OOIR: Observatory of International Research

Papers

(The H4-Index of Nucleic Acids Research is 137. 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 2022-06-01 to 2026-06-01.)

Article	Citations
Correction to ‘The European Genome-phenome Archive in 2021’	8188
Anti-CRISPR proteins function through thermodynamic tuning and allosteric regulation of CRISPR RNA-guided surveillance complex	6327
Tetramerization of deoxyadenosine kinase meets the demands of a DNA replication substrate challenge in Giardia intestinalis	4502
SV4GD: a comprehensive structural variation database specially for genetic diseases	3646
Correction to ‘linker histone H1 modulates defense priming and immunity in plants’	2995
Editor's note on ‘Depletion of TDP 43 overrides the need for exonic and intronic splicing enhancers in the human apoA-II gene’	2416
Immunoglobulin somatic hypermutation in a defined biochemical system recapitulates affinity maturation and permits antibody optimization	2130
Correction to ‘EMPIAR: The Electron Microscopy Public Image Archive’	2074
In vivo pathway optimization in yeast via loxpsym-mediated shuffling of upstream activating sequences	1987
A method for targeting a specified segment of DNA to a bacterial microorganelle	1875
A transcriptomic and proteomic map of primary human cell types	1839
The nascent polypeptide-associated complex (NAC) controls translation initiation in cis by recruiting nucleolin to the encoding mRNA	1766
GEAR: an integrated atlas of gene expression dynamics in Arabidopsis thaliana	1670
SmallBARNA 2026: a kingdom-wide bacterial sRNA resource	1623
Translation regulation of specific mRNAs by RPS26 C-terminal RNA-binding tail integrates energy metabolism and AMPK-mTOR signaling	1570
Internal RNA 2′-O-methylation on the HIV-1 genome impairs reverse transcription	1557
Flanking strand separation activity of RecA nucleoprotein filaments in DNA strand exchange reactions	1532
Human AGEs: an interactive spatio-temporal visualization and database of human archeogenomics	1469
Correction to ‘Re-establishment of H3K9me2 eliminates the transcriptional inhibition of ST18 on meiotic genes and orchestrates female germ cell development’	1420
Characterization of a MHYT domain-coupled transcriptional regulator that responds to carbon monoxide	1308
Correction to ‘DNA-protein Interactions at the Telomeric Repeats of Schizosaccharomyces Pombe’	1175
Yeast transcription factor Msn2 binds to G4 DNA	1126
Diverse RNA viral effectors converge on facilitation of AGO4 degradation to promote infection	1116
Quality-controlled R-loop meta-analysis reveals the characteristics of R-loop consensus regions	1105
Nanopores map the acid-base properties of a single site in a single DNA molecule	1095

