OOIR: Observatory of International Research

Papers

(The TQCC of Journal of Structural Biology 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 2020-04-01 to 2024-04-01.)

Article	Citations
3D variability analysis: Resolving continuous flexibility and discrete heterogeneity from single particle cryo-EM	528
Mitigating local over-fitting during single particle reconstruction with SIDESPLITTER	75
Automated cryo-lamella preparation for high-throughput in-situ structural biology	67
Structural analysis of the putative SARS-CoV-2 primase complex	62
A streamlined workflow for automated cryo focused ion beam milling	60
Direct comparison of optical and electron microscopy methods for structural characterization of extracellular vesicles	57
Mollusc shellomes: Past, present and future	46
Cryo-FIB-SEM as a promising tool for localizing proteins in 3D	42
Mud in the blood: the role of protein-mineral complexes and extracellular vesicles in biomineralisation and calcification	38
Protein-water hydrogen-bond networks of G protein-coupled receptors: Graph-based analyses of static structures and molecular dynamics	35
Practical considerations for using K3 cameras in CDS mode for high-resolution and high-throughput single particle cryo-EM	33
Comparison of carbonate precipitation induced by Curvibacter sp. HJ-1 and Arthrobacter sp. MF-2: Further insight into the biomineralization process	32
Structure of the Yersinia injectisome in intracellular host cell phagosomes revealed by cryo FIB electron tomography	28
Crossfibrillar mineral tessellation in normal and Hyp mouse bone as revealed by 3D FIB-SEM microscopy	28
Alterations of bone material properties in adult patients with X-linked hypophosphatemia (XLH)	27
MicrographCleaner: A python package for cryo-EM micrograph cleaning using deep learning	27
CorRelator: Interactive software for real-time high precision cryo-correlative light and electron microscopy	25
Measuring collagen fibril diameter with differential interference contrast microscopy	24
Collecting large datasets of rotational electron diffraction with ParallEM and SerialEM	23
Light-coupled cryo-plunger for time-resolved cryo-EM	23
A graph-based approach identifies dynamic H-bond communication networks in spike protein S of SARS-CoV-2	23
Ellipsoidal mesoscale mineralization pattern in human cortical bone revealed in 3D by plasma focused ion beam serial sectioning	23
The architecture of GluD2 ionotropic delta glutamate receptor elucidated by cryo-EM	21
EMDA: A Python package for Electron Microscopy Data Analysis	21
Orientation patterns of aragonitic crossed-lamellar, fibrous prismatic and myostracal microstructures of modern Glycymeris shells	21

Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data	20
Phosphatidylserine controls calcium phosphate nucleation and growth on lipid monolayers: A physicochemical understanding of matrix vesicle-driven biomineralization	20
Montage electron tomography of vitrified specimens	19
Dual-axis Volta phase plate cryo-electron tomography of Ebola virus-like particles reveals actin-VP40 interactions	19
ScipionTomo: Towards cryo-electron tomography software integration, reproducibility, and validation	19
Atomic force microscopy imaging of delignified secondary cell walls in liquid conditions facilitates interpretation of wood ultrastructure	19
Mineral tessellation in bone and the stenciling principle for extracellular matrix mineralization	18
Cryo-EM analysis of the SctV cytosolic domain from the enteropathogenic E. coli T3SS injectisome	18
Nanobeam X-ray fluorescence and diffraction computed tomography on human bone with a resolution better than 120 nm	18
The shell matrix and microstructure of the Ram’s Horn squid: Molecular and structural characterization	18
Algorithmic robustness to preferred orientations in single particle analysis by CryoEM	18
A computer-simulated mechanism of familial Alzheimer’s disease: Mutations enhance thermal dynamics and favor looser substrate-binding to γ-secretase	18
Permutation testing of Fourier shell correlation for resolution estimation of cryo-EM maps	18
Insight into human Miro1/2 domain organization based on the structure of its N-terminal GTPase	17
A genetic model for the secretory stage of dental enamel formation	17
SARS-CoV and SARS-CoV-2 main protease residue interaction networks change when bound to inhibitor N3	17
Pathology of myelinated axons in the PLP-deficient mouse model of spastic paraplegia type 2 revealed by volume imaging using focused ion beam-scanning electron microscopy	17
It’s noisy out there! A review of denoising techniques in cryo-electron tomography	17
Multiscale structural evolution of citrate-triggered intrafibrillar and interfibrillar mineralization in dense collagen gels	17
3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy	16
Effect of charge on protein preferred orientation at the air–water interface in cryo-electron microscopy	16
Exploring high-resolution cryo-ET and subtomogram averaging capabilities of contemporary DEDs	16
Structural basis for inhibitory effects of Smad7 on TGF-β family signaling	15
Controls of nature: Secondary, tertiary, and quaternary structure of the enamel protein amelogenin in solution and on hydroxyapatite	15
Insights into dental mineralization from three heritable mineralization disorders	15
Morphological development of Pleurochrysis carterae coccoliths examined by cryo-electron tomography	15
The variable oligomeric state of Amuc_1100 from Akkermansia muciniphila	15
Opportunities for biomineralization research using multiscale computed X-ray tomography as exemplified by bone imaging	15
A cryo-tomography-based volumetric model of the actin core of mouse vestibular hair cell stereocilia lacking plastin 1	14
VHUT-cryo-FIB, a method to fabricate frozen hydrated lamellae from tissue specimens for in situ cryo-electron tomography	14
Structural insights into the NAD+-dependent formate dehydrogenase mechanism revealed from the NADH complex and the formate NAD+ ternary complex of the Chaetomium thermophilum enzyme	14
Deep learning for 3D imaging and image analysis in biomineralization research	14
High-resolution cryo-EM performance comparison of two latest-generation cryo electron microscopes on the human ribosome	14
Effects of chameleon dispense-to-plunge speed on particle concentration, complex formation, and final resolution: A case study using the Neisseria gonorrhoeae ribonucleotide reductase inactive complex	14
Markov state modeling of membrane transport proteins	13
Rapid tilt-series method for cryo-electron tomography: Characterizing stage behavior during FISE acquisition	13
ContinuousFlex: Software package for analyzing continuous conformational variability of macromolecules in cryo electron microscopy and tomography data	13
Multi-scale alignment of respiratory cilia and its relation to mucociliary function	13
Imaging biological samples by integrated differential phase contrast (iDPC) STEM technique	13
Structure of the cytoplasmic domain of SctV (SsaV) from the Salmonella SPI-2 injectisome and implications for a pH sensing mechanism	13
Protein-driven biomineralization: Comparing silica formation in grass silica cells to other biomineralization processes	13
ISCU interacts with NFU1, and ISCU[4Fe-4S] transfers its Fe-S cluster to NFU1 leading to the production of holo-NFU1	13
Multishot tomography for high-resolution in situ subtomogram averaging	13
Dual-axis STEM tomography at 200 kV: Setup, performance, limitations	12
DeepAlign, a 3D alignment method based on regionalized deep learning for Cryo-EM	12
A structural entropy index to analyse local conformations in intrinsically disordered proteins	12
Evolution and biomineralization of pteropod shells	12
In situ electron microscopy characterization of intracellular ion pools in mineral forming microalgae	12
Metallic support films reduce optical heating in cryogenic correlative light and electron tomography	12
The biological regulation of sea urchin larval skeletogenesis – From genes to biomineralized tissue	12

