Molecular Omics

Article	Citations
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Integrating OMICS-based platforms and analytical tools for diagnosis and management of pancreatic cancer: a review	24
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Sequencing, assembly, and genomic annotation of Leucoagaricus gongylophorus LEU18496, a dikarya mutualistic species	18
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Outstanding Reviewers for Molecular Omics in 2021	16
Outstanding Reviewers for Molecular Omics in 2023	15
What transcriptomics and proteomics can tell us about a high borate perturbed boron tolerant Bacilli strain	15
Advancing science through data sharing: a new data policy for Molecular Omics	15
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Comprehensive expression profiles of mRNAs, lncRNAs and miRNAs in Kashin-Beck disease identified by RNA-sequencing	11
KDM4B, a potential prognostic biomarker revealed by large-scale public databases and clinical samples in uterine corpus endometrial carcinoma	10
Protein network analysis links the NSL complex to Parkinson’s disease via mitochondrial and nuclear biology	10

IVS I-5 (G > C) is associated with changes to the RBC membrane lipidome in response to hydroxyurea treatment in β-thalassemia patients	10
Analysis of the transcriptome and metabolome of pancreatic spheroids derived from human induced pluripotent stem cells and matured in an organ-on-a-chip	10
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	10
The effect of krill oil on longevity and locomotion: a pilot study	10
Activation of KLF6 by titanate nanofibers and regulatory roles of KLF6 on ATF3 in the endothelial monolayer and mouse aortas	9
The effect of key DNA methylation in different regions on gene expression in hepatocellular carcinoma	9
Cancer evaluation in dogs using cerumen as a source for volatile biomarker prospection	8
Identification of prognostic factors in classic Hodgkin lymphoma by integrating whole slide imaging and next generation sequencing	8
Omics approaches to better understand the molecular mechanism of necroptosis and their translational implications	8
Nontargeted metabolomics reveals differences in the metabolite profiling among methicillin-resistant and methicillin-susceptible Staphylococcus aureus in response to antibiotics	8
Profiling protein targets of cellular toxicant exposure	8
The RNA cargo of Myxococcus outer membrane vesicles	7
The relationship between bacterial outer membrane vesicles and halophilic adaptation	7
An adaptable in silico ensemble model of the arachidonic acid cascade	7
Open-tubular trap columns: towards simple and robust liquid chromatography separations for single-cell proteomics	7
Influence of sex, age, ethnicity/race, and body mass index on the cerumen volatilome using two data analysis approaches: binary and semiquantitative	7
Single cell proteomics analysis of drug response shows its potential as a drug discovery platform	7
Network modeling suggests HIV infection phenocopies PI3K-AKT pathway mutations to enhance HPV-associated cervical cancer	7
Systemic analysis of lipid metabolism from individuals to multi-organism systems	7
Advancements in automation for plasma proteomics sample preparation	6
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Correction: Generation of β-like cell subtypes from differentiated human induced pluripotent stem cells in 3D spheroids	6
TALKIEN: crossTALK IntEraction Network. A web-based tool for deciphering molecular communication through ligand–receptor interactions	6
A Q-marker screening strategy based on ADME studies and systems biology for Chinese herbal medicine, taking Qianghuo Shengshi decoction in treating rheumatoid arthritis as an example	6
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Integrated proteomic and metabolomic analyses of the mitochondrial neurodegenerative disease MELAS	6
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TarpiD, a database of putative and validated targets of piRNAs	6
Serum metabolomics reveals the metabolic profile and potential biomarkers of ankylosing spondylitis	6
Correction: Metabolomics study reveals the alteration of fatty acid oxidation in the hearts of diabetic mice by empagliflozin	6
A 9-gene biomarker panel identifies bacterial coinfections in culture-negative COVID-19 cases	6
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Integrative analysis of cancer dependency data and comprehensive phosphoproteomics data revealed the EPHA2-PARD3 axis as a cancer vulnerability in KRAS-mutant colorectal cancer	6
Metabolomics approach to understand molecular mechanisms involved in fungal pathogen–citrus pathosystems	6