Correction to ‘EMDB—the Electron Microscopy Data Bank’	1094
Allele-specific genomics decodes gene targets and mechanisms of the non-coding genome	1076
Quantifying the activity profile of ASO and siRNA conjugates in glioblastoma xenograft tumors in vivo	1022
Highly conserved ribosome biogenesis pathways between human and yeast revealed by the MDN1-NLE1 interaction and NLE1 containing pre-60S subunits	1010
Robust counterselection and advanced λRed recombineering enable markerless chromosomal integration of large heterologous constructs	974
CAID prediction portal: a comprehensive service for predicting intrinsic disorder and binding regions in proteins	936
EcCas6e-based antisense crRNA for gene repression and RNA editing in microorganisms	912
CapBuild: a cloud-native tool for adeno-associated virus capsid engineering	872
TTDB: a comprehensive Transcriptome Turnover Database for exploring mRNA stability	816
Evidence for a functional interaction between yeast Pol ε and PCNA in vivo	808
A second type of N7-guanine RNA cap methyltransferase in an unusual locus of a large RNA virus genome	790
The monomeric archaeal primase from Nanoarchaeum equitans harbours the features of heterodimeric archaeoeukaryotic primases and primes sequence-specifically	789
Expression of concern on ‘Dissecting the splicing mechanism of the Drosophila editing enzyme; dADAR ’	731
Metal ions govern coronavirus endoribonuclease activity	721
A scalable CRISPR-Cas9 gene editing system facilitates CRISPR screens in the malaria parasite Plasmodium berghei	677
Human DNA ligases I and III have stand-alone end-joining capability, but differ in ligation efficiency and specificity	613
Mbd4 and MutSα protect cells from spontaneous deamination of 5-methylcytosine	588
RoCi—a single-step multi-copy integration system based on rolling-circle replication	580
Correction to ‘DisProt in 2024: improving function annotation of intrinsically disordered proteins’	572
Structural insights into the biosynthetic mechanism of Nα-GlyT and 5-NmdU hypermodifications of DNA	569
The S. cerevisiae m6A-reader Pho92 promotes timely meiotic recombination by controlling key methylated transcripts	563
Regulatory and structural mechanisms of PvrA-mediated regulation of the PQS quorum-sensing system and PHA biosynthesis inPseudomonas aeruginosa	543
NucleoFind: a deep-learning network for interpreting nucleic acid electron density	539
Helical coiling of metaphase chromatids	526
Comprehensive analysis of PNA-based antisense antibiotics targeting various essential genes in uropathogenic Escherichia coli	515
DoriC 12.0: an updated database of replication origins in both complete and draft prokaryotic genomes	510
Characterization of gRNA-dependent and gRNA-independent off-target binding sites of PspCas13b and RfxCas13d in mammalian cells	505
RefMetaPlant: a reference metabolome database for plants across five major phyla	465
Monitoring drug–target interactions through target engagement-mediated amplification on arrays and in situ	463
Establishing an environment in which rigorous scientific inquiry is practiced: a personal journey	458
Characterization and decontamination of background noise in droplet-based single-cell protein expression data with DecontPro	431
Thumb-domain dynamics modulate the functional repertoire of DNA-Polymerase IV (DinB)	429
Post-replicative lesion processing limits DNA damage-induced mutagenesis	426
Multisite phosphorylation of the AML-linked C-terminal of nucleophosmin (NPM1) orchestrates protein stability, DNA binding and charge block-driven phase separation	425
Potent optogenetic regulation of gene expression in mammalian cells for bioproduction and basic research	420
Identification of key residues of the DNA glycosylase OGG1 controlling efficient DNA sampling and recruitment to oxidized bases in living cells	418
Visualization of Type IV-A1 CRISPR-mediated repression of gene expression and plasmid replication	416
gwSPADE: gene frequency-weighted reference-free deconvolution in spatial transcriptomics	414
An elevated level of the mRNA exporter Mex67-Mtr2 in nuclear mRNPs impairs nuclear mRNA export	411
DescribePROT in 2023: more, higher-quality and experimental annotations and improved data download options	406
EcoDrug PLUS: an advanced database for drug target conservation analysis and environmental risk assessment	387
Disruption of a six-nucleotide miRNA motif improves PKD1 dosage and ameliorates polycystic kidney disease	385
LysR-type regulator LrhA promotes CRISPR-Cas immunity in Escherichia coli	383
Uncoupling FRUITFULL’s functions through modification of a protein motif identified by co-ortholog analysis	376
Impact of bound ssRNA length on allostery in the Dengue Virus NS3 helicase	368
Structure and function of IWS1 in transcription elongation	359
DeepSpaceDB: a spatial transcriptomics atlas for interactive in-depth analysis of tissues and tissue microenvironments	346
Phosphorylation of the auxin signaling transcriptional repressor IAA15 by MPKs is required for the suppression of root development under drought stress in Arabidopsis	345
Unlocking the serine mischarging paradox and inhibiting lactyltransferase activity of AlaRS by a single-point mutation	333
Splice-modulating antisense oligonucleotides targeting a pathogenic intronic variant in adult polyglucosan body disease correct mis-splicing and restore enzyme activity in patient cells	323

