Journal of Proteomics

Article	Citations
MMEASE: Online meta-analysis of metabolomic data by enhanced metabolite annotation, marker selection and enrichment analysis	53
Integrated physiological and chloroplast proteome analysis of wheat seedling leaves under salt and osmotic stresses	50
Physiological and TMT-labeled proteomic analyses reveal important roles of sugar and secondary metabolism in Citrus junos under cold stress	40
Changes in glycolytic and mitochondrial protein profiles regulates postmortem muscle acidification and oxygen consumption in dark-cutting beef	40
On the standardization of ZooMS nomenclature	37
From classical to new generation approaches: An excursus of -omics methods for investigation of protein-protein interaction networks	36
Comparison of path-based centrality measures in protein-protein interaction networks revealed proteins with phenotypic relevance during adaptation to changing nitrogen environments	35
Proteomic and lipidomic analyses reveal saturated fatty acids, phosphatidylinositol, phosphatidylserine, and associated proteins contributing to intramuscular fat deposition	34
Characterization and proteomic analysis of outer membrane vesicles from a commensal microbe, Enterobacter cloacae	33
Applications of lipidomics in goat meat products: Biomarkers, structure, nutrition interface and future perspectives	32
Milk and serum proteomes in subclinical and clinical mastitis in Simmental cows	31
N-terminomics – its past and recent advancements	29
Multidimensional separation schemes enhance the identification and molecular characterization of low molecular weight proteomes and short open reading frame-encoded peptides in top-down proteomics	28
Fulvic acid enhances drought resistance in tea plants by regulating the starch and sucrose metabolism and certain secondary metabolism	28
Proteome analysis of rainbow trout (Oncorhynchus mykiss) liver responses to chronic heat stress using DIA/SWATH	28
Comparative metabolomics analysis of pigmentary and structural coloration in discus fish (Symphysodon haraldi)	26
Identification of novel ADAMTS1, ADAMTS4 and ADAMTS5 cleavage sites in versican using a label-free quantitative proteomics approach	25
Melatonin elevated Sclerotinia sclerotiorum resistance via modulation of ATP and glucosinolate biosynthesis in Brassica rapa ssp. pekinensis	24
The metabolic pathways of polyhydroxyalkanoates and exopolysaccharides synthesized by Haloferax mediterranei in response to elevated salinity	24
Proteomics reveals commitment to germination in barley seeds is marked by loss of stress response proteins and mobilisation of nutrient reservoirs	23
Biomineral proteomics: A tool for multiple disciplinary studies	23
Comparative proteome profiling in exosomes derived from porcine colostrum versus mature milk reveals distinct functional proteomes	22
Proteasuria in nephrotic syndrome–quantification and proteomic profiling	22
Functional soil mycobiome across ecosystems	21
Response of the critically endangered Przewalski's gazelle (Procapra przewalskii) to selenium deprived environment	21

Hemolymph proteins: An overview across marine arthropods and molluscs	21
Effect of resveratrol on the biofilm formation and physiological properties of avian pathogenic Escherichia coli	21
Snake venom proteome of Protobothrops mucrosquamatus in Taiwan: Delaying venom-induced lethality in a rodent model by inhibition of phospholipase A2 activity with varespladib	21
TMT proteomics analysis of intestinal tissue from patients of irritable bowel syndrome with diarrhea: Implications for multiple nutrient ingestion abnormality	20
Propofol decreases cisplatin resistance of non-small cell lung cancer by inducing GPX4-mediated ferroptosis through the miR-744-5p/miR-615-3p axis	20
Distinct gut microbiota and metabolite profiles induced by delivery mode in healthy Chinese infants	20
Identification of blood protein biomarkers for breast cancer staging by integrative transcriptome and proteome analyses	20
Remarkable intrapopulation venom variability in the monocellate cobra (Naja kaouthia) unveils neglected aspects of India's snakebite problem	20
Digging deeper into bile proteome	19
Diagenetiforms: A new term to explain protein changes as a result of diagenesis in paleoproteomics	19
