PRIMe: Platform for RIKEN Metabolomics

PRIMe ,the Platform for RIKEN Metabolomics, is a Web-based service for metabolomics and transcriptomics as systems for understanding life. This project measures standard metabolites by means of multi-dimensional NMR spectroscopy, GC/MS, LC/MS, and CE/MS. We also provide unique tools for metabolomics, transcriptomics, and integrated analysis of a range of other "-omics" data.

Latest News
June 27 ,2018 [PlaSMA] Newly opened.
► Change log

February 11, 2017

Computational metabolomics

The room of Dr. Hiroshi Tsugawa, PhD. MS-DIAL, MS-FINDER, MRMPROBS, MRM-DIFF, SmetSearch, Curated EI-MS and MS/MS databases, AIoutput, and Excel Macro applications.

January 16, 2017

DROP Met

Contains various datasets obtained from mass spectrometer-based metabolome analyses.

June 27, 2018

PlaSMA

Plant Specialized Metabolome Annotation.

June 2, 2015

PASMet

A web-based platform for predicting, modelling and analysing metabolic systems.

April 28, 2014

MeKO

Metabolomic characterization of 50 Arabidopsis mutants and the database as a functional genomics tool.

January 24, 2014

MetBoard

MetBoard provides information of standard compounds which can be divided from providers for collaboration work.

November 11, 2013

ReSpect for Phytochemicals

A collection of literature and in-house MSn spectra data for the plant metabolomics research.

Mar 31, 2017

HIFI

Heteroatom-containing Ion Finder (HIFI) is a tool for Liquid chromatography Fourier transfer ion cyclotron resonance-mass spectrometry.

October 31, 2012

PRIMeLink

Innovative integration of the databases in PRIMe and bi-directionalsearchable function from the gene or metabolite perspective.

August 10, 2011

AtMetExpress

AtMetExpress LC-MS ia a phytochemical atlas of Arabidopsis thaliana. Now, following two datasets are available.

January 20, 2010

LC-MS Branch

Liquid chromatography-mass spectrometry (LC-MS) branch of the Platform for RIKEN Metabolomics (PRIMe) pipeline is now ready for the analysis of plant secondary metabolites.

July 4, 2009

MS/MS spectral tag (MS2T) viewer

MS/MS spectral libraries of plant secondary metabolites created for LC-MS metabolomics.

November 15, 2007

KNApSAcK

A comprehensive species-metabolite relationships database.

August 30,2006

Standard Spectrum Search

A database of the standardized spectra of a range of compounds based on NMR chemical shifts and on GC and LC mass spectrometer.

December 30,2005

Simple BL-SOM

An application for creating a batch-learning self-organizing map.

Related Papers

Sakurai et al. (2013) PRIMe Update: Innovative Content for Plant Metabolomics and Integration of Gene Expression and Metabolite Accumulation.Plant Cell Physiol. 54:e5 [PubMed]

Akiyama et al. (2008) PRIMe: a Web site that assembles tools for metabolomics and transcriptomics. In Silico Biol. 8, 0027. </isb/2008/08/0027/> [PubMed]

2018-06-27

[PlaSMA] Newly opened.

2017-01-16

[DROP Met] Data was added.

2017-01-06

[DROP Met] Data was added.

2015-06-02

[PASMet] Newly opened.

2014-10-08

The directory [Targeted and Non-targeted analysis software] was moved to newly opened [Standalone software] section.

2014-06-19

[DROP Met] Data was added.

2014-01-24

[MetBoard] Newly opened.

2013-09-26

[DROP Met] Data was added.

2013-07-01

[DROP Met] Data was added.

2013-04-25

[DROP Met] Data was added.

2013-04-01

[Targeted and Non-targeted analysis software] Newly opened.

2013-02-15

[DROP Met] Data was added.

2013-02-13

[DROP Met] Data was added.

2012-10-31

[PRIMeLink] Newly opened.

2012-09-14

[SpinAssign] Added more than 510 NMR spectra for Methanol/HEPES extracted samples.

2012-08-10

[MeKO] Newly opened.

2011-08-10

[AtMetExpress] New content available.

2010-09-10

[ReSpect] Newly opened.

2009-04-07

[MS2T] Newly opened.

2008-06-26

[Standard spectrum search] Dramatically changed standard data, ex. 300% increase of NMR data, and version up of "current status" metabolic map.
[SpinAssign] Modified example input data to experimental plant extract, measured by our laboratory. Searching total of more than 500 of ¹³C-HSQC cross peaks with our new NMR data base.

2006-12-29

[SpinAssign] Released a stable service.
[Standard Spectrum Search] Released a stable service.
[Cluster Cutting] Changed the service name.
[Correlated Gene Search] Changed the service name.

2006-08-30

[Site Map] Added a page.
[Cluster Extract] Updated "Using Cluster Extract"
[Cluster Extract] Revised the cutting program.
[Coexpression Gene Search] Released a stable service.
[Coexpression Gene Search] Updated "Using Coexpression Gene Search"

2006-08-17

[Coexpression Gene Search] Added a Biolayout-compatible output format and revised the Pajek-compatible output format.