A mutation-sensitive, multiplexed and amplification-free detection of nucleic acids by stretching single-molecule tandem hairpin probes	321
G-quadruplexes on chromosomal DNA negatively regulates topoisomerase 1 activity	318
Loosely-packed dynamical structures with partially-melted surface being the key for thermophilic argonaute proteins achieving high DNA-cleavage activity	317
The antiSMASH database version 5	313
Mutations on the surface of HDAC1 reveal molecular determinants of specific complex assembly and their requirement for gene regulation	302
FRAME: flap endonuclease 1-engineered PAM module for precise and sensitive modulation of CRISPR/Cas12a trans-cleavage activity	297
ZEB1 promotes non-homologous end joining double-strand break repair	296
RNA G-quadruplexes emerge from a compacted coil-like ensemble via multiple pathways	293
The quantitative impact of 3′UTRs on gene expression	286
Selective ablation of 3′ RNA ends and processive RTs facilitate direct cDNA sequencing of full-length host cell and viral transcripts	282
A subcellular selective APEX2-based proximity labeling used for identifying mitochondrial G-quadruplex DNA binding proteins	267
SigH stress response mediates killing of Mycobacterium tuberculosis by activating nitronaphthofuran prodrugs via induction of Mrx2 expression	257
Molecular determinants for recognition of serotonylated chromatin	254
Senataxin RNA/DNA helicase promotes replication restart at co-transcriptional R-loops to prevent MUS81-dependent fork degradation	252
DNA-PK is activated by SIRT2 deacetylation to promote DNA double-strand break repair by non-homologous end joining	251
Cas12a-assisted split crRNA complex for analysis and detection of diverse entities	247
Widespread effects of DNA methylation and intra-motif dependencies revealed by novel transcription factor binding models	246
Genome-encoded ABCF factors implicated in intrinsic antibiotic resistance in Gram-positive bacteria: VmlR2, Ard1 and CplR	243
The mechanism of lineage-specific tRNA recognition by bacterial tryptophanyl-tRNA synthetase and its implications for inhibitor discovery	242
Ribosomal quality control factors inhibit repeat-associated non-AUG translation from GC-rich repeats	240
The SMC5/6 complex: folding chromosomes back into shape when genomes take a break	238
Systemic approaches using single cell transcriptome reveal that C/EBPγ regulates autophagy under amino acid starved condition	233
A versatile and convenient tool for regulation of DNA strand displacement and post-modification on pre-fabricated DNA nanodevices	213
ZYP1-mediated recruitment of PCH2 to the synaptonemal complex remodels the chromosome axis leading to crossover restriction	210
Structural insights into the morpholino nucleic acid/RNA duplex using the new XNA builder Ducque in a molecular modeling pipeline	198
Genome-wide direct quantification of in vivo mutagenesis using high-accuracy paired-end and complementary consensus sequencing	196
scGRN: a comprehensive single-cell gene regulatory network platform of human and mouse	194
Constant trouble with prolines—navigating a global translation dilemma	193
High-throughput determination of RNA tertiary contact thermodynamics by quantitative DMS chemical mapping	192
Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast	191
scQTLbase: an integrated human single-cell eQTL database	189
Spatiotemporal dynamics of protamine–DNA condensation revealed by high-speed atomic force microscopy	186
METTL1 interacts with XPO5 to modulate pre-miRNA export	186
The MksG nuclease is the executing part of the bacterial plasmid defense system MksBEFG	184
Selective engineering of condensation properties of single-stranded DNA binding (SSB) protein via its intrinsically disordered linker region	183
Systematic discovery of DNA-binding tandem repeat proteins	176
Flap endonuclease Rad27 cleaves the RNA of R-loop structures to suppress telomere recombination	175
PHF8 facilitates transcription recovery following DNA double-strand break repair	172
Splitting the yeast centromere by recombination	169
High-density resolution of the Kaposi's sarcoma associated herpesvirus transcriptome identifies novel transcript isoforms generated by long-range transcription and alternative splicing	168
Cryo-EM reconstruction of the human 40S ribosomal subunit at 2.15 Å resolution	166
Bacterial natural transformation drives cassette shuffling and simplifies recombination in chromosomal integrons	164
Revisiting the model for coactivator recruitment: Med15 can select its target sites independent of promoter-bound transcription factors	163
HybridRNAbind: prediction of RNA interacting residues across structure-annotated and disorder-annotated proteins	160
Intrinsically disordered regions of tristetraprolin and DCP2 directly interact to mediate decay of ARE-mRNA	155
Aggrescan4D: structure-informed analysis of pH-dependent protein aggregation	155
Inhibition of histone acetyltransferase GCN5 by a transcription factor FgPacC controls fungal adaption to host-derived iron stress	154
Prediction of DNA i-motifs via machine learning	153
NCBI Taxonomy: enhanced access via NCBI Datasets	149
An in vivo parallelized reporter assay to uncover tissue-specific splicing regulatory sequences in a multicellular animal	148
PDBe: enhanced structural data exploration to facilitate discovery	147
Widely spaced and divergent inverted repeats become a potent source of chromosomal rearrangements in long single-stranded DNA regions	147
Human Ageing Genomic Resources: updates on key databases in ageing research	147
Trans-complementation by the RecB nuclease domain of RecBCD enzyme reveals new insight into RecA loading upon χ recognition	146
Bgee in 2024: focus on curated single-cell RNA-seq datasets, and query tools	146
YqeK governs the acquisition and removal of nucleoside tetraphosphate caps in Firmicutes	145
Nonequilibrium hybridization-driven CRISPR/Cas adapter with extended energetic penalty for discrimination of single-nucleotide variants	143
Diverse targets ofSMN2-directed splicing-modulating small molecule therapeutics for spinal muscular atrophy	143
NMPFamsDB: a database of novel protein families from microbial metagenomes and metatranscriptomes	142
MatrisomeDB 2.0: 2023 updates to the ECM-protein knowledge database	140
DriverDBv4: a multi-omics integration database for cancer driver gene research	139
RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB	137