Proteomic analysis reveals mechanisms underlying increased efficacy of bleomycin by photochemical internalization in bladder cancer cells	6
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RNA-seq-based transcriptome analysis of the anti-inflammatory effect of artesunate in the early treatment of the mouse cerebral malaria model	5
Selective labeling of tyrosine residues in proteins: insights from PTAD labeling and tandem mass spectrometry analysis	5
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The application of omics techniques to evaluate the effects of Tanshinone IIA on dextran sodium sulfate induced ulcerative colitis	5
Investigation of cattle plasma proteome in response to pain and inflammation using next generation proteomics technique, SWATH-MS	5
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An integrative chemometric approach and correlative metabolite networking of LC-MS and 1H NMR based urine metabolomics for radiation signatures	5
Multi-omic profiling of histone variant H3.3 lysine 27 methylation reveals a distinct role from canonical H3 in stem cell differentiation	5
Metabolomics reveals the impact of the saturation of dietary lipids on the aging and longevity of C. elegans	4
Differential roles of transcriptional and translational negative autoregulations in protein dynamics	4
A drug discovery approach based on comparative transcriptomics between two toxin-secreting marine annelids:Glycera albaandHediste diversicolor	4
Graphene oxide links alterations of anti-viral signaling pathways with lipid metabolism via suppressing TLR3 in vascular smooth muscle cells	4

Metabolomic analysis of honey bee (Apis mellifera L.) response to glyphosate exposure	4
Rbm20 ablation is associated with changes in the expression of titin-interacting and metabolic proteins	4
Proteomics-based molecular and functional characteristic profiling of muscle tissue in Triploid crucian carp	4
Phosphoproteomic analysis reveals the effects of sleep deprivation on the hippocampus in mice	4
Long-read 16S-seq reveals nasopharynx microbial dysbiosis and enrichment of Mycobacterium and Mycoplasma in COVID-19 patients: a potential source of co-infection	4
Proteomic analysis of peripheral blood mononuclear cells from OSCC patients reveals potential immune checkpoints to enable personalized treatment	4
Acute exercise dynamically modulates the hepatic mitochondrial proteome	4
Re-mining serum proteomics data reveals extensive post-translational modifications upon Zika and dengue infection	3
Plasma metabolomic signatures from patients following high-dose total body irradiation	3
Development and application of a data processing method for food metabolomics analysis	3
NMR metabolomic and microarray-based transcriptomic data integration identifies unique molecular signatures of hypersensitivity pneumonitis	3
Front cover	3
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Defining atherosclerotic plaque biology by mass spectrometry-based omics approaches	3
Biochemical and metabolic signatures are fundamental to drought adaptation in PGPR Enterobacter bugandensis WRS7	3
Investigation of the motif activity of transcription regulators in pancreatic β-like cell subpopulations differentiated from human induced pluripotent stem cells	3
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Discovery of candidate biomarkers from plasma-derived extracellular vesicles of patients with cirrhosis and hepatocellular carcinoma: an exploratory proteomic study	3
Analysis of N-glycosylation protein of Kashin–Beck disease chondrocytes derived from induced pluripotent stem cells based on label-free strategies with LC-MS/MS	3
Geographical origin traceability of rice using a FTIR-based metabolomics approach	3
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4D-quantitative proteomics signature of asthenozoospermia and identification of extracellular matrix protein 1 as a novel biomarker for sperm motility	2
Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1–CoREST interactome during embryonic stem cell differentiation	2
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Proteomic changes associated with racial background and sepsis survival outcomes	2
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Outstanding Reviewers for Molecular Omics in 2022	2
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Integrated multi-omics analyses of microbial communities: a review of the current state and future directions	2
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Long-term physical inactivity induces significant changes in biochemical pathways related to metabolism of proteins and glycerophospholipids in mice	2
