KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| PLCD1 antibody | Abcam | Cat# ab134936; RRID:AB_2857853 |
| HEPACAM antibody | Abcam | Cat# ab130769; RRID:AB_2857854 |
| PADI2 antibody | Abcam | Cat# ab16478; RRID:AB_470249 |
| GAPDH antibody | Abcam | Cat# ab8245; RRID:AB_2107448 |
| GJA1 antibody | Sigma | Cat# C6219; RRID:AB_476857 |
| Biological Samples | ||
| Postmortem dorsolateral prefrontal and precuneus cortex brain tissue | Baltimore Longitudinal Study of Aging (BLSA) at Johns Hopkins University | https://www.hopkinsmedicine.org/research/labs/alzheimers-disease-research-center |
| Postmortem prefrontal cortex brain tissue | Adult Changes of Thought (ACT) at the University of Washington and Group Health Cooperative of Puget Sound | http://depts.washington.edu/mbwc/adrc/page/neuropathology |
| Postmortem prefrontal cortex brain tissue | Mount Sinai Brain Bank (MSBB) | https://icahn.mssm.edu/research/nih-brain-tissue-repository |
| Postmortem prefrontal cortex brain tissue | Banner Sun Health Research Institute (Banner) | https://www.bannerhealth.com/services/research/locations/sun-health-institute/programs/body-donation |
| Postmortem temporal cortex brain tissue | Mayo Clinic Brain Bank (Mayo) | https://www.mayo.edu/research/departments-divisions/department-neuroscience-florida/brain-bank |
| Postmortem prefrontal cortex brain tissue | University of Pennsylvania Brain Bank (UPenn) | https://www.med.upenn.edu/cndr/biosamples-brainbank.html |
| Postmortem dorsolateral prefrontal brain tissue | Emory University (Emory) | http://alzheimers.emory.edu/ |
| Deposited Data | ||
| Baltimore Longitudinal Study of Aging (BLSA) proteomic data | Seyfried et al., 2017 | https://doi.org/10.7303/syn3606086 |
| Adult Changes of Thought (ACT) proteomic data | This study | https://doi.org/10.7303/syn5759376 |
| Mount Sinai Brain Bank (MSBB) proteomic data | This study | https://repo-prod.prod.sagebase.org/repo/v1/doi/locate?id=syn3159438&type=ENTITY |
| Banner Sun Health Research Institute (Banner) proteomic data | This study | https://doi.org/10.7303/syn7170616 |
| Mayo Clinic Brain Bank (Mayo) proteomic and transcriptomic data | This study | https://doi.org/10.7303/syn5550404 |
| University of Pennsylvania (UPenn) proteomic data | This study | https://adknowledgeportal.synapse.org/Explore/Studies?Study=syn21411742 |
| Emory proteomic data | Ping et al., 2018 | https://www.synapse.org/#!Synapse:syn10239444 |
| Cell type enrichment Markers | Zhang et al., 2016 | http://www.brainrnaseq.org/ |
| Alzheimer’s disease GWAS summary statistics | Lambert et al., 2013 | http://web.pasteur-lille.fr/en/recherche/u744/igap/igap_download.php |
| Progressive Supranuclear Palsy GWAS summary statistics | Höglinger et al., 2011 | https://www.niagads.org/datasets/ng00045 |
| Software and Algorithms | ||
| R | R Core Team | https://www.R-project.org/ |
| WGCNA R package | Langfelder and Horvath, 2008 | https://cran.r-project.org/web/packages/WGCNA/index.html |
| Gene Ontology | http://geneontology.org/ | |
| igraph R package | Csardi and Nepusz, 2006 | https://igraph.org/r/ |
| MAGMA | de Leeuw et al., 2015 | https://ctg.cncr.nl/software/magma |
| Other | ||
| Interactive graphical interface for consensus proteomic network | https://coppolalab.ucla.edu/gclabapps/nb/browser?id=SwarupChangConsensusProteomics |