Main Page

From NMReDATA
Revision as of 12:45, 3 April 2019 by Admin (talk | contribs)
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search

Quick links

Important annoncement: On Sept 26, 2019 the First NMReDATA symposium will take place in Porto, Portugal.

Direct link to the page describing the format of the NMREDATA tags.

List of compatible software

Tentative instruction for journal submission of NMReDATA.

Link to the GitHub page of the NMReDATA Initiative.

Discussion on future versions of the NMReDATA format

Introduction

The NMReDATA working group decided to include data extracted from NMR spectra of small molecules in SDF files using SD tags.

Link to the MRC article on the NMReDATA format.

An important task of the group is to define the format of the content of the "<NMREDATA_...>" tags. More details here!.

The version 1.0 will be decided in September at the "Round table" of the Smash 2017 conference at Baveno, Italy.

The SDF file alone (that is without the spectra) cannot be used to verify that the assignment corresponds to the spectra. It is therefore important to always have the spectra with the SDF file! We call "NMR Record" the combination of the spectra and the SDF file.

NMR records

We call "NMR record", a folder (or .zip file including the folder) or a database record including:

1) All the NMR spectra (including FID, acquisition and processing parameters). The format of these data is as produced by the manufacturer of the instrument which acquired the data. That means that software generating the data either has these crude data available or it will ask the user to point to the crude data in order to include them in the NMR record.

2) The SDF file including the NMReDATA (.nmredata.sdf file)

NMR record

A more detailed pictorial representation of NMR record and example of SDF file presented in the poster presented in July at the Euromar 2017. Note: The NMREDATA tag "SIGNALS" was renamed "ASSIGNMENT" in Version 0.98.

NMR records will be requested by Magnetic Resonance in Chemistry from 2018 on. The editors of software (ADC/Labs, Bruker, cheminfo, Mestrelab) will be ready by the end of 2017 to produce MNR records for submission to MRC.

Records will be either analysed on web pages, or downloaded, and the nmredata.sdf file opened by the software which will access automatically to the associated spectra.

The full description can be found in the NMReDATA tag format page.

An example of .nmredata.sdf files with the spectra can be found here

Current version of the format of NMReDATA

The format can be found here : NMReDATA tag format

A small set of simple examples of .nmredata.sdf files can be found here (Version 0.95). (Note: the field called "NMREDATA_SIGNALS" was renamed "NMREDATA_ASSIGNMENT" in V 0.98). It includes .nmredata.sdf files for ethanol with diverse formats (explicit or implicit hydrogen atoms, etc.)

Versions

Changes to Versions 1.1

Addition of backslash at the end of the line in text of the NMReDATA tags. (This is to avoid the problem that CDK librairies ignore the NewLine character (ASCII 10). Since we need a line separator, we use backslash + NewLine in NMReDATA tags). (More details.)

Changes to Versions 2.0

The version 2 is under development. It will probably include the following changes:

  • Possibility to add a 3D structure (on top of the "flat" 2D structure).
  • Possibility to add author and institution information (to facilitate integration of these data in repositories).
  • etc.

Discussion and complete list on future versions of the NMReDATA format