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LMSD specifications

Information


Unique identifier OMICS_21362
Name LMSD
Alternative name Lipid Maps Structure Database
Restrictions to use None
Database management system Oracle
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline Shankar Subramaniam

Publication for Lipid Maps Structure Database

LMSD citations

 (9)
library_books

Serum metabolic profiling identified a distinct metabolic signature in patients with idiopathic pulmonary fibrosis – a potential biomarker role for LysoPC

2018
PMCID: 5764001
PMID: 29321022
DOI: 10.1186/s12931-018-0714-2

[…] was set at q ≤ 0.05.Structure and formula of the isolated discriminative metabolic features were searched against the Human Metabolome Database (HMDB, version 3.6) and LIPID MAPS Structure Database (LMSD, version from December 6, 2016) with a mass accuracy of 8 ppm. Metabolic features with only one adduct ion were assumed to be [M + H]+ and [M-H]− ions in the positive and negative ionization mode […]

library_books

Navigating freely available software tools for metabolomics analysis

2017
Metabolomics
PMCID: 5550549
PMID: 28890673
DOI: 10.1007/s11306-017-1242-7

[…] Correlation analysis is first performed, followed by the annotation of isotopes, adducts, dimers, etc. The Manchester Metabolomics Database built from HMDB (Wishart et al. ), KEGG (Kanehisa et al. ), LMSD (Sud et al. ), BioCyc (Caspi et al. ) and DrugBank (Wishart et al. ) is then used for putative annotation.Implemented in R, both MetAssign (Daly et al. ) and ProbMetab (Silva et al. ) use Bayesia […]

library_books

Lipidomic profiling reveals distinct differences in plasma lipid composition in healthy, prediabetic, and type 2 diabetic individuals

2017
GigaScience
PMCID: 5502363
DOI: 10.1093/gigascience/gix036

[…] es, and those >30% were then removed. The high-resolution LC-MS/MS features were identified using Progenesis QI 2.0 by searching in the public databases including Human Metabolome Database (HMDB) [], LIPID MAPS Structure Database (LMSD) [], and LipidBlast [] with the mentioned parameters. To obtain reliable identification of the high-quality features, matching lipids were filtered by defined reten […]

library_books

LipidFrag: Improving reliability of in silico fragmentation of lipids and application to the Caenorhabditis elegans lipidome

2017
PLoS One
PMCID: 5344313
PMID: 28278196
DOI: 10.1371/journal.pone.0172311

[…] IDBANK (initiated in 1989) contains just over 7,000 records as of 2013, and can still be browsed on the (http://lipidbank.jp/) [].The Lipid Maps database and classification system structure database (LMSD) [] is a widely used resource for a systematic classification of lipids. It divides lipids into the eight major classes: fatty acyls (FA), glycerolipids (GL), glycerophospholipids (GP), sphingoli […]

library_books

Metabolic Profiles of Obesity in American Indians: The Strong Heart Family Study

2016
PLoS One
PMCID: 4951134
PMID: 27434237
DOI: 10.1371/journal.pone.0159548

[…] Bat implemented in MSPrep []. Potential metabolite identities were determined by performing an online search (10 ppm accuracy) against the Metlin database, the Human Metabolomics Database [], and the LIPID MAPS structure database []. Metabolite annotations were classified into different confidence levels based on the recommended confidence levels assignment for metabolite identification []. […]

library_books

Bioprospecting of Marine Macrophytes Using MS Based Lipidomics as a New Approach

2016
Mar Drugs
PMCID: 4820303
PMID: 27005634
DOI: 10.3390/md14030049

[…] ospholipids. The LIPID MAPS database classifies lipids into 8 categories: fatty acids, glycerolipids, sphingolipids, sterol lipids, prenol lipids, saccharolipids and polyketides []. The lipids in the LIPID MAPS Structure Database (LMSD) [] have been sorted using this classification system and have been assigned with LIPID MAPS ID’s. At present, a total of nearly 40,000 unique lipid structures can […]

Citations

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LMSD institution(s)
LIPID MAPS Bioinformatics Core, San Diego Supercomputer Center, San Diego, La Jolla, CA, USA; Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA, USA; Department of Pharmacology, University of California, San Diego, La Jolla, CA, USA; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Department of Bioengineering, University of California, San Diego, La Jolla, CA, USA; Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA, USA; Department of Pharmacology, Vanderbilt University Medical Center, Nashville, TN, USA; School of Biology, Georgia Institute of Technology, Atlanta, GA, USA; University of Colorado Health Sciences Center, Aurora, CO, USA; Department of Biochemistry, Duke University Medical Center, Durham, NC, USA; Department of Molecular Genetics, University of Texas Southwestern Medical Center, Dallas, TX, USA
LMSD funding source(s)
Supported by National Institutes of Health (NIH) and National Institute of General Medical Sciences (NIGMS) Glue Grant NIH/NIGMS Grant 1 U54 GM69338.

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