当前位置： SCI文献检索 > INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES期刊下所有文献 > Advantages and Pitfalls of Mass Spectrometry Based Metabolome Profiling in Systems Biology.

Advantages and Pitfalls of Mass Spectrometry Based Metabolome Profiling in Systems Biology.

Abstract：

:Mass spectrometry-based metabolome profiling became the method of choice in systems biology approaches and aims to enhance biological understanding of complex biological systems. Genomics, transcriptomics, and proteomics are well established technologies and are commonly used by many scientists. In comparison, metabolomics is an emerging field and has not reached such high-throughput, routine and coverage than other omics technologies. Nevertheless, substantial improvements were achieved during the last years. Integrated data derived from multi-omics approaches will provide a deeper understanding of entire biological systems. Metabolome profiling is mainly hampered by its diversity, variation of metabolite concentration by several orders of magnitude and biological data interpretation. Thus, multiple approaches are required to cover most of the metabolites. No software tool is capable of comprehensively translating all the data into a biologically meaningful context yet. In this review, we discuss the advantages of metabolome profiling and main obstacles limiting progress in systems biology.

journal_name

Int J Mol Sci

journal_title

International journal of molecular sciences

authors

Aretz I,Meierhofer D

doi

10.3390/ijms17050632

subject

Has Abstract

pub_date

2016-04-27 00:00:00

issue

5

issn

1422-0067

pii

ijms17050632

journal_volume

17

pub_type

杂志文章,评审

相关文献

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES文献大全
  • RNA Chaperone Function of a Universal Stress Protein in Arabidopsis Confers Enhanced Cold Stress Tolerance in Plants.

    abstract：:The physiological function of Arabidopsis thaliana universal stress protein (AtUSP) in plant has remained unclear. Thus, we report here the functional role of the Arabidopsis universal stress protein, AtUSP (At3g53990). To determine how AtUSP affects physiological responses towards cold stress, AtUSP overexpression (A...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms18122546

    authors： Melencion SMB,Chi YH,Pham TT,Paeng SK,Wi SD,Lee C,Ryu SW,Koo SS,Lee SY

    更新日期：2017-11-27 00:00:00

  • SPACIA1/SAAL1 Deletion Results in a Moderate Delay in Collagen-Induced Arthritis Activity, along with mRNA Decay of Cyclin-dependent Kinase 6 Gene.

    abstract：:This study was performed to elucidate the molecular function of the synoviocyte proliferation-associated in collagen-induced arthritis (CIA) 1/serum amyloid A-like 1 (SPACIA1/SAAL1) in mice CIA, an animal model of rheumatoid arthritis (RA), and human RA-synovial fibroblasts (RASFs). SPACIA1/SAAL1-deficient mice were g...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms19123828

    authors： Fujii R,Komatsu R,Sato T,Seki I,Konomi K,Aono H,Niki H,Yudoh K,Nishioka K,Nakajima T

    更新日期：2018-11-30 00:00:00

  • Design and synthesis of chiral Zn2+ complexes mimicking natural aldolases for catalytic C-C bond forming reactions in aqueous solution.

    abstract：:Extending carbon frameworks via a series of C-C bond forming reactions is essential for the synthesis of natural products, pharmaceutically active compounds, active agrochemical ingredients, and a variety of functional materials. The application of stereoselective C-C bond forming reactions to the one-pot synthesis of...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms15022087

    authors： Itoh S,Sonoike S,Kitamura M,Aoki S

    更新日期：2014-01-29 00:00:00

  • Insight in Adhesion Protein Sialylation and Microgravity Dependent Cell Adhesion-An Omics Network Approach.

    abstract：:The adhesion behavior of human tissue cells changes in vitro, when gravity forces affecting these cells are modified. To understand the mechanisms underlying these changes, proteins involved in cell-cell or cell-extracellular matrix adhesion, their expression, accumulation, localization, and posttranslational modifica...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21051749

    authors： Bauer TJ,Gombocz E,Wehland M,Bauer J,Infanger M,Grimm D

    更新日期：2020-03-04 00:00:00

  • Identification of NPB, NPW and Their Receptor in the Rat Heart.

