OOIR: Observatory of International Research

Papers

(The TQCC of Molecular Omics is 5. 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 2020-10-01 to 2024-10-01.)

Article	Citations
Data-independent acquisition mass spectrometry (DIA-MS) for proteomic applications in oncology	123
Multi-omics data integration considerations and study design for biological systems and disease	104
Metabolomics: small molecules that matter more	85
Metabolomics in infectious diseases and drug discovery	76
Context contribution to the intermolecular recognition of human ACE2-derived peptides by SARS-CoV-2 spike protein: implications for improving the peptide affinity but not altering the peptide specific	43
Data-independent acquisition-based proteome and phosphoproteome profiling across six melanoma cell lines reveals determinants of proteotypes	28
The robust NMR toolbox for metabolomics	24
Cerebrospinal fluid lipidomics for biomarkers of Alzheimer's disease	22
Plant proteomic research for improvement of food crops under stresses: a review	22
Mechanistic models of microbial community metabolism	22
Determination of hypoxia signature to predict prognosis and the tumor immune microenvironment in melanoma	21
Glycomics & Glycoproteomics: From Analytics to Function	21
The state of the art in plant lipidomics	21
A novel multi-omics-based highly accurate prediction of symptoms, comorbid conditions, and possible long-term complications of COVID-19	21
Applications of lipidomics in marine organisms: progress, challenges and future perspectives	19
Extensive heterogeneity of glycopeptides in plasma revealed by deep glycoproteomic analysis using size-exclusion chromatography	19
Tissue metabolic profiling reveals major metabolic alteration in colorectal cancer	17
The pan-cancer analysis of the two types of uterine cancer uncovered clinical and prognostic associations with m6A RNA methylation regulators	16
Integrated multi-omics analyses of microbial communities: a review of the current state and future directions	15
Transcriptomic sequencing reveals the response of Dunaliella salina to copper stress via the increased photosynthesis and carbon mechanism	15
Advances in stable isotope labeling: dynamic labeling for spatial and temporal proteomic analysis	14
Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1–CoREST interactome during embryonic stem cell differentiation	14
Food authentication: truffle species classification by non-targeted lipidomics analyses using mass spectrometry assisted by ion mobility separation	14
Laser capture microdissection-capillary zone electrophoresis-tandem mass spectrometry (LCM-CZE-MS/MS) for spatially resolved top-down proteomics: a pilot study of zebrafish brain	14
4D-quantitative proteomics signature of asthenozoospermia and identification of extracellular matrix protein 1 as a novel biomarker for sperm motility	14

Deciphering O-glycoprotease substrate preferences with O-Pair Search	13
Iron-meditated fungal starvation by lupine rhizosphere-associated and extremotolerant Streptomyces sp. S29 desferrioxamine production	13
Focus on the molecular mechanisms of cisplatin resistance based on multi-omics approaches	13
BGMSDDA: a bipartite graph diffusion algorithm with multiple similarity integration for drug–disease association prediction	13
Proteomics in idiopathic pulmonary fibrosis: the quest for biomarkers	13
N-Linked glycosylation profiles of therapeutic induced senescent (TIS) triple negative breast cancer cells (TNBC) and their extracellular vesicle (EV) progeny	13
A proteomic view on lysosomes	13
A 9-gene biomarker panel identifies bacterial coinfections in culture-negative COVID-19 cases	12
Cleavable linkers and their application in MS-based target identification	12
Targeting coenzyme Q10 synthesis overcomes bortezomib resistance in multiple myeloma	12
Computational approaches leveraging integrated connections of multi-omic data toward clinical applications	11
NMR metabolomic and microarray-based transcriptomic data integration identifies unique molecular signatures of hypersensitivity pneumonitis	11
Macrophages secrete murinoglobulin-1 and galectin-3 to regulate neutrophil degranulation after myocardial infarction	11
Enhanced detection and annotation of small molecules in metabolomics using molecular-network-oriented parameter optimization	11
Multi-omics data integration reveals correlated regulatory features of triple negative breast cancer	11
Metabolomics study reveals the alteration of fatty acid oxidation in the hearts of diabetic mice by empagliflozin	10
NMR-based plasma metabolomics of adult B-cell acute lymphoblastic leukemia	10
Omics technologies for high-throughput-screening of cell–biomaterial interactions	10
Comprehensive comparison of sample preparation workflows for proteomics	9
Metabolomics reveals the impact of the saturation of dietary lipids on the aging and longevity of C. elegans	9
Transcriptome features of striated muscle aging and predictability of protein level changes	9
Integrated proteomic and metabolomic analyses of the mitochondrial neurodegenerative disease MELAS	9
Metabolomic analysis of honey bee (Apis mellifera L.) response to glyphosate exposure	9
Plasma extracellular vesicles microRNA-208b-3p and microRNA-143-3p as novel biomarkers for sudden cardiac death prediction in acute coronary syndrome	8
Metabolomics analysis provides new insights into the medicinal value of flavonoids in tobacco leaves	8
Long-read 16S-seq reveals nasopharynx microbial dysbiosis and enrichment of Mycobacterium and Mycoplasma in COVID-19 patients: a potential source of co-infection	8
Integrative miRNA–mRNA functional analysis identifies miR-182 as a potential prognostic biomarker in breast cancer	8
Differential N-glycosylation profiling of formalin-fixed paraffin-embedded (FFPE) invasive ductal carcinoma tissues using MALDI-TOF-MS	8
Graphene oxide links alterations of anti-viral signaling pathways with lipid metabolism via suppressing TLR3 in vascular smooth muscle cells	8
Interrogating the transcriptome with metabolically incorporated ribonucleosides	8
Comparative evaluation of long non-coding RNA-based biomarkers in the urinary sediment and urinary exosomes for non-invasive diagnosis of bladder cancer	8
Quantitative proteomic analysis of MDCK cell adhesion	8
Butyrate promotes C2C12 myoblast proliferation by activating ERK/MAPK pathway	7
An NMR-based metabolomics study on sea anemones Exaiptasia diaphana (Rapp, 1829) with atrazine exposure	7
A drug discovery approach based on comparative transcriptomics between two toxin-secreting marine annelids:Glycera albaandHediste diversicolor	7
Cleaning the molecular machinery of cells via proteostasis, proteolysis and endocytosis selectively, effectively, and precisely: intracellular self-defense and cellular perturbations	7
MS-based proteomics for comprehensive investigation of proteinO-GlcNAcylation	7
Nuciferine attenuates acute ischemic stroke in a rat model: a metabolomic approach for the mechanistic study	7
The miR-4732-5p/XPR1 axis suppresses the invasion, metastasis, and epithelial–mesenchymal transition of lung adenocarcinoma via the PI3K/Akt/GSK3β/Snail pathway	7
iDHS-DASTS: identifying DNase I hypersensitive sites based on LASSO and stacking learning	7
Advancements in automation for plasma proteomics sample preparation	7
Multi-omics data integration approaches for precision oncology	7
Integrated proteomics and phosphoproteomics reveal perturbed regulative pathways in pancreatic ductal adenocarcinoma	7
Delineating toxicity mechanisms associated with MRI contrast enhancement through a multidimensional toxicogenomic profiling of gadolinium	7
Phosphoproteomic analysis reveals the effects of sleep deprivation on the hippocampus in mice	7
Lnc-TMEM132D-AS1 as a potential therapeutic target for acquired resistance to osimertinib in non-small-cell lung cancer	6
Development of computational models using omics data for the identification of effective cancer metabolic biomarkers	6
Microarray investigation of glycan remodeling during macrophage polarization reveals α2,6 sialic acid as an anti-inflammatory indicator	6
Investigation of cattle plasma proteome in response to pain and inflammation using next generation proteomics technique, SWATH-MS	6
β-Adrenoceptor regulation of metabolism in U937 derived macrophages	6