Proteomic analysis of aqueous humor in patients with pathologic myopia	19
Sweat metabolome and proteome: Recent trends in analytical advances and potential biological functions	19
Proteomic analysis reveals the effects of melatonin on soybean root tips under flooding stress	19
Antibacterial potential of donkey’s milk disclosed by untargeted proteomics	19
Proteomic and transcriptomic analyses of saliva and salivary glands from the Asian citrus psyllid, Diaphorina citri	19
Metabonomics analysis reveals the protective effect of nano‑selenium against heat stress of rainbow trout (Oncorhynchus mykiss)	19
N-Glycome changes reflecting resistance to platinum-based chemotherapy in ovarian cancer	18
A single honey proteome dataset for identifying adulteration by foreign amylases and mining various protein markers natural to honey	18
Comparative evaluation of two methods for LC-MS/MS proteomic analysis of formalin fixed and paraffin embedded tissues	18
Integrating transcriptomics, proteomics, glycomics and glycoproteomics to characterize paclitaxel resistance in breast cancer cells	18
Changes in the transcript and protein profiles of Quercus ilex seedlings in response to drought stress	18
Application of proteomic to investigate the different degrees of meat tenderness in Nellore breed	18
Proteomic analysis of extracellular vesicles and conditioned medium from human adipose-derived stem/stromal cells and dermal fibroblasts	18
Cysteine alkylation methods in shotgun proteomics and their possible effects on methionine residues	18
Identification and analysis of small proteins and short open reading frame encoded peptides in Hep3B cell	18
Characterization of the liver proteome in dairy cows experiencing negative energy balance at early lactation	17
HisPhosSite: A comprehensive database of histidine phosphorylated proteins and sites	17
Use of liquid chromatography-tandem mass spectrometry to perform urinary proteomic analysis of children with IgA nephropathy and Henoch-Schönlein purpura nephritis	17
High-throughput profiling of histone post-translational modifications and chromatin modifying proteins by reverse phase protein array	17
Combined ultraviolet and darkness regulation of medicinal metabolites in Mahonia bealei revealed by proteomics and metabolomics	17
Understanding of the postgerminative development response to salinity and drought stresses in cucumber seeds by integrated proteomics and transcriptomics analysis	17
Towards the discovery of goat meat quality biomarkers using label-free proteomics	17
TMT-based quantitative proteomic analysis of the effects of novel antimicrobial peptide AMP-17 against Candida albicans	16
New trend in ligand-induced EGFR trafficking: A dual-mode clathrin-mediated endocytosis model	16
StatsPro: Systematic integration and evaluation of statistical approaches for detecting differential expression in label-free quantitative proteomics	16
Lysine 2-hydroxyisobutyrylation proteomics reveals protein modification alteration in the actin cytoskeleton pathway of oral squamous cell carcinoma	16
Rapid species level identification of fish eggs by proteome fingerprinting using MALDI-TOF MS	16
Profiling the proteoforms of urinary prostate-specific antigen by capillary electrophoresis – mass spectrometry	16
Molecular insights into quality and authentication of sheep meat from proteomics and metabolomics	16
Domestic animal proteomics in the 21st century: A global retrospective and viewpoint analysis	16
Testing the efficacy and comparability of ZooMS protocols on archaeological bone	16
History of Phos-tag technology for phosphoproteomics	15
A versatile and user-friendly approach for the analysis of proteins in ancient and historical objects	15
Interpopulational variation and ontogenetic shift in the venom composition of Lataste's viper (Vipera latastei, Boscá 1878) from northern Portugal	15
Basic 7S globulin in plants	15
A metaproteomic-based gut microbiota profiling in children affected by autism spectrum disorders	15
Quantitative proteomic analysis of cervical cancer based on TMT-labeled quantitative proteomics	15
Peptidomic analysis of antioxidant peptides from porcine liver hydrolysates using SWATH-MS	15
Comprehensive proteome analysis of bread deciphering the allergenic potential of bread wheat, spelt and rye	15
