MetaboLightsapplication/xmlftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14732/m_MTBLS14732_MSImaging_negative__v2_maf.tsvftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14732/s_MTBLS14732.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14732/i_Investigation.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14732/a_MTBLS14732_MSImaging_negative_.txtftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14732/FILES/RAW_FILES/20260115_VS_Cleland_slide2_section3_F_DAN_neg/20260115_VS_Cleland_slide2_section3_F_DAN_neg.zipftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14732/FILES/RAW_FILES/20260115_VS_Cleland_slide5_section2_M_DAN_neg/20260115_VS_Cleland_slide5_section2_M_DAN_neg.zipprimaryOK200ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS14732<p>Spatially variable ions were reimported into SCiLS Lab for annotation. m/z values were matched against a custom LC-MS/MS library generated from equivalent liver tissue at the EMBL Metabolomics Core Facility. Additionally, further MS1-level annotation was performed using MCube Lipid Species Annotation Method, and HMDB (v5, Source=Endogenous entries).</p>MetaboLightsPublicMS Imaging - negativeSex-specific regulatory and metabolic architecture of liver zonation.EMBL HeidelbergDKFZJames ClelandBernhard Drotlefflivermass spectrometry assayMus musculushttps://www.ebi.ac.uk/metabolights/MTBLS14732Veronika Saharuka. Heidelberg University. veronika.saharuka@dkfz-heidelberg.de.James Cleland. German Cancer Research Center. james.cleland@dkfz-heidelberg.de.Bernhard Drotleff. bernhard.drotleff@embl.de.<p>Raw data were recalibrated in DataAnalysis (v6.2, Bruker Daltonics) using lock mass calibration with internal standards&nbsp; (PA_15:0-18:1_d7, PE_15:0-18:1_d7, PI_15:0-18:1_d7, SulfoGalCer_d18:1-12:0; ±0.03 m/z, intensity threshold 1000).</p>Sexjames.cleland@dkfz-heidelberg.debernhard.drotleff@embl.de<p>Freshly isolated liver left lateral lobe tissue was embedded in 4% carboxymethylcellulose on dry ice-chilled isopentane and stored at -80 °C until sectioning. 12 µm thick cryosections were cut at -13 °C on a Leica CM1950 cryotome and thaw-mounted onto ITO-coated conductive slides (Bruker) by brief warming on an aluminium block and drying under a stream of nitrogen. Slides were desiccated, vacuum-packed under nitrogen and stored at -70 °C until imaging.</p>Metabolomics<p>For MALDI-MS imaging, left lateral lobe tissue was embedded in carboxymethylcellulose (4% w/v aqueous solution) on dry ice-chilled isopentane and stored at -80 degrees Celsius. 12 µm thick cryosections were cut at -13 degrees Celsius on a Leica CM1950 cryotome and thaw-mounted onto ITO-coated conductive slides (Bruker) by brief warming on an aluminium block and drying under a stream of nitrogen.</p><p>Optical images were recorded at 2× magnification (Keyence fluorescence microscope). Internal standard (MSI SPLASH LIPIDOMIX, Avanti Polar Lipids, cat. 330841) diluted 10-fold in LC-MS grade methanol was applied by spray coating (HTX M3+; 50 °C, flow 60 µL/min, velocity 1200 mm/min, 16 passes, 2 mm track spacing, 10 psi), followed by matrix (2,5-diaminonaphthalene, DAN, 10 mg/mL in 70% methanol (v/v); 65 °C, flow 70 µL/min, velocity 1200 mm/min, 6 passes, 2 mm track spacing, 10 psi).</p>mass spectrometry imagingMus musculusliveruntargeted analysiszonationLipidomicstimsTOF fleXsexual dimorphismBrukerexperimental samplemass spectrometry imagingMus musculusliveruntargeted analysiszonationLipidomicstimsTOF fleXsexual dimorphismBrukerexperimental sample<p>Data were acquired in negative ion mode on a MALDI-TIMS-QTOF mass spectrometer (TimsTOF Flex, Bruker Daltonics) operated without ion mobility separation (timsOFF mode). Centroid spectra were recorded over m/z 200-1800 with a raster size of 15 µm. Key acquisition parameters included operation in negative ion mode; a scan range of m/z 200-1800; a custom laser geometry with a 15 µm beam scan; a raster size of 15 × 15 µm; 100 laser shots per pixel at a frequency of 10,000 Hz and 40% laser power; a MALDI plate offset of 50 V; deflection 1 delta at -70 V; funnel 1 RF at 350 Vpp; funnel 2 RF at 350 Vpp; multipole RF at 350 Vpp; collision energy of 10 eV; collision RF of 1800 Vpp; ion energy of 5 eV; a low mass cutoff of m/z 300; a transfer time of 85 µs; a pre-pulse storage of 10 µs; focus mode disabled; and data stored in centroid mode with a threshold of 100.</p>falseLipidomic analysis of hepatic sexual dimorphism (MS Imaging)To comprehensively characterise sex differences in hepatic lipid metabolism, we performed bulk and spatial lipidomics on male and female mouse livers.2026-06-092026-06-09MTBLS14732