Time-dependent re-organization of biological processes by the analysis of the dynamic transcriptional response of yeast cells to doxorubicin	6
Early-stage responses toPlasmodiophora brassicaeat the transcriptome and metabolome levels in clubroot resistant and susceptible oilseedBrassica napus	6
Identification of novel biomarkers for intracerebral hemorrhagevialong noncoding RNA-associated competing endogenous RNA network	6
Candidate kinases for adipogenesis and osteoblastogenesis from human bone marrow mesenchymal stem cells	6
Identification of stem cells from large cell populations with topological scoring	6
Proteomic and metabolomic profiling of acute and chronic stress events associated with military exercises	6
The application of omics techniques to evaluate the effects of Tanshinone IIA on dextran sodium sulfate induced ulcerative colitis	6
Differential profiles of HDAC1 substrates and associated proteins in breast cancer cells revealed by trapping	6
Propionate as the preferred carbon source to produce 3-indoleacetic acid inB. subtilis: comparative flux analysis using five carbon sources	5
N-Glycosylation in isolated rat nerve terminals	5
Systematic investigation of mouse models of Parkinson's disease by transcriptome mapping on a brain-specific genome-scale metabolic network	5
Dauricine inhibits human pancreatic carcinoma cell proliferation through regulating miRNAs	5
Analysis of pancreatic extracellular matrix protein post-translational modifications via electrostatic repulsion-hydrophilic interaction chromatography coupled with mass spectrometry	5
A comparative lipidomic study of the human placenta from women with or without gestational diabetes mellitus	5
The phosphoproteome of rice leaves responds to water and nitrogen supply	5
Multi-omic characterisation ofStreptomyces hygroscopicusNRRL 30439: detailed assessment of its secondary metabolic potential	5
Activation of KLF6 by titanate nanofibers and regulatory roles of KLF6 on ATF3 in the endothelial monolayer and mouse aortas	5
Proteomic changes associated with racial background and sepsis survival outcomes	5
Prediction of cancer dependencies from expression data using deep learning	5
LC-MS-based metabolomics reveals the in vivo effect of Shegan Mahuang Decoction in an OVA-induced rat model of airway hyperresponsiveness	5
Defining atherosclerotic plaque biology by mass spectrometry-based omics approaches	5
Spatial proteomic alterations detected via MALDI-MS imaging implicate neuronal loss in a Huntington's disease mouse (YAC128) brain	5
Comprehensive expression profiles of CircRNAs, LncRNAs, and mRNAs in PBMCs from patients with the ossification of the posterior longitudinal ligament	5
Rbm20 ablation is associated with changes in the expression of titin-interacting and metabolic proteins	5
In silico characterisation of the complete Ly6 protein family in Fasciola gigantica supported through transcriptomics of the newly-excysted juveniles	5