Seasonally related metabolic changes and energy allocation associated with growth and reproductive phases in the liver of male goldfish (Carassius auratus)	15

Proteomic analysis of liver in diet-induced Hyperlipidemic mice under Fructus Rosa roxburghii action	15
Stable bull fertility protein markers in seminal plasma	15
The impaired biosynthetic networks in defective tapetum lead to male sterility in watermelon	15
Analysis of protein phosphorylation using Phos-tag gels	14
Proteomic analysis of healthy and atretic porcine follicular granulosa cells	14
Integrated transcriptome and proteome analysis reveals potential mechanisms for differential abdominal fat deposition between divergently selected chicken lines	14
Transcriptomic and proteomic analyses reveal the common and unique pathway(s) underlying different skin colors of leopard coral grouper (Plectropomus leopardus)	14
Proteomic analysis of SUMO1-SUMOylome changes during defense elicitation in Arabidopsis	14
Proteomic pipeline for biomarker hunting of defective bovine meat assisted by liquid chromatography-mass spectrometry analysis and chemometrics	14
The wheat secreted root proteome: Implications for phosphorus mobilisation and biotic interactions	14
Proteomic profiling of soft tissue sarcomas with SWATH mass spectrometry	14
Phosphopeptide enrichment using Phos-tag technology reveals functional phosphorylation of the nucleocapsid protein of SARS-CoV-2	14
Proteomic profile of human dental follicle stem cells and apical papilla stem cells	14
Label-free quantitative proteomic analysis of serum extracellular vesicles differentiating patients of alcoholic and nonalcoholic fatty liver diseases	14
Proteome analysis reveals a systematic response of cold-acclimated seedlings of an exotic mangrove plant Sonneratia apetala to chilling stress	14
A proteomic analysis of urine biomarkers in autism spectrum disorder	13
Lysine-specific acetylated proteome from the archaeon Thermococcus gammatolerans reveals the presence of acetylated histones	13
Rapid Evaporative Ionisation Mass Spectrometry fingerprinting can discriminate lamb meat due to different ageing methods and levels of dehydration	13
Taxonomic identification of Danish Viking Age shoes and skin objects by ZooMS (Zooarchaeology by mass spectrometry)	13
Mass spectrometry-based proteomic exploration of the small urinary extracellular vesicles in ANCA-associated vasculitis in comparison with total urine	13
Label-free proteomic analysis reveals differentially expressed Wolbachia proteins in Tyrophagus putrescentiae: Mite allergens and markers reflecting population-related proteome differences	13
Comparative proteomics of Mesembryanthemum crystallinum guard cells and mesophyll cells in transition from C3 to CAM	13
Proteomics analysis of N-methyl-d-aspartate-induced cell death in retinal and optic nerves	13
iTRAQ-based proteome analysis of porcine group A rotavirus-infected porcine IPEC-J2 intestinal epithelial cells	13
The main post-translational modifications and related regulatory pathways in the malaria parasite Plasmodium falciparum: An update	12
Comparative proteomics analysis of human FFPE testicular tissues reveals new candidate biomarkers for distinction among azoospermia types and subtypes	12
Quantitative proteomics of cerebrospinal fluid using tandem mass tags in dogs with recurrent epileptic seizures	12
Dark-cutting beef mitochondrial proteomic signatures reveal increased biogenesis proteins and bioenergetics capabilities	12
Proteomic approaches for the profiling of ubiquitylation events and their applications in drug discovery	12
Comparative phosphoproteomic analysis unravels MAPK1 regulated phosphoproteins in Leishmania donovani	12
Deep learning embedder method and tool for mass spectra similarity search	12
Blood-based protein biomarkers in bladder urothelial tumors	12
Guard cell redox proteomics reveals a role of lipid transfer protein in plant defense	12
TMT-based quantitative membrane proteomics identified PRRs potentially involved in the perception of MSP1 in rice leaves	12
TMT based proteomic profiling of Sophora alopecuroides leaves reveal flavonoid biosynthesis processes in response to salt stress	12
Global profiling of protein lysine malonylation in mouse cardiac hypertrophy	12
