| Version | DOI | Comment | Publication Date |
|---|---|---|---|
| 2 | 10.13012/B2IDB-4907703_V2 | I am adding additional new data as the original work has been revised and expanded, but accompanies the same publication that has been under review. | 2025-10-16 |
| 1 | 10.13012/B2IDB-4907703_V1 | 2024-10-28 |
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| Dataset | update: {"publication_state"=>["version candidate under curator review", "released"], "release_date"=>[nil, Thu, 16 Oct 2025]} | 2025-10-16T16:01:22Z |
| Dataset | update: {"description"=>["This dataset contains MALDI imaging and fluorescence imaging data of 5xFAD mice and control animals. Processed data are provided at either MATLAB arrays or Bruker .slx / .sbd files compatible with SCiLS Lab.\r\n\r\n- Animal_1_5xFAD_s1 and s2 : A MATLAB file of 50 micron spatial resolution imaging of whole brain slice from a 5xFAD animal. \r\n- Slide28_Animal1_stitch_channels__Thioflavin S : A PNG file of the corresponding Thioflavin S- stained fluorescence image obtained post-MSI from the same section.\r\n- Slide28_Animal1_stitch_merged : A PNG file of the corresponding merged imaged including brightfield, Thioflavin S (GFP channel) and Hoechst staining (DAPI channel) used for image registration\r\n- mz_bins_use_neg.mat : A MATLAB array of the m/z channels all MSI images (whole brain slice, 50 micron spatial resolution) were binned to in order to enable comparison\r\n- Animal3_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a 5xFAD mouse hippocampus and cortex. Due to the large dataset, 22 m/z channels are included. \r\n- Animal5_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a wildtype mouse hippocampus and cortex\r\n- mz_features_22.mat : A MATLAB array of the 22 m/z channels included in the high spatial resolution imaging data\r\n- MALDI_Animal03_5xFAD_10um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (whole-brain section) at a 10 micron pitch (used in Figure 5)\r\n- MALDI_animal3_5xFAD_5um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (region of interest) at a 5\r\n micron pitch (used in Figure 4)\r\n- TIMS_animal1_20um_5xfad_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a 5xFAD mouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- TIMS_animal5_s13_20um_wt_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a wild typemouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- Region Masks BMC.zip : A folder containing masks from brain regions of spatial transcriptomics data from the BMC Genomics data set\r\n- Region Masks Cell.zip : A folder containing masks from brain regions of spatial transcriptomics data from the Cell data set", "This dataset contains MALDI imaging and fluorescence imaging data of 5xFAD mice and control animals. Processed data are provided at either MATLAB arrays or Bruker .slx / .sbd files compatible with SCiLS Lab.\r\n\r\n- Animal_1_5xFAD_s1 and s2 : A MATLAB file of 50 micron spatial resolution imaging of whole brain slice from a 5xFAD animal. \r\n- Slide28_Animal1_stitch_channels__Thioflavin S : A PNG file of the corresponding Thioflavin S- stained fluorescence image obtained post-MSI from the same section.\r\n- Slide28_Animal1_stitch_merged : A PNG file of the corresponding merged imaged including brightfield, Thioflavin S (GFP channel) and Hoechst staining (DAPI channel) used for image registration\r\n- mz_bins_use_neg.mat : A MATLAB array of the m/z channels all MSI images (whole brain slice, 50 micron spatial resolution) were binned to in order to enable comparison\r\n- Animal3_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a 5xFAD mouse hippocampus and cortex. Due to the large dataset, 22 m/z channels are included. \r\n- Animal5_S17_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a wildtype mouse hippocampus and cortex\r\n- mz_features_22.mat : A MATLAB array of the 22 m/z channels included in the high spatial resolution imaging data\r\n- MALDI_Animal03_5xFAD_10um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (whole-brain section) at a 10 micron pitch (used in Figure 5)\r\n- MALDI_animal3_5xFAD_5um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (region of interest) at a 5\r\n micron pitch (used in Figure 4)\r\n- TIMS_animal1_20um_5xfad_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a 5xFAD mouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- TIMS_animal5_s13_20um_wt_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a wild typemouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- Region Masks BMC.zip : A folder containing masks from brain regions of spatial transcriptomics data from the BMC Genomics data set\r\n- Region Masks Cell.zip : A folder containing masks from brain regions of spatial transcriptomics data from the Cell data set"]} | 2025-10-16T16:00:23Z |
| Dataset | update: {"description"=>["This dataset contains MALDI imaging and fluorescence imaging data of 5xFAD mice and control animals. \r\n\r\n- Animal_1_5xFAD_s1 and s2 : A MATLAB file of 50 micron spatial resolution imaging of whole brain slice from a 5xFAD animal. \r\n- Slide28_Animal1_stitch_channels__Thioflavin S : A PNG file of the corresponding Thioflavin S- stained fluorescence image obtained post-MSI from the same section.\r\n- Slide28_Animal1_stitch_merged : A PNG file of the corresponding merged imaged including brightfield, Thioflavin S (GFP channel) and Hoechst staining (DAPI channel) used for image registration\r\n- mz_bins_use_neg.mat : A MATLAB array of the m/z channels all MSI images (whole brain slice, 50 micron spatial resolution) were binned to in order to enable comparison\r\n- Animal3_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a 5xFAD mouse hippocampus and cortex. Due to the large dataset, 22 m/z channels are included. \r\n- Animal5_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a wildtype mouse hippocampus and cortex\r\n- mz_features_22.mat : A MATLAB array of the 22 m/z channels included in the high spatial resolution imaging data\r\n- MALDI_Animal03_5xFAD_10um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (whole-brain section) at a 10 micron pitch (used in Figure 5)\r\n- MALDI_animal3_5xFAD_5um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (region of interest) at a 5\r\n micron pitch (used in Figure 4)\r\n- TIMS_animal1_20um_5xfad_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a 5xFAD mouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- TIMS_animal5_s13_20um_wt_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a wild typemouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- Region Masks BMC.zip : A folder containing masks from brain regions of spatial transcriptomics data from the BMC Genomics data set\r\n- Region Masks Cell.zip : A folder containing masks from brain regions of spatial transcriptomics data from the Cell data set", "This dataset contains MALDI imaging and fluorescence imaging data of 5xFAD mice and control animals. Processed data are provided at either MATLAB arrays or Bruker .slx / .sbd files compatible with SCiLS Lab.\r\n\r\n- Animal_1_5xFAD_s1 and s2 : A MATLAB file of 50 micron spatial resolution imaging of whole brain slice from a 5xFAD animal. \r\n- Slide28_Animal1_stitch_channels__Thioflavin S : A PNG file of the corresponding Thioflavin S- stained fluorescence image obtained post-MSI from the same section.