    abstract：:Members of neuropeptide B/W signaling system have been predominantly detected and mapped within the CNS. In the rat, this system includes neuropeptide B (NPB), neuropeptide W (NPW) and their specific receptor NPBWR1. This signaling system has a wide spectrum of functions including a role in modulation of inflammatory ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21217827

    authors： Pandey S,Tuma Z,Peroni E,Monasson O,Papini AM,Chottova Dvorakova M

    更新日期：2020-10-22 00:00:00

  • Transcriptome-Wide Identification and Expression Profiling Analysis of Chrysanthemum Trihelix Transcription Factors.

    abstract：:Trihelix transcription factors are thought to feature a typical DNA-binding trihelix (helix-loop-helix-loop-helix) domain that binds specifically to the GT motif, a light-responsive DNA element. Members of the trihelix family are known to function in a number of processes in plants. Here, we characterize 20 trihelix f...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms17020198

    authors： Song A,Wu D,Fan Q,Tian C,Chen S,Guan Z,Xin J,Zhao K,Chen F

    更新日期：2016-02-02 00:00:00

  • Organic analysis of peridotite rocks from the Ashadze and Logatchev hydrothermal sites.

    abstract：:This article presents an experimental analysis of the organic content of two serpentinized peridotite rocks of the terrestrial upper mantle. The samples have been dredged on the floor of the Ashadze and Logatchev hydrothermal sites on the Mid-Atlantic Ridge. In this preliminary analysis, amino acids and long chain n-a...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms10072986

    authors： Bassez MP,Takano Y,Ohkouchi N

    更新日期：2009-07-03 00:00:00

  • Proteomic challenges: sample preparation techniques for microgram-quantity protein analysis from biological samples.

    abstract：:Proteins regulate many cellular functions and analyzing the presence and abundance of proteins in biological samples are central focuses in proteomics. The discovery and validation of biomarkers, pathways, and drug targets for various diseases can be accomplished using mass spectrometry-based proteomics. However, with...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms16023537

    authors： Feist P,Hummon AB

    更新日期：2015-02-05 00:00:00

  • Comparative Study of Interactions between Human cGAS and Inhibitors: Insights from Molecular Dynamics and MM/PBSA Studies.

    abstract：:Recent studies have identified cyclic GMP-AMP synthase (cGAS) as an important target for treating autoimmune diseases, and several inhibitors of human cGAS (hcGAS) and their structures in complexation with hcGAS have been reported. However, the mechanisms via which these inhibitors interact with hcGAS are not complete...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms22031164

    authors： Wang X,Li W

    更新日期：2021-01-25 00:00:00

  • Proteome and peptidome of human acquired enamel pellicle on deciduous teeth.

    abstract：:Understanding the composition and structure of the acquired enamel pellicle (AEP) has been a major goal in oral biology. Our lab has conducted studies on the composition of AEP formed on permanent enamel. The exhaustive exploration has provided a comprehensive identification of more than 100 proteins from AEP formed o...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms14010920

    authors： Zimmerman JN,Custodio W,Hatibovic-Kofman S,Lee YH,Xiao Y,Siqueira WL

    更新日期：2013-01-07 00:00:00

  • Effect of Estradiol on Neurotrophin Receptors in Basal Forebrain Cholinergic Neurons: Relevance for Alzheimer's Disease.

    abstract：:The basal forebrain is home to the largest population of cholinergic neurons in the brain. These neurons are involved in a number of cognitive functions including attention, learning and memory. Basal forebrain cholinergic neurons (BFCNs) are particularly vulnerable in a number of neurological diseases with the most n...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms17122122

    authors： Kwakowsky A,Milne MR,Waldvogel HJ,Faull RL

    更新日期：2016-12-17 00:00:00

  • Active and Repressive Chromatin-Associated Proteome after MPA Treatment and the Role of Midkine in Epithelial Monolayer Permeability.