GeLC-Orbitrap/MS and 2-DE-MALDI-TOF/TOF comparative proteomics analysis of seed cotyledons from the non-orthodox Quercus ilex tree species	12
Analysis of differentially abundant proteins related to boar fertility in seminal plasma using iTRAQ-based quantitative proteomics	12
Integrated metabolomics and proteomics analysis reveals energy metabolism disorders in the livers of sleep-deprived mice	12
New insight into the rapid growth of the Mikania micrantha stem based on DIA proteomic and RNA-Seq analysis	12
Urinary epidermal growth factor is a novel biomarker for early diagnosis of antibody mediated kidney allograft rejection: A urinary proteomics analysis	11
Integrative transcriptomic-proteomic analysis revealed the flavor formation mechanism and antioxidant activity in rice-acid inoculated with Lactobacillus paracasei and Kluyveromyces marxianus	11
Speciomics as a concept involving chemical speciation and omics	11
The anti-oxidative potential of ginger extract and its constituent on meat protein isolate under induced Fenton oxidation	11
Ancient enamel peptides recovered from the South American Pleistocene species Notiomastodon platensis and Myocastor cf. coypus	11
Deviant proteome profile of equine granulocytes associates to latent activation status in organ specific autoimmune disease	11
Changes on proteomic and metabolomic profiling of cryopreserved sperm effected by melatonin	11
In-depth proteomic analysis of proteasome inhibitors bortezomib, carfilzomib and MG132 reveals that mortality factor 4-like 1 (MORF4L1) protein ubiquitylation is negatively impacted	11
Proteome and phosphoproteome characterization of liver in the postprandial state from diet-induced obese and lean mice	11
A composite filter for low FDR of protein-protein interactions detected by in vivo cross-linking	11
Secretomic insight into the biomass hydrolysis potential of the phytopathogenic fungus Chrysoporthe cubensis	11
Data independent acquisition of plasma biomarkers of response to neoadjuvant chemotherapy in pancreatic ductal adenocarcinoma	11
Liver proteomics analysis reveals abnormal metabolism of bile acid and arachidonic acid in Chinese hamsters with type 2 diabetes mellitus	11
A systematic evaluation of yeast sample preparation protocols for spectral identifications, proteome coverage and post-isolation modifications	10
Litopenaeus vannamei Notch interacts with COP9 signalosome complex subunit 1 (CNS1) to negatively regulate the NF-κB pathway	10
Proteomic insights of chitosan mediated inhibition of Fusarium oxysporum f. sp. cucumerinum	10
A new method for purifying N-Glycans released from milk glycoprotein	10
Identification of cellular proteins interacting with PEDV M protein through APEX2 labeling	10
Label-free plasma proteomics for the identification of the putative biomarkers of oral squamous cell carcinoma	10
The effects of sample handling on proteomics assessed by reverse phase protein arrays (RPPA): Functional proteomic profiling in leukemia	10
Proteomic profile of polar filament and polar tube from fungal pathogen microsporidium Nosema bombycis provides new insights into its unique invasion organelle	10
Integrated proteomic and transcriptomic analysis reveals that polymorphic shell colors vary with melanin synthesis in Bellamya purificata snail	10
Immunoproteomic identification of allergenic proteins in pecan (Carya illinoinensis) pollen	10
Comparative proteomics for an in-depth understanding of bioadhesion mechanisms and evolution across metazoans	10
Identification of proteins related with pemetrexed resistance by iTRAQ and PRM-based comparative proteomic analysis and exploration of IGF2BP2 and FOLR1 functions in non-small cell lung cancer cells	10
Leukocyte proteomics coupled with serum metabolomics identifies novel biomarkers and abnormal amino acid metabolism in Kawasaki disease	10
SILAC-based quantitative MS approach reveals Withaferin A regulated proteins in prostate cancer	10
Comparison of extracellular matrix enrichment protocols for the improved characterization of the skin matrisome by mass spectrometry	10
Distinct salinity-induced changes in wheat metabolic machinery in different root tissue types	10
iTRAQ-based analysis for the identification of MARCH8 targets in human esophageal squamous cell carcinoma	10
Tissue- and isoform-specific protein complex analysis with natively processed bait proteins	10
