OOIR: Observatory of International Research

Papers

(The H4-Index of Molecular Systems Biology is 37. 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
Ultra‐high sensitivity mass spectrometry quantifies single‐cell proteome changes upon perturbation	315
Probabilistic harmonization and annotation of single‐cell transcriptomics data with deep generative models	302
Integrated intra‐ and intercellular signaling knowledge for multicellular omics analysis	204
RNA velocity—current challenges and future perspectives	174
Benchmarking AlphaFold ‐enabled molecular docking predictions for antibiotic discovery	126
Mass spectrometry‐based protein–protein interaction networks for the study of human diseases	120
A single cell atlas of the human liver tumor microenvironment	112
hu.MAP 2.0: integration of over 15,000 proteomic experiments builds a global compendium of human multiprotein assemblies	105
Causal integration of multi‐omics data with prior knowledge to generate mechanistic hypotheses	96
From coarse to fine: the absolute Escherichia coli proteome under diverse growth conditions	95
Single‐cell analyses reveal SARS‐CoV‐2 interference with intrinsic immune response in the human gut	90
Reproducibility in systems biology modelling	75
Diagnostics and correction of batch effects in large‐scale proteomic studies: a tutorial	72
Protein complexes in cells by AI‐assisted structural proteomics	71
Towards a mechanistic understanding of reciprocal drug–microbiome interactions	71
Predicting cellular responses to complex perturbations in high‐throughput screens	69
Evaluating the Arrhenius equation for developmental processes	67
SARS‐CoV‐2–host proteome interactions for antiviral drug discovery	67
High‐efficiency delivery of CRISPR‐Cas9 by engineered probiotics enables precise microbiome editing	61
A guidebook for DISCO tissue clearing	61
Joint cell segmentation and cell type annotation for spatial transcriptomics	59
COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms	53
RNA polymerase II clusters form in line with surface condensation on regulatory chromatin	52
Proteome‐scale mapping of binding sites in the unstructured regions of the human proteome	51
Suboptimal resource allocation in changing environments constrains response and growth in bacteria	46

Proteome constraints reveal targets for improving microbial fitness in nutrient‐rich environments	46
Enabling high‐throughput biology with flexible open‐source automation	46
Conjugation dynamics depend on both the plasmid acquisition cost and the fitness cost	46
Updated benchmarking of variant effect predictors using deep mutational scanning	45
Sequence analysis of tyrosine recombinases allows annotation of mobile genetic elements in prokaryotic genomes	44
A genome‐scale yeast library with inducible expression of individual genes	44
HMGB1 coordinates SASP‐related chromatin folding and RNA homeostasis on the path to senescence	44
DOMINO: a network‐based active module identification algorithm with reduced rate of false calls	43
The genotype‐phenotype landscape of an allosteric protein	41
The transcriptome dynamics of single cells during the cell cycle	41
Global coordination of metabolic pathways in Escherichia coli by active and passive regulation	38
Changes in chromatin accessibility are not concordant with transcriptional changes for single‐factor perturbations	37