ReviewCurrent opinion in chemical biology2016
A roadmap for the XCMS family of software solutions in metabolomics.
Review in Current opinion in chemical biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 74 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
74 citing papers in PubMed.
- Distinct Lipid Compositions in Seawater and the Sea Surface Microlayer Measured with Liquid Chromatography and High-Resolution Mass Spectrometry.ACS earth & space chemistry · 2026Article
- A Two-Step Prioritization Framework for the Nontargeted LC-HRMS Analysis of Chemicals of Environmental Concern and Byproducts during Drinking Water Production.ACS measurement science au · 2026Article
- Decoding cancer across scales with metabolomics.Nature reviews. Cancer · 2026Review
- Artificial intelligence-based screening of phytochemicals for targeted cancer therapy.Natural products and bioprospecting · 2026Review
- A versatile toolkit for drug metabolism studies with GNPS2: from drug development to clinical monitoring.Nature protocols · 2026Review
- Nontargeted Screening in Environmental Monitoring Programs: An Update.Advances in experimental medicine and biology · 2026Review
- A stochastic approach for parameter optimization of feature detection algorithms for non-target screening in mass spectrometry.Analytical and bioanalytical chemistry · 2025Article
- Preoptic activation induces a torpor-like hypothermic and hypometabolic state that is cerebroprotective.bioRxiv : the preprint server for biology · 2025Article
- Effective data visualization strategies in untargeted metabolomics.Natural product reports · 2025Review
- Proteomic and metabolic profiling revealsbioRxiv : the preprint server for biology · 2025Article
- [A review and research prospects on the application of the XCMS mass-spectrometry data-processing software in the environmental science field].Se pu = Chinese journal of chromatography · 2025Review
- Fungal Metabolomics: A Comprehensive Approach to Understanding Pathogenesis in Humans and Identifying Potential Therapeutics.Journal of fungi (Basel, Switzerland) · 2025Review
- Comparative transcriptomics and metabolomics provide insight into degeneration-related physiological mechanisms of Morchella importuna after long-term preservation.Microbial biotechnology · 2025Article
- Metabolomic profiling in a rat model of visual fatigue associated with liver-kidney yin deficiency syndrome.Frontiers in endocrinology · 2025Article
- Article
- Intracellular metabolomic profiling of Picochlorum sp. under diurnal conditions mimicking outdoor light, temperature, and seasonal variations.Metabolomics : Official journal of the Metabolomic Society · 2024Article
- Advances in metabolomics profiling of pediatric kidney diseases: A review.Biomolecules & biomedicine · 2024Review
- Common data models to streamline metabolomics processing and annotation, and implementation in a Python pipeline.PLoS computational biology · 2024Article
- Comprehensive Characterization of Triterpene Saponins in Rhizoma Panacis Japonici by Offline Two-Dimensional Liquid Chromatography Coupled to Quadrupole Time-of-Flight Mass Spectrometry.Molecules (Basel, Switzerland) · 2024Article
- Common data models to streamline metabolomics processing and annotation, and implementation in a Python pipeline.bioRxiv : the preprint server for biology · 2024Article
14 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Global profiling of metabolites in biological samples by liquid chromatography/mass spectrometry results in datasets too large to evaluate manually. Fortunately, a variety of software programs are now available to automate the data analysis. Selection of the appropriate processing solution is dependent upon experimental design. Most metabolomic studies a decade ago had a relatively simple experimental design in which the intensities of compounds were compared between only two sample groups. More recently, however, increasingly sophisticated applications have been pursued. Examples include comparing compound intensities between multiple sample groups and unbiasedly tracking the fate of specific isotopic labels. The latter types of applications have necessitated the development of new software programs, which have introduced additional functionalities that facilitate data analysis. The objective of this review is to provide an overview of the freely available bioinformatic solutions that are either based upon or are compatible with the algorithms in XCMS, which we broadly refer to here as the 'XCMS family' of software. These include CAMERA, credentialing, Warpgroup, metaXCMS, X(13)CMS, and XCMS Online. Together, these informatic technologies can accommodate most cutting-edge metabolomic applications and offer unique advantages when compared to the original XCMS program.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.