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🧬 Study Design Embedding7 datasets · 162.1 GB

Proteomics & metabolomics studies shipping an SDRF / ISA-Tab sample annotation, kept alongside the original vendor RAW and the mzML → mzPeak conversions.

Provenance. HUPO-PSI / bigbio community-curated SDRF annotations over PRIDE (PXD009465 · PXD009909 · PXD011799 · PXD014145 · PXD020187) and MetaboLights (MTBLS1129 SDRF · MTBLS5358 native ISA-Tab) studies — label-free plus TMT 6/10/11-plex isobaric designs. The full chain — SDRF/ISA metadata + vendor RAW + mzML + mzPeak — is stored here; each dataset's urls.txt records the original source.

Raw / mzML / mzPeak sizes for Study Design Embedding
Size vs vendor RAW (=100%) across 7 dataset(s) > 50 MB · bars = mean, dots = runs.
MTBLS1129MetaboLights MTBLS1129 · label-free metabolomics (Waters Xevo G2-XS; Cai et al. 2020) — clean SDRF↔mzML pair.273 files
mzML 21.4 GB, mzPeak 186.5 MB (1%)
MTBLS5358MetaboLights MTBLS5358 · label-free GC-MS oral-cancer metabolomics — native ISA-Tab (i_/s_/a_; Wang et al. 2024).49 files
raw 621.3 MB, mzML 1.2 GB, mzPeak 143.0 MB (23%/12%)
PXD009465PRIDE PXD009465 · TMT 6-plex Plasmodium falciparum PfPK7 phosphoproteome (LTQ Orbitrap Velos; Pease et al. 2018).29 files
raw 1.4 GB, mzML 1.8 GB, mzPeak 289.7 MB (20%/16%)
PXD009909PRIDE PXD009909 · label-free mouse retina proteome (Orbitrap Fusion; Harman et al. 2018).34 files
raw 9.6 GB, mzML 26.5 GB, mzPeak 3.1 GB (32%/12%)
PXD011799PRIDE PXD011799 · TMT 10-plex melanoma B cells (Orbitrap Fusion Lumos; Griss et al. 2019) — the TMT channel-model fixture.58 files
raw 15.0 GB, mzML 35.0 GB, mzPeak 2.5 GB (16%/7%)
PXD014145PRIDE PXD014145 · TMT 11-plex KMT9 lung cancer (Q Exactive; Baumert et al. 2020).33 files
raw 6.4 GB, mzML 14.9 GB, mzPeak 1.8 GB (28%/12%)
PXD020187PRIDE PXD020187 · label-free decellularized umbilical artery (LTQ Orbitrap Elite; Mallis et al. 2020).29 files
raw 5.8 GB, mzML 12.7 GB, mzPeak 1.8 GB (31%/14%)