Structure-based design approach to rational site-directed mutagenesis of β-lactoglobulin	11
Calcite crystal orientation patterns in the bilayers of laminated shells of benthic rotaliid foraminifera	11
A disulfide-stabilised helical hairpin fold in acrorhagin I: An emerging structural motif in peptide toxins	11
Spike protein fusion loop controls SARS-CoV-2 fusogenicity and infectivity	11
KLT picker: Particle picking using data-driven optimal templates	11
Deep generative modeling for volume reconstruction in cryo-electron microscopy	11
DeepHelicon: Accurate prediction of inter-helical residue contacts in transmembrane proteins by residual neural networks	11
Cryo-EM structure of the cetacean morbillivirus nucleoprotein-RNA complex	11
Higher-order oligomerization of a chimeric αβγ bifunctional diterpene synthase with prenyltransferase and class II cyclase activities is concentration-dependent	11
A set of common movements within GPCR-G-protein complexes from variability analysis of cryo-EM datasets	11
Amelogenesis: Transformation of a protein-mineral matrix into tooth enamel	11
Structural ensemble and biological activity of DciA intrinsically disordered region	11
Unique three-dimensional structure of a fish pharyngeal jaw subjected to unusually high mechanical loads	11
Insights into the stability and substrate specificity of the E. coli aerobic β-oxidation trifunctional enzyme complex	10
TomoAlign: A novel approach to correcting sample motion and 3D CTF in CryoET	10
Small-angle neutron scattering solution structures of NADPH-dependent sulfite reductase	10
Structural characterization of a bat Adeno-associated virus capsid	10
Determination of secretory granule maturation times in pancreatic islet β-cells by serial block-face electron microscopy	10
Crystal structure of lactobacillar SpaC reveals an atypical five-domain pilus tip adhesin: Exposing its substrate-binding and assembly in SpaCBA pili	10
Characterization of the chalky layer-derived EGF-like domain-containing protein (CgELC) in the pacific oyster, Crassostrea gigas	10
Desmosomal protein structure and function and the impact of disease-causing mutations	10
External bone size identifies different strength-decline trajectories for the male human femora	10
Towards improved understanding of intersubunit interactions in modular polyketide biosynthesis: Docking in the enacyloxin IIa polyketide synthase	9
Structures of catalytic cycle intermediates of the Pyrococcus furiosus methionine adenosyltransferase demonstrate negative cooperativity in the archaeal orthologues	9
Genetic background dependent modifiers of craniosynostosis severity	9
TAPASS: Tool for annotation of protein amyloidogenicity in the context of other structural states	9
Embedding cells within nanoscale, rapidly mineralizing hydrogels: A new paradigm to engineer cell-laden bone-like tissue	9
The shell matrix of the european thorny oyster, Spondylus gaederopus: microstructural and molecular characterization	9
The ultrastructure of resurrection: Post-diapause development in an Antarctic freshwater copepod	9
Characterization of the growth plate-bone interphase region using cryo-FIB SEM 3D volume imaging	9
New insight on spatial localization and microstructures of calcite-aragonite interfaces in adult shell of Haliotis tuberculata: Investigations of wild and farmed abalones by FTIR and Raman mapping	9
Conformational switch that induces GDP release from Gi	9
Structural basis of the partially open central gate in the human CNGA1/CNGB1 channel explained by additional density for calmodulin in cryo-EM map	9
Structural principles of CRISPR-Cas enzymes used in nucleic acid detection	9
Porous assembly of an antifungal protein mediated by zinc and sulfonato-calix[8]arene	8
Epitope-Analyzer: A structure-based webtool to analyze broadly neutralizing epitopes	8
Crystalline and amorphous calcium carbonate as structural components of the Calappa granulata exoskeleton	8
Cryo-EM density maps adjustment for subtraction, consensus and sharpening	8
Correlations within polyprotein forced unfolding dwell-times introduce sequential dependency	8
Lattice micropatterning for cryo-electron tomography studies of cell-cell contacts	8
A novel approach to investigate the evolution of structured tandem repeat protein families by exon duplication	8
Insights into the oligomeric structure of the HIV-1 Vpu protein	8
Structural and dynamic insights into the HNH nuclease of divergent Cas9 species	8
Cryo-EM structure of AMP-PNP-bound human mitochondrial ATP-binding cassette transporter ABCB7	8
Structural analysis of the outer surface proteins from Borrelia burgdorferi paralogous gene family 54 that are thought to be the key players in the pathogenesis of Lyme disease	8
Probing intracellular vesicle trafficking and membrane remodelling by cryo-EM	8