OOIR: Observatory of International Research

Papers

(The TQCC of Biochimica et Biophysica Acta-Gene Regulatory Mechanisms is 9. 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 2020-03-01 to 2024-03-01.)

Article	Citations
Non-coding RNA regulatory networks	242
The how and why of lncRNA function: An innate immune perspective	174
Transfer of regulatory knowledge from human to mouse for functional genomics analysis	90
Understanding the interplay between CpG island-associated gene promoters and H3K4 methylation	79
Gene regulatory network inference resources: A practical overview	79
sRNA-mediated control in bacteria: An increasing diversity of regulatory mechanisms	76
Prevalence of small base-pairing RNAs derived from diverse genomic loci	60
A paradigm shift in medicine: A comprehensive review of network-based approaches	56
Non-coding RNAs as potential therapeutic targets in breast cancer	54
From start to end: Phase separation and transcriptional regulation	47
Close to the edge: Heterochromatin at the nucleolar and nuclear peripheries	47
Circular RNAs in myogenesis	46
Riboswitch regulation mechanisms: RNA, metabolites and regulatory proteins	44
IsomiRs: Expanding the miRNA repression toolbox beyond the seed	38
GCN5 acetyltransferase in cellular energetic and metabolic processes	38
Regulation of RNA processing and degradation in bacteria	38
Gaussian and Mixed Graphical Models as (multi-)omics data analysis tools	35
The Sponge RNAs of bacteria – How to find them and their role in regulating the post-transcriptional network	34
RNA-binding activity and regulatory functions of the emerging sRNA-binding protein ProQ	34
The complex activities of the SET1/MLL complex core subunits in development and disease	32
Bacterial RNA in extracellular vesicles: A new regulator of host-pathogen interactions?	25
Sequence and chromatin determinants of transcription factor binding and the establishment of cell type-specific binding patterns	25
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	22

What do the structures of GCN5-containing complexes teach us about their function?	21
Transcriptomic landscape, gene signatures and regulatory profile of aging in the human brain	21
Adaptor proteins in long noncoding RNA biology	21
Regulatory interplay between small RNAs and transcription termination factor Rho	20
Copper stress induces zebrafish central neural system myelin defects via WNT/NOTCH-hoxb5b signaling and pou3f1/fam168a/fam168b DNA methylation	19
Non-histone protein acetylation by the evolutionarily conserved GCN5 and PCAF acetyltransferases	18
Crosstalk of promoter and terminator during RNA polymerase II transcription cycle	18
Complex functions of Gcn5 and Pcaf in development and disease	18
Role of long non-coding RNAs in metabolic control	17
Interoperable RNA-Seq analysis in the cloud	17
SAGA and TFIID: Friends of TBP drifting apart	16
MLL fusion proteins and transcriptional control	16
Regulation of mTOR signaling by long non-coding RNA	16
Japanese Encephalitis Virus exploits microRNA-155 to suppress the non-canonical NF-κB pathway in human microglial cells	16
Multifaceted activities of the plant SAGA complex	15
Molecular basis of transcriptional pausing, stalling, and transcription-coupled repair initiation	15
The biochemical and genetic discovery of the SAGA complex	15
Gene Ontology representation for transcription factor functions	15
R-loop and its functions at the regulatory interfaces between transcription and (epi)genome	14
Cap-independent translation initiation of the unspliced RNA of retroviruses	14
The Ada2/Ada3/Gcn5/Sgf29 histone acetyltransferase module	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
A GO catalogue of human DNA-binding transcription factors	14
Chromatin structure meets cryo-EM: Dynamic building blocks of the functional architecture	14
WT1 activates transcription of the splice factor kinase SRPK1 gene in PC3 and K562 cancer cells in the absence of corepressor BASP1	14
Cre-mediated, loxP independent sequential recombination of a tripartite transcriptional stop cassette allows for partial read-through transcription	13
Structural insights into piRNA biogenesis	13
The MLL/SET family and haematopoiesis	13
The molecular basis of selective DNA binding by the BRG1 AT-hook and bromodomain	13
MLL-rearranged infant leukaemia: A ‘thorn in the side’ of a remarkable success story	13
Deletion of bglC triggers a genetic compensation response by awakening the expression of alternative beta-glucosidase	13
Bacterial growth physiology and RNA metabolism	13
Keeping RNA polymerase II on the run: Functions of MLL fusion partners in transcriptional regulation	12
CREB-binding protein regulates metamorphosis and compound eye development in the yellow fever mosquito, Aedes aegypti	12
The role of SETD1A and SETD1B in development and disease	12
Chemical biology and pharmacology of histone lysine methylation inhibitors	12
The reciprocal world of MLL fusions: A personal view	11
Transcription initiation as a control point in plastid gene expression	11
Navigation through the twists and turns of RNA sequencing technologies: Application to bacterial regulatory RNAs	11
ABI3 mediated repression of RAV1 gene expression promotes efficient dehydration stress response in Arabidopsis thaliana	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
Epigenetic modifications of histones during osteoblast differentiation	10
Towards a deeper annotation of human lncRNAs	10
Drosophila architectural protein CTCF is not essential for fly survival and is able to function independently of CP190	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
Transcriptional responses of four slc30a/znt family members and their roles in Zn homeostatic modulation in yellow catfish Pelteobagrus fulvidraco	9
Ser392 phosphorylation modulated a switch between p53 and transcriptional condensates	9
The SAGA continues: The rise of cis- and trans-histone crosstalk pathways	9
The 3D genomic landscape of differential response to EGFR/HER2 inhibition in endocrine-resistant breast cancer cells	9
Inferring biosynthetic and gene regulatory networks from Artemisia annua RNA sequencing data on a credit card-sized ARM computer	9

A survey of transcripts generated by spinal muscular atrophy genes	9
Prion protein transcription is auto-regulated through dynamic interactions with G-quadruplex motifs in its own promoter	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
Impaired cell migration and structural defects in myeloid cells overexpressing miR-30b and miR-142-3p	9