Ethyl acetate extract of Caesalpinia sappan L. for the treatment of atherosclerosis in ApoE−/− mice and its mechanism	2
Species-level identification of enterotype-specific microbial markers for colorectal cancer and adenoma	2
Prediction of quality markers in Maren Runchang pill for constipation using machine learning and network pharmacology	2
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A multi-omics study of the anti-cancer effect of a ferulic acid derivative FA-30	1
Meta-analyses of host metagenomes from colorectal cancer patients reveal strong relationship between colorectal cancer-associated species	1
Identification of novel biomarkers for intracerebral hemorrhagevialong noncoding RNA-associated competing endogenous RNA network	1
Association of lipid metabolism-related metabolites with overweight/obesity based on the FTO rs1421085	1
Investigating the mechanism of Qifu Yin in ameliorating memory disorders through pseudo-targeted lipidomics	1
Unraveling the phenotypic and metabolic responses induced by urea-encapsulated hydrogel beads on Brassica juncea (L.) Czern & Coss	1
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Implementation of multiomic mass spectrometry approaches for the evaluation of human health following environmental exposure	1
Th1, Th2 and Th17 inflammatory pathways synergistically predict cardiometabolic protein expression in serum of COVID-19 patients	1
Label-free quantitation of the changes in salivary proteome associated with the chronic consumption of the betel nut (Areca catechu)	1
Transcriptional profiling of the chick retina identifies down-regulation of VIP and UTS2B genes during early lens-induced myopia	1
Delineating toxicity mechanisms associated with MRI contrast enhancement through a multidimensional toxicogenomic profiling of gadolinium	1
The dynamic inflammatory profile of pregnancy can be monitored using a novel lipid-based mass spectrometry technique	1
Generation of β-like cell subtypes from differentiated human induced pluripotent stem cells in 3D spheroids	1
Enhanced anti-inflammatory and anti-fibrotic effects of nanoparticles loaded with a combination of Aloe vera–Moringa oleifera extracts	1
Identification of autophagy-related signatures in nonalcoholic fatty liver disease and correlation with non-parenchymal cells of the liver	1
Distinct global metabolomic profiles of the model organismCaenorhabditis elegansduring interactions withStaphylococcus aureusandSalmonella entericaSerovar Typhi	1
A knowledge graph representation learning approach to predict novel kinase–substrate interactions	1
Brain-wide transcriptome-based metabolic alterations in Parkinson's disease: human inter-region and human-experimental model correlations	1
Spatial proteomic alterations detected via MALDI-MS imaging implicate neuronal loss in a Huntington's disease mouse (YAC128) brain	1
The mechanism of chronic unpredictable mild stress induced high blood pressure in rats: a proteomic and targeted metabolomic analysis	1
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PerSEveML: a web-based tool to identify persistent biomarker structure for rare events using an integrative machine learning approach	1
Comparative evaluation of long non-coding RNA-based biomarkers in the urinary sediment and urinary exosomes for non-invasive diagnosis of bladder cancer	1
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Correction: Analysis of N-glycosylation protein of Kashin–Beck disease chondrocytes derived from induced pluripotent stem cells based on label-free strategies with LC-MS/MS	1
Multi-omic characterisation ofStreptomyces hygroscopicusNRRL 30439: detailed assessment of its secondary metabolic potential	1
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Metabolite variations in the sera of HIV+ patients after an oral administration of effervescent glutamine and in comparison to non-HIV individuals by NMR	0
A comparative performance evaluation of imputation methods in spatially resolved transcriptomics data	0

Butyrate promotes C2C12 myoblast proliferation by activating ERK/MAPK pathway	0
Metabolic responses in the cortex and hippocampus induced by Il-15rα mutation	0
Focus on the molecular mechanisms of cisplatin resistance based on multi-omics approaches	0
Unmasking the lipid landscape: carbamazepine induces alterations in Leydig cell lipidome	0
The plasma phospholipidome of the bottlenose dolphin (Tursiops truncatus) is modulated by both sex and developmental stage	0
Multi-omics data integration approaches for precision oncology	0
Intact cell lipidomics using the Bruker MBT lipid Xtract assay allows the rapid detection of glycosyl-inositol-phospho-ceramides from Aspergillus fumigatus	0