\r\n- Slide28_Animal1_stitch_merged : A PNG file of the corresponding merged imaged including brightfield, Thioflavin S (GFP channel) and Hoechst staining (DAPI channel) used for image registration\r\n- mz_bins_use_neg.mat : A MATLAB array of the m/z channels all MSI images (whole brain slice, 50 micron spatial resolution) were binned to in order to enable comparison\r\n- Animal3_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a 5xFAD mouse hippocampus and cortex. Due to the large dataset, 22 m/z channels are included. \r\n- Animal5_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a wildtype mouse hippocampus and cortex\r\n- mz_features_22.mat : A MATLAB array of the 22 m/z channels included in the high spatial resolution imaging data\r\n- MALDI_Animal03_5xFAD_10um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (whole-brain section) at a 10 micron pitch (used in Figure 5)\r\n- MALDI_animal3_5xFAD_5um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (region of interest) at a 5\r\n micron pitch (used in Figure 4)\r\n- TIMS_animal1_20um_5xfad_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a 5xFAD mouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- TIMS_animal5_s13_20um_wt_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a wild typemouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- Region Masks BMC.zip : A folder containing masks from brain regions of spatial transcriptomics data from the BMC Genomics data set\r\n- Region Masks Cell.zip : A folder containing masks from brain regions of spatial transcriptomics data from the Cell data set"]} | 2025-10-16T04:54:48Z |
| Dataset | update: {"publisher"=>["University of Illinois at Urbana-Champaign", "University of Illinois Urbana-Champaign"], "description"=>["This dataset contains MALDI imaging and fluorescence imaging data of 5xFAD mice and control animals. \r\n\r\n1+2) Animal_1_5xFAD_s1 and s2 : A MATLAB file of 50 micron spatial resolution imaging of whole brain slice from a 5xFAD animal. \r\n3) Slide28_Animal1_stitch_channels__Thioflavin S : A PNG file of the corresponding Thioflavin S- stained fluorescence image obtained post-MSI from the same section.\r\n4) Slide28_Animal1_stitch_merged : A PNG file of the corresponding merged imaged including brightfield, Thioflavin S (GFP channel) and Hoechst staining (DAPI channel) used for image registration\r\n5) mz_bins_use_neg.mat : A MATLAB array of the m/z channels all MSI images (whole brain slice, 50 micron spatial resolution) were binned to in order to enable comparison\r\n6) Animal3_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a 5xFAD mouse hippocampus and cortex. Due to the large dataset, 22 m/z channels are included. \r\n7) Animal5_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a wildtype mouse hippocampus and cortex\r\n8) mz_features_22.mat : A MATLAB array of the 22 m/z channels included in the high spatial resolution imaging data\r\n\r\n", "This dataset contains MALDI imaging and fluorescence imaging data of 5xFAD mice and control animals. \r\n\r\n- Animal_1_5xFAD_s1 and s2 : A MATLAB file of 50 micron spatial resolution imaging of whole brain slice from a 5xFAD animal. \r\n- Slide28_Animal1_stitch_channels__Thioflavin S : A PNG file of the corresponding Thioflavin S- stained fluorescence image obtained post-MSI from the same section.\r\n- Slide28_Animal1_stitch_merged : A PNG file of the corresponding merged imaged including brightfield, Thioflavin S (GFP channel) and Hoechst staining (DAPI channel) used for image registration\r\n- mz_bins_use_neg.mat : A MATLAB array of the m/z channels all MSI images (whole brain slice, 50 micron spatial resolution) were binned to in order to enable comparison\r\n- Animal3_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a 5xFAD mouse hippocampus and cortex. Due to the large dataset, 22 m/z channels are included. \r\n- Animal5_S18_HR.mat : A MATLAB array of high-spatial-resolution (5 micron) imaging of a wildtype mouse hippocampus and cortex\r\n- mz_features_22.mat : A MATLAB array of the 22 m/z channels included in the high spatial resolution imaging data\r\n- MALDI_Animal03_5xFAD_10um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (whole-brain section) at a 10 micron pitch (used in Figure 5)\r\n- MALDI_animal3_5xFAD_5um_neg.zip : A folder containing .slx and .sbd MALDI imaging data of a 5xFAD mouse (region of interest) at a 5\r\n micron pitch (used in Figure 4)\r\n- TIMS_animal1_20um_5xfad_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a 5xFAD mouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- TIMS_animal5_s13_20um_wt_neg.zip : A folder containing .slx and .sbd MALDI TIMS imaging data of a wild typemouse (region of interest) at a 20 micron pitch (used in Figure 7)\r\n- Region Masks BMC.zip : A folder containing masks from brain regions of spatial transcriptomics data from the BMC Genomics data set\r\n- Region Masks Cell.zip : A folder containing masks from brain regions of spatial transcriptomics data from the Cell data set"]} | 2025-10-16T04:53:09Z |
| Dataset | update: {"hold_state"=>["version candidate under curator review", "none"]} | 2025-10-14T17:15:14Z |
| Dataset | update: {"version_comment"=>[nil, "I am adding additional new data as the original work has been revised and expanded, but accompanies the same publication that has been under review."]} | 2025-10-14T16:37:36Z |
| RelatedMaterial | create: {"material_type"=>"Dataset", "availability"=>nil, "link"=>"https://doi.org/10.13012/B2IDB-4907703_V1", "uri"=>"10.13012/B2IDB-4907703_V1", "uri_type"=>"DOI", "citation"=>"Trinklein, Timothy; Lam, Fan; Sweedler, Jonathan (2024): Plaque-associated lipids dataset. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-4907703_V1", "dataset_id"=>3207, "selected_type"=>"Dataset", "datacite_list"=>"IsNewVersionOf", "note"=>nil, "feature"=>nil} | 2025-10-14T16:36:56Z |
| RelatedMaterial | create: {"material_type"=>"Preprint", "availability"=>nil, "link"=>"https://doi.org/10.26434/chemrxiv-2024-2hbb7", "uri"=>"10.26434/chemrxiv-2024-2hbb7", "uri_type"=>"DOI", "citation"=>"Trinklein TJ, Rubakhin SS, Okyem S, Croslow SW, Asadian M, Sabitha KR, et al. Multimodal mass spectrometry imaging for plaque- and region-specific neurolipidomics in an Alzheimer’s disease mouse model. ChemRxiv. 2024; doi:10.26434/chemrxiv-2024-2hbb7", "dataset_id"=>3207, "selected_type"=>"Other", "datacite_list"=>"IsSupplementTo", "note"=>"", "feature"=>nil} | 2025-10-14T16:36:56Z |
| RelatedMaterial | create: {"material_type"=>"Code", "availability"=>nil, "link"=>"https://github.com/timtk1/MALDI2Alz/", "uri"=>"https://github.com/timtk1/MALDI2Alz/", "uri_type"=>"URL", "citation"=>"Code for processing multimodal MALDI imaging of amyloid beta plaque-associated lipids", "dataset_id"=>3207, "selected_type"=>"Code", "datacite_list"=>"IsSupplementedBy", "note"=>"", "feature"=>nil} | 2025-10-14T16:36:55Z |
| Funder | create: {"name"=>"U.S. National Institutes of Health (NIH)", "identifier"=>"10.13039/100000002", "identifier_scheme"=>"DOI", "grant"=>"P30DA018310", "dataset_id"=>3207, "code"=>"NIH"} | 2025-10-14T16:36:55Z |
| Funder | create: {"name"=>"U.S. National Institutes of Health (NIH)", "identifier"=>"10.13039/100000002", "identifier_scheme"=>"DOI", "grant"=>"S10OD032242", "dataset_id"=>3207, "code"=>"NIH"} | 2025-10-14T16:36:55Z |
| Funder | create: {"name"=>"U.S. National Institutes of Health (NIH)", "identifier"=>"10.13039/100000002", "identifier_scheme"=>"DOI", "grant"=>"R01AG078797", "dataset_id"=>3207, "code"=>"NIH"} | 2025-10-14T16:36:55Z |
| Creator | create: {"family_name"=>"Sweedler", "given_name"=>"Jonathan", "identifier"=>"", "email"=>"jsweedle@illinois.edu", "is_contact"=>true, "row_position"=>3} | 2025-10-14T16:36:55Z |
| Dataset | update: {"corresponding_creator_name"=>[nil, "Jonathan Sweedler"], "corresponding_creator_email"=>[nil, "jsweedle@illinois.edu"]} | 2025-10-14T16:36:55Z |
| Creator | create: {"family_name"=>"Lam", "given_name"=>"Fan", "identifier"=>"", "email"=>"fanlam1@illinois.edu", "is_contact"=>false, "row_position"=>2} | 2025-10-14T16:36:55Z |
| Creator | create: {"family_name"=>"Trinklein", "given_name"=>"Timothy", "identifier"=>"0000-0003-3475-5981", "email"=>"timtk@illinois.edu", "is_contact"=>false, "row_position"=>1} | 2025-10-14T16:36:55Z |