Transcriptome assisted label free proteomics of hepatic tissue in response to both dietary restriction and compensatory growth in cattle	10
Effect of hazelnut skin by-product supplementation in lambs' diets: Implications on plasma and muscle proteomes and first insights on the underlying mechanisms	10
Chronic restraint stress induced changes in colonic homeostasis-related indexes and tryptophan-kynurenine metabolism in rats	10
Complementary liver and serum protein profile in wild boars infected by the giant liver fluke Fascioloides magna using tandem mass tags quantitative approach	10
Stress response of lettuce (Lactuca sativa) to environmental contamination with selected pharmaceuticals: A proteomic study	10
Comparative proteomics and secretomics revealed virulence, and coresistance-related factors in non O1/O139 Vibrio cholerae recovered from 16 species of consumable aquatic animals	10
Proteomic approaches to characterize biochemistry of fresh beef color	10
Discovery and validation of bladder cancer related excreted nucleosides biomarkers by dilution approach in cell culture supernatant and urine using UHPLC-MS/MS	9
Proximity labeling methods for proteomic analysis of membrane proteins	9

Targeted mass spectrometry quantification of total soy protein residues from commercially processed ingredients for food allergen management	9
Comparative physiological and proteomic response to phosphate deficiency between two wheat genotypes differing in phosphorus utilization efficiency	9
Evaluating the impact of methionine-enriched diets in the liver of European seabass through label-free shotgun proteomics	9
PROTREC: A probability-based approach for recovering missing proteins based on biological networks	9
Global landscape of lysine acylomes in Bacillus subtilis	9
Comparative proteomics reveals genetic mechanisms of body weight in Hu sheep and Dorper sheep	9
A rapid and simple signature peptides-based method for species authentication of three main commercial Pheretima	9
Untangling the fibre ball: Proteomic characterization of South American camelid hair fibres by untargeted multivariate analysis and molecular networking	9
Comparative venomics and preclinical efficacy evaluation of a monospecific Hemachatus antivenom towards sub-Saharan Africa cobra venoms	9
The structure and function of soil archaea across biomes	9
Quantitative phosphoproteomics reveals the role of wild soybean GsSnRK1 as a metabolic regulator under drought and alkali stresses	9
Microfibril associated protein 4 (MFAP4) is a carrier of the tumor associated carbohydrate sialyl-Lewis x (sLex) in pancreatic adenocarcinoma	9
Influence of dietary Spirulina inclusion and lysozyme supplementation on the longissimus lumborum muscle proteome of newly weaned piglets	9
Distribution of seven ApoC-III glycoforms in plasma, VLDL, IDL, LDL and HDL of healthy subjects	9
Saliva-omics in plasma cell disorders- Proof of concept and potential as a non-invasive tool for monitoring disease burden	9
Identification of novel potential interaction partners of UDP-galactose (SLC35A2), UDP-N-acetylglucosamine (SLC35A3) and an orphan (SLC35A4) nucleotide sugar transporters	9
Quantitative proteomic analysis of trachea in fatting pig exposed to ammonia	9
Salt stress downregulates 2-hydroxybutyrylation in Arabidopsis siliques	9
DIA-based analysis of the menstrual blood proteome identifies association between CXCL5 and IL1RN and endometriosis	9
Identification of ticks from an old collection by MALDI-TOF MS	9
New baits for fishing in cultural heritage's Mare Magnum	9
Integrated tissue proteome and metabolome reveal key elements and regulatory pathways in cutaneous squamous cell carcinoma	9
Quantitative analysis of proteins secreted by Leishmania (Viannia) braziliensis strains associated to distinct clinical manifestations of American Tegumentary Leishmaniasis	9
Comprehensive serum proteomic analysis in early endometrial cancer	9
Growth media selection alters the proteome profiles of three model microorganisms	9
Multifaceted roles of the egg perivitelline layer in avian reproduction: Functional insights from the proteomes of chicken egg inner and outer sublayers	9