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Metabolomics-based predictive biomarkers of oral cancer and its severity in human patients from North India using saliva	0
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Deciphering O-glycoprotease substrate preferences with O-Pair Search	0
Antibiotic-induced gut microbiota dysbiosis altered host metabolism	0
GRL–PUL: predicting microbe–drug association based on graph representation learning and positive unlabeled learning	0
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Metabolomic approaches to dissect dysregulated metabolism in the progression of pre-diabetes to T2DM	0
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Effect of short-term use of FFP2 (N95) masks on the salivary metabolome of young healthy volunteers: a pilot study	0
MobiChIP: a compatible library construction method of single-cell ChIP-seq based droplets	0
Comprehensive comparison of sample preparation workflows for proteomics	0
Lipid profile variability in children at different ages measured in dried blood spots	0
Changes in lipid profile and SOX-2 expression in RM-1 cells after co-culture with preimplantation embryos or with deproteinated blastocyst extracts	0
Chemical diversity of Brittonodoxa subpinnata, a Brazilian native species of moss	0
A bright future for proteomics of health and disease. Introduction to the US HUPO 2021 themed issue – proteomics from single cell to systems biology in health and disease	0
Competing technologies: determining the geographical origin of strawberries (Fragaria × ananassa) using laboratory based near-infrared spectroscopy compared to a simple portable device	0
Integrated network pharmacology and fecal metabolomic analysis of the combinational mechanisms of Shexiang Baoxin Pill against atherosclerosis	0
Anti-inflammatory effects of myristic acid mediated by the NF-κB pathway in lipopolysaccharide-induced BV-2 microglial cells	0
Towards inferring absolute concentrations from relative abundance in time-course GC-MS metabolomics data	0
In silico characterisation of the complete Ly6 protein family in Fasciola gigantica supported through transcriptomics of the newly-excysted juveniles	0
Size exclusion chromatography based proteomic and degradomic profiling of inflammasome-activated, murine bone marrow-derived dendritic cells highlights complex retention and release of cleavage produc	0
KIF2C as a potential therapeutic target: insights from lung adenocarcinoma subtype classification and functional experiments	0
Biomarker identification by reversing the learning mechanism of an autoencoder and recursive feature elimination	0
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Production of mannosylerythritol lipids: biosynthesis, multi-omics approaches, and commercial exploitation	0
Pre-analytical aspects in metabolomics of human biofluids – sample collection, handling, transport, and storage	0
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Transcriptomic landscape of sodium butyrate-induced growth inhibition of human colorectal cancer organoids	0
Development and application of mass spectrometric molecular networking for analyzing the ingredients of areca nut	0
Macrophages secrete murinoglobulin-1 and galectin-3 to regulate neutrophil degranulation after myocardial infarction	0
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A comparative lipidomic study of the human placenta from women with or without gestational diabetes mellitus	0
Integrative analysis of small non-coding RNAs predicts a piRNA/miRNA-CCND1/BRAF/HRH1/ATXN3 regulatory circuit that drives oncogenesis in glioblastoma	0
Lnc-TMEM132D-AS1 as a potential therapeutic target for acquired resistance to osimertinib in non-small-cell lung cancer	0
Phosphoproteomics guides low dose drug combination of cisplatin and silmitasertib against concurrent chemoradiation resistant cervical cancer	0
Comprehensive untargeted lipidomic profiling of third generation lentiviral vectors and packaging cells	0
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Bacterial endosymbionts of a nitrogen-fixing yeast Rhodotorula mucilaginosa JGTA-S1 – insights into a yet unknown micro-ecosystem	0
Cross-talk and integrative post-translational modifications	0
Characterization of methionine dependence in melanoma cells	0
ITIH5, as a predictor of prognosis and immunotherapy response for P53-like bladder cancer, is related to cell proliferation and invasion	0
Label-free serum proteomics for the identification of the putative biomarkers of postoperative pain in patients with gastric cancer	0
Differential modulation of the hepatocellular metabolome, cytoprotective and inflammatory responses due to endotoxemia and lipotoxicity	0
