Dataset Open Access

Neonatal 3T PRESS Basis Sets (MARBLE)

Lally, Pete

Neonatal 3T basis sets used for the multi-site MARBLE study, simulated using Vespa. These correspond to the vendor-provided PRESS sequences used on Siemens, Philips and GE scanners, as described in Lally PJ, Montaldo P et al. Lancet Neuro 2019.

For each vendor, a basis set is provided for each of TE=60ms and TE=288ms.

File types:

  • .RAW files (compressed into RAW.zip) - includes additional metabolites which were not included in the final basis set, but could still be useful for other neonatal MRS studies.
    *In GSH, glycine component has an additional 10Hz Gaussian broadening applied, following Kaiser LG. et al. JMR 202.2 (2010): 259-266*
  • .in files - makebasis input file used to generate the fitting basis set from .RAW files
  • .basis files - fitting basis set.
    *For MARBLE, the following metabolites were omitted from the fit with 'CHOMIT' control parameters: AcAc, Acn, Etm, Ser. The following metabolites were also combined with 'CHCOMB' due to their strong correlation during fitting: Thr+Lac, Asc+GSH*
  • .pdf files - visualisation of the basis set components

Some specific details:

  • Narrow FWHM (1Hz Gaussian broadening) to allow accurate quantification of sharp linewidth neonatal spectra and undoped MRS phantoms.
  • Two versions of each basis set: i) each metabolite has a single component in the basis set (as usual); ii) singlet peaks of NAA, Cho, Cr are separated from other resonances to allow two-point T2 relaxometry between TEs (as used for MARBLE)
  • Ideal RF pulses are assumed
  • TE1,TE2 are adjusted according to vendor/TE
  • Reference singlet at 0ppm

If using this to calculate peak area ratios at TE=288ms, multiply the LCModel provided 'concentrations' by a factor of the number of protons that contribute to each peak (i.e. 3 for NAA singlet @ 2.0ppm, 3 for Cr singlet @ 3.0ppm, 3 for Lac+Thr doublet @ 1.3ppm, 9 for Cho singlet @ 3.2ppm) - this will give you relative peak areas which are consistently scaled.