    abstract：UNLABELLED:Mycophenolic acid (MPA) is prescribed to maintain allografts in organ-transplanted patients. However, gastrointestinal (GI) complications, particularly diarrhea, are frequently observed as a side effect following MPA therapy. We recently reported that MPA altered the tight junction (TJ)-mediated barrier func...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms17040597

    authors： Khan N,Lenz C,Binder L,Pantakani DV,Asif AR

    更新日期：2016-04-20 00:00:00

  • Rheumatoid Arthritis: The Stride from Research to Clinical Practice.

    abstract：:Over 70 different genetic variants with a significant association with rheumatoid arthritis (RA) have been discovered. Anti-citrullination protein antibodies (ACPA)-positive RA variants are more well-defined than their ACPA-negative counterparts. The human leukocyte antigen, HLA-DRB1 locus remains the prime suspect in...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms17060900

    authors： Chung IM,Ketharnathan S,Thiruvengadam M,Rajakumar G

    更新日期：2016-06-08 00:00:00

  • The Effects of Early-Onset Pre-Eclampsia on Placental Creatine Metabolism in the Third Trimester.

    abstract：:Creatine is a metabolite important for cellular energy homeostasis as it provides spatio-temporal adenosine triphosphate (ATP) buffering for cells with fluctuating energy demands. Here, we examined whether placental creatine metabolism was altered in cases of early-onset pre-eclampsia (PE), a condition known to cause ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21030806

    authors： Ellery SJ,Murthi P,Gatta PAD,May AK,Davies-Tuck ML,Kowalski GM,Callahan DL,Bruce CR,Wallace EM,Walker DW,Dickinson H,Snow RJ

    更新日期：2020-01-26 00:00:00

  • Revisiting Platelets and Toll-Like Receptors (TLRs): At the Interface of Vascular Immunity and Thrombosis.

    abstract：:While platelet function has traditionally been described in the context of maintaining vascular integrity, recent evidence suggests that platelets can modulate inflammation in a much more sophisticated and nuanced manner than previously thought. Some aspects of this expanded repertoire of platelet function are mediate...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms21176150

    authors： Hally K,Fauteux-Daniel S,Hamzeh-Cognasse H,Larsen P,Cognasse F

    更新日期：2020-08-26 00:00:00

  • USP19-Mediated Deubiquitination Facilitates the Stabilization of HRD1 Ubiquitin Ligase.

    abstract：:In the endoplasmic reticulum (ER), misfolded and unfolded proteins are eliminated by a process called ER-associated protein degradation (ERAD) in order to maintain cell homeostasis. In the ERAD pathway, several ER-localized E3 ubiquitin ligases target ERAD substrate proteins for ubiquitination and subsequent proteasom...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms17111829

    authors： Harada K,Kato M,Nakamura N

    更新日期：2016-11-02 00:00:00

  • Effects of sesamin on streptozotocin (STZ)-induced NIT-1 pancreatic β-cell damage.

    abstract：:The protective effect of sesamin (SES) from sesame meal on NIT-1 pancreatic β-cells damaged by streptozotocin (STZ) in vitro was investigated. The cell viability, insulin secretion, the activity of superoxide dismutase(SOD), glutathione peroxidase (GSHpx) and the content of reduced glutathione (GSH) increased signific...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms131216961

    authors： Lei H,Han J,Wang Q,Guo S,Sun H,Zhang X

    更新日期：2012-12-11 00:00:00

  • Parkin Coordinates Platelet Stress Response in Diabetes Mellitus: A Big Role in a Small Cell.