Extraction and untargeted analysis of metabolome from undemineralised cortical bone matrix	0
The alteration of urinary metabolomics profiles in Kashin–Beck disease in a three consecutive year study	0
Serum proteomic analysis of differentially expressed proteins and pathways involved in the mechanism of endemic osteoarthritis	0
Cronobacter sakazakii infection implicates multifaceted neuro-immune regulatory pathways of Caenorhabditis elegans	0
Systematic characterization of m6A proteomics across 12 cancer types: a multi-omics integration study	0
Omics technologies for high-throughput-screening of cell–biomaterial interactions	0
1H-NMR based metabolic study of MMTV-PyMT mice along with pathological progress to screen biomarkers for the early diagnosis of breast cancer	0
Identification of potential biomarkers for diagnosis of syphilis from the cerebrospinal fluid based on untargeted metabolomic analysis	0
Understanding pulmonary hypertension: the need for an integrative metabolomics and transcriptomics approach	0
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Metabolomics assessment of vitamin D impact in Pam3CSK4 stimulation	0
Early-stage responses toPlasmodiophora brassicaeat the transcriptome and metabolome levels in clubroot resistant and susceptible oilseedBrassica napus	0
Proteomic and metabolomic profiling of acute and chronic stress events associated with military exercises	0
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Lamiophlomis rotata attenuates rheumatoid arthritis by regulating sphingolipid and steroid hormone metabolism	0
Untargeted metabolomics analysis reveals spatial metabolic heterogeneity in different intestinal segments of type 1 diabetic mice	0
Gender-specific association of oxidative stress and immune response in septic shock mortality using NMR-based metabolomics	0
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The landscape ofN6-methyladenosine modification patterns and altered transcript profiles in the cardiac-specific deletion of natriuretic peptide receptor A	0
Applications of lipidomics in marine organisms: progress, challenges and future perspectives	0
Biomarkers of heart failure: advances in omics studies	0
Plasma extracellular vesicles microRNA-208b-3p and microRNA-143-3p as novel biomarkers for sudden cardiac death prediction in acute coronary syndrome	0
Integrated proteomic and metabolomic analysis of plasma reveals regulatory pathways and key elements in thyroid cancer	0
Lipidomics in forensic science: a comprehensive review of applications in drugs, alcohol, latent fingermarks, fire debris, and seafood authentication	0
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Proteomic and metabolic profiling reveals molecular phenotype associated with chemotrophic growth of Rubrivivax benzoatilyticus JA2 on l-tryptophan	0
YAP activation is robust to dilution	0
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Metabolomic analysis reveals stress tolerance mechanisms in common bean (Phaseolus vulgaris L.) related to treatment with a biostimulant obtained from Corynebacterium glutamicum	0
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Multi-omics insights into the interplay between gut microbiota and colorectal cancer in the “microworld” age	0
Lipidomics reveals cell specific changes during pluripotent differentiation to neural and mesodermal lineages	0
Untargeted metabolomics reveals altered branch chain amino acids, glucose and fat metabolism contributing to coronary artery disease among Indian diabetic patients	0
Lipopolysaccharide and statin-mediated immune-responsive protein networks revealed in macrophages through affinity purification spacer-arm controlled cross-linking (AP-SPACC) proteomics	0
piRNAs in the human retina and retinal pigment epithelium reveal a potential role in intracellular trafficking and oxidative stress	0
Unraveling the role of intra-cellular metabolites in the lactic acid production by novel Bacillus amyloliquefaciens using sugarcane molasses as a substratum	0
A blood-based multi-omic landscape for the molecular characterization of kidney stone disease	0
Untargeted metabolomics and phenotype data indicate the therapeutic and prophylactic potential of Lysimachia candida Lindl. towards high-fat high-fructose-induced metabolic syndrome in rats	0
Exploring the mechanism of Shendi Bushen capsule in anti-renal fibrosis using metabolomics theory and network analysis	0
Complementarity of two proteomic data analysis tools in the identification of drug-metabolising enzymes and transporters in human liver	0
Integrating host and microbiome biology using holo-omics	0