Contact: p.lally [at] imperial.ac.uk

Files (514.7 MB)
Name Size
GE_PRESS_TE288_1HzG_MARBLE.basis
md5:35fa89b002b0c9ac469270a2d594e18a
25.1 MB Download
GE_PRESS_TE288_1HzG_MARBLE.in
md5:e78b84e181e6f3baad7d943b50db5b7a
6.0 kB Download
GE_PRESS_TE288_1HzG_MARBLE.pdf
md5:0c36265d88b3152c3c0c8d295930d02e
1.7 MB Download
GE_PRESS_TE288_1HzG_MARBLE_singlets.basis
md5:233a361cf4b48d041762ad9d57a3502a
27.7 MB Download
GE_PRESS_TE288_1HzG_MARBLE_singlets.in
md5:4c4d1a2494b886f54f05e4f6bb72e907
6.8 kB Download
GE_PRESS_TE288_1HzG_MARBLE_singlets.pdf
md5:09e680975f1cbbfecf28a71790c66b76
1.9 MB Download
GE_PRESS_TE60_1HzG_MARBLE.basis
md5:70d5e75b7adf75cf63995f02ab6e3180
25.1 MB Download
GE_PRESS_TE60_1HzG_MARBLE.in
md5:16ceea20a6e3cf22c4b687161592d3d8
6.0 kB Download
GE_PRESS_TE60_1HzG_MARBLE.pdf
md5:fbb80eebc9b8286438d3f89bf2e2fc29
1.7 MB Download
GE_PRESS_TE60_1HzG_MARBLE_singlets.basis
md5:73e4685d0ef4c1b119271ce52b994dec
27.7 MB Download
GE_PRESS_TE60_1HzG_MARBLE_singlets.in
md5:21372d3869407094e3b1518fe4a12fe0
6.8 kB Download
GE_PRESS_TE60_1HzG_MARBLE_singlets.pdf
md5:4f27bdb8e4275e02f5ccd5c892ff57ed
1.9 MB Download
Philips_PRESS_TE288_1HzG_MARBLE.basis
md5:751a60cdb94ad8792a4e9dbbc147359a
25.1 MB Download
Philips_PRESS_TE288_1HzG_MARBLE.in
md5:d3799e1f6329eb7f42cd4e27f8e7ccc1
6.2 kB Download
Philips_PRESS_TE288_1HzG_MARBLE.pdf
md5:4f3036b6bec58ee83f32a535ff3a91e8
1.7 MB Download
Philips_PRESS_TE288_1HzG_MARBLE_singlets.basis
md5:ab2f28c2a21da7ad446b9806553f8392
27.7 MB Download
Philips_PRESS_TE288_1HzG_MARBLE_singlets.in
md5:ae2ba4cc5575753af07cb461c68e355c
7.0 kB Download
Philips_PRESS_TE288_1HzG_MARBLE_singlets.pdf
md5:af994c748c3259b87e7174a6aabbf05a
1.9 MB Download
Philips_PRESS_TE60_1HzG_MARBLE.basis
md5:07115ff06936c13c8cee317dd414f125
25.1 MB Download
Philips_PRESS_TE60_1HzG_MARBLE.in
md5:bbc3e61dc0b59d073f2207a7ecf5e018
6.1 kB Download
Philips_PRESS_TE60_1HzG_MARBLE.pdf
md5:38e6cec9e0d0796c3927c4f7e9018596
1.7 MB Download
Philips_PRESS_TE60_1HzG_MARBLE_singlets.basis
md5:cdb964ebf621ae6d7194ad3bfd5da93e
27.7 MB Download
Philips_PRESS_TE60_1HzG_MARBLE_singlets.in
md5:69400c1d3977b317e59588f07cb5d742
6.9 kB Download
Philips_PRESS_TE60_1HzG_MARBLE_singlets.pdf
md5:36160175aa662a2df7cf94f738a46d39
1.9 MB Download
RAW.zip
md5:a72230d0ba25479a3124e3de22d71b6d
172.9 MB Download
Siemens_PRESS_TE288_1HzG_MARBLE.basis
md5:21811eb63647158b88cfb4cd39943532
25.1 MB Download
Siemens_PRESS_TE288_1HzG_MARBLE.in
md5:d12f2a899706ce4c9dc96b2b0597cf01
6.2 kB Download
Siemens_PRESS_TE288_1HzG_MARBLE.pdf
md5:2ad25757fb1a13fd05fc05078b49774f
2.6 MB Download
Siemens_PRESS_TE288_1HzG_MARBLE_singlets.basis
md5:19c4f37557d282656f26138eca4eaaff
27.7 MB Download
Siemens_PRESS_TE288_1HzG_MARBLE_singlets.in
md5:f206957ee395ea8746d336f24724a100
7.0 kB Download
Siemens_PRESS_TE288_1HzG_MARBLE_singlets.pdf
md5:3693100a3511811a37677d739bd8f1ce
2.9 MB Download
Siemens_PRESS_TE60_1HzG_MARBLE.basis
md5:5236841bd1c8799e4a7eeb9d91fad756
25.1 MB Download
Siemens_PRESS_TE60_1HzG_MARBLE.in
md5:92b6b42a63955b38eec33e1a41e71808
6.1 kB Download
Siemens_PRESS_TE60_1HzG_MARBLE.pdf
md5:7427a69775298587cd7bfc67b20d1f77
2.6 MB Download
Siemens_PRESS_TE60_1HzG_MARBLE_singlets.basis
md5:dfd237521b202b9562df9f2d5e5e576f
27.7 MB Download
Siemens_PRESS_TE60_1HzG_MARBLE_singlets.in
md5:1f08f8860083294ed65a8cc0b107e573
6.9 kB Download
Siemens_PRESS_TE60_1HzG_MARBLE_singlets.pdf
md5:4ecee40645f0963cfea63c032fd7ba5a
2.9 MB Download
  • Lally P. J., Montaldo P et al. "Magnetic resonance spectroscopy assessment of brain injury after moderate hypothermia in neonatal encephalopathy: a prospective multicentre cohort study." The Lancet Neurology 18.1 (2019): 35-45.

  • Soher, B. J., et al. "VeSPA: integrated applications for RF pulse design, spectral simulation and MRS data analysis." Proc Int Soc Magn Reson Med. Vol. 19. No. 19. 2011.

  • Kaiser, L. G., et al. "1H MRS detection of glycine residue of reduced glutathione in vivo." Journal of Magnetic Resonance 202.2 (2010): 259-266.

88
151
views
downloads
All versions This version
Views 8888
Downloads 151151
Data volume 1.7 GB1.7 GB
Unique views 7272
Unique downloads 6868

Share

Cite as