Proteomic analysis of peripheral blood mononuclear cells and inflammatory status in postpartum dairy cows supplemented with different sources of omega-3 fatty acids	9
A fingerprint of plasma proteome alteration after local tissue damage induced by Bothrops leucurus snake venom in mice	9
Integrating serum proteomics and metabolomics to compare the common and distinct features between acute aggressive ischemic stroke (APIS) and acute non-aggressive ischemic stroke (ANPIS)	8
Characterization and proteome analysis of the extracellular vesicles of Phytophthora capsici	8
Structurally related (−)-epicatechin metabolites and gut microbiota derived metabolites exert genomic modifications via VEGF signaling pathways in brain microvascular endothelial cells under lipotoxic	8
Deep learning for peptide identification from metaproteomics datasets	8
Post-mortem muscle proteome of crossbred bulls and steers: Relationships with carcass and meat quality	8
A wide-ranging Pseudomonas aeruginosa PeptideAtlas build: A useful proteomic resource for a versatile pathogen	8
Proteomic evidence for the silk fibroin genes of spider mites (Order Trombidiformes: Family Tetranychidae)	8
Proteomic analysis of liver tissue reveals Aeromonas hydrophila infection mediated modulation of host metabolic pathways in Labeo rohita	8
Composition and abundance of midgut surface proteins in the Asian citrus psyllid, Diaphorina citri	8
Protein sulfenylation contributes to oxidative burst-triggered responses during the interaction between Botrytis cinerea and Nicotiana benthamiana	8
Effects of age on subcutaneous adipose tissue proteins in Chinese indigenous Ningxiang pig by TMT-labeled quantitative proteomics	8
The role of methyl jasmonate in enhancing biomass yields and bioactive metabolites in Stauroneis sp. (Bacillariophyceae) revealed by proteome and biochemical profiling	8
Using feature selection and Bayesian network identify cancer subtypes based on proteomic data	8
Fe3+-NTA magnetic beads as an alternative to spin column-based phosphopeptide enrichment	8
Tear dynamics testing and quantitative proteomics analysis in patients with chronic renal failure	8
Quantitative proteomic analysis of scleras in guinea pig exposed to wavelength defocus	8
Expanding the neutralization scope of the Central American antivenom (PoliVal-ICP) to include the venom of Crotalus durissus pifanorum	8
Proteomics unravels new candidate genes of Dasypyrum villosum for improving wheat quality	8
Proteomic analysis of Rhodospirillum rubrum after carbon monoxide exposure reveals an important effect on metallic cofactor biosynthesis	8
Proteomic analysis of hypothalamus in prepubertal and pubertal female goat	8
TMT-based quantitative proteomics analyses of sterile/fertile anthers from a genic male-sterile line and its maintainer in cotton (Gossypium hirsutum L.)	8
Identification of 4-hydroxynonenal-modified proteins in human osteoarthritic chondrocytes	8
The potential of metabolomics in meat science: Current applications, trends, and challenges	8
Proteomic quantification of perturbation to pharmacokinetic target proteins in liver disease	8
A comprehensive update on Capsicum proteomics: Advances and future prospects	8
Blood plasma proteome alteration after local tissue damage induced by Bothrops erythromelas snake venom in mice	8
Enterococcus faecium NCIMB10415 responds to norepinephrine by altering protein profiles and phenotypic characters	8
Transcriptomic and proteomic responses to brown plant hopper (Nilaparvata lugens) in cultivated and Bt-transgenic rice (Oryza sativa) and wild rice (O. rufipogon)	8
Proteome profiling of the prefrontal cortex of Fmr1 knockout mouse reveals enhancement of complement and coagulation cascades	8
Proteomic analysis of liver tissues in chicken embryo at Day 16 and Day 20 reveals antioxidant mechanisms	8
Proteomic analysis of the mitochondrial glucocorticoid receptor interacting proteins reveals pyruvate dehydrogenase and mitochondrial 60 kDa heat shock protein as potent binding partners	8
The Secretome landscape of Escherichia coli O157:H7: Deciphering the cell-surface, outer membrane vesicle and extracellular subproteomes	8
FOXL1+ Telocytes in mouse colon orchestrate extracellular matrix biodynamics and wound repair resolution	8
The mitochondrial isoform glutathione peroxidase 3 (OsGPX3) is involved in ABA responses in rice plants	8