblast cell cycle progression and expression of the Pax7 regulator	8
ELL-associated factors EAF1/2 negatively regulate HIV-1 transcription through inhibition of Super Elongation Complex formation	8
Histone acetyltransferase Gcn5 regulates gene expression by promoting the transcription of histone methyltransferase SET1	8