    abstract：:Increased platelet activation and apoptosis are characteristic of diabetic (DM) platelets, where a Parkin-dependent mitophagy serves a major endogenous protective role. We now demonstrate that Parkin is highly expressed in both healthy platelets and diabetic platelets, compared to other mitochondria-enriched tissues s...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21165869

    authors： Lee SH,Du J,Hwa J,Kim WH

    更新日期：2020-08-15 00:00:00

  • Enhanced Function and Overexpression of Metabotropic Glutamate Receptors 1 and 5 in the Spinal Cord of the SOD1G93A Mouse Model of Amyotrophic Lateral Sclerosis during Disease Progression.

    abstract：:Glutamate (Glu)-mediated excitotoxicity is a major cause of amyotrophic lateral sclerosis (ALS) and our previous work highlighted that abnormal Glu release may represent a leading mechanism for excessive synaptic Glu. We demonstrated that group I metabotropic Glu receptors (mGluR1, mGluR5) produced abnormal Glu releas...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms20184552

    authors： Bonifacino T,Rebosio C,Provenzano F,Torazza C,Balbi M,Milanese M,Raiteri L,Usai C,Fedele E,Bonanno G

    更新日期：2019-09-13 00:00:00

  • Genome-Wide Organization and Expression Profiling of the SBP-Box Gene Family in Chinese Jujube (Ziziphus jujuba Mill.).

    abstract：:Transcription factors play vital roles in the developmental processes of plants. The SQUAMOSA promoter binding protein (SBP) genes encode a family of plant-specific transcription factors and plays many crucial roles in plant development. In this study, 16 SBP-box gene family members were identified in Ziziphus jujuba ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms18081734

    authors： Song S,Zhou H,Sheng S,Cao M,Li Y,Pang X

    更新日期：2017-08-15 00:00:00

  • Structure-Dependent Effects of Phthalates on Intercellular and Intracellular Communication in Liver Oval Cells.

    abstract：:Humans are exposed to phthalates released from plastics, cosmetics, or food on a daily basis. Phthalates have low acute liver toxicity, but their chronic exposures could induce molecular and cellular effects linked to adverse health outcomes, such as liver tumor promotion or chronic liver diseases. The alternation of ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21176069

    authors： Čtveráčková L,Jančula D,Raška J,Babica P,Sovadinová I

    更新日期：2020-08-23 00:00:00

  • A Genome-Wide Methylation Approach Identifies a New Hypermethylated Gene Panel in Ulcerative Colitis.

    abstract：:The cause of inflammatory bowel disease (IBD) is still unknown, but there is growing evidence that environmental factors such as epigenetic changes can contribute to the disease etiology. The aim of this study was to identify newly hypermethylated genes in ulcerative colitis (UC) using a genome-wide DNA methylation ap...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms17081291

    authors： Kang K,Bae JH,Han K,Kim ES,Kim TO,Yi JM

    更新日期：2016-08-09 00:00:00

  • CPP-Assisted Intracellular Drug Delivery, What Is Next?

    abstract：:For the past 20 years, we have witnessed an unprecedented and, indeed, rather miraculous event of how cell-penetrating peptides (CPPs), the naturally originated penetrating enhancers, help overcome the membrane barrier that has hindered the access of bio-macromolecular compounds such as genes and proteins into cells, ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms17111892

    authors： Ye J,Liu E,Yu Z,Pei X,Chen S,Zhang P,Shin MC,Gong J,He H,Yang VC

    更新日期：2016-11-14 00:00:00

  • The Role of the Microbiome in Oral Squamous Cell Carcinoma with Insight into the Microbiome-Treatment Axis.

    abstract：:Oral squamous cell carcinoma (OSCC) is one of the leading presentations of head and neck cancer (HNC). The first part of this review will describe the highlights of the oral microbiome in health and normal development while demonstrating how both the oral and gut microbiome can map OSCC development, progression, treat...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms21218061

    authors： Sami A,Elimairi I,Stanton C,Ross RP,Ryan CA

    更新日期：2020-10-29 00:00:00

  • Instillation of Sericin Enhances Corneal Wound Healing through the ERK Pathway in Rat Debrided Corneal Epithelium.

    abstract：:Sericin is a major constituent of silk produced by silkworms. We previously found that the instillation of sericin enhanced the proliferation of corneal epithelial cells, and acted to promote corneal wound healing in both normal and diabetic model rats. However, the mechanisms by which sericin promotes the proliferati...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms19041123

    authors： Nagai N,Fukuoka Y,Ishii M,Otake H,Yamamoto T,Taga A,Okamoto N,Shimomura Y

    更新日期：2018-04-09 00:00:00

  • The Role of Vitamin D in Modulating Mesenchymal Stem Cells and Endothelial Progenitor Cells for Vascular Calcification.

    abstract：:Vascular calcification, which involves the deposition of calcifying particles within the arterial wall, is mediated by atherosclerosis, vascular smooth muscle cell osteoblastic changes, adventitial mesenchymal stem cell osteoblastic differentiation, and insufficiency of the calcification inhibitors. Recent observation...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms21072466

    authors： Hou YC,Lu CL,Zheng CM,Liu WC,Yen TH,Chen RM,Lin YF,Chao CT,Lu KC

    更新日期：2020-04-02 00:00:00

  • Negative Correlation between the Diffusion Coefficient and Transcriptional Activity of the Glucocorticoid Receptor.

    abstract：:The glucocorticoid receptor (GR) is a transcription factor, which interacts with DNA and other cofactors to regulate gene transcription. Binding to other partners in the cell nucleus alters the diffusion properties of GR. Raster image correlation spectroscopy (RICS) was applied to quantitatively characterize the diffu...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms18091855

    authors： Mikuni S,Yamamoto J,Horio T,Kinjo M

    更新日期：2017-08-25 00:00:00

  • Late-Onset N-Acetylglutamate Synthase Deficiency: Report of a Paradigmatic Adult Case Presenting with Headaches and Review of the Literature.

    abstract：:N-acetylglutamate synthase deficiency (NAGSD) is an extremely rare urea cycle disorder (UCD) with few adult cases so far described. Diagnosis of late-onset presentations is difficult and delayed treatment may increase the risk of severe hyperammonemia. We describe a 52-year-old woman with recurrent headaches who exper...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms19020345

    authors： Cavicchi C,Chilleri C,Fioravanti A,Ferri L,Ripandelli F,Costa C,Calabresi P,Prontera P,Pochiero F,Pasquini E,Funghini S,la Marca G,Donati MA,Morrone A

    更新日期：2018-01-24 00:00:00

  • PFKFB2 Promoter Hypomethylation as Recurrence Predictive Marker in Well-Differentiated Thyroid Carcinomas.

    abstract：:Despite the low mortality rates, well-differentiated thyroid carcinomas (WDTC) frequently relapse. BRAF and TERT mutations have been extensively related to prognosis in thyroid cancer. In this study, the methylation levels of selected CpGs (5-cytosine-phosphate-guanine-3) comprising a classifier, previously reported b...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms20061334

    authors： Camargo Barros-Filho M,Barreto Menezes de Lima L,Bisarro Dos Reis M,Bette Homem de Mello J,Moraes Beltrami C,Lopes Pinto CA,Kowalski LP,Rogatto SR

    更新日期：2019-03-16 00:00:00

  • An In Vivo Study of a Rat Fluid-Percussion-Induced Traumatic Brain Injury Model with [11C]PBR28 and [18F]flumazenil PET Imaging.

    abstract：:Traumatic brain injury (TBI) modelled by lateral fluid percussion-induction (LFPI) in rats is a widely used experimental rodent model to explore and understand the underlying cellular and molecular alterations in the brain caused by TBI in humans. Current improvements in imaging with positron emission tomography (PET)...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms22020951

    authors： Ghosh KK,Padmanabhan P,Yang CT,Wang Z,Palanivel M,Ng KC,Lu J,Carlstedt-Duke J,Halldin C,Gulyás B

    更新日期：2021-01-19 00:00:00