Table 2.
Detailed information on the 30 primary antibodies used
| Fig. ID | Targeta | Primary antibodyb | Host | Dilutionc | RRID | Specificity (vendor) |
|---|---|---|---|---|---|---|
| Disease-related markers | ||||||
| Alzheimer’s disease (AD) tangle | Phospho-Tau Ser202, Thr205, clone AT8 | ms | 1:200 | Thermo Fisher Scientific Cat# MN1020, RRID:AB_223647 | Immunogen based on human sequence, reacts with human | |
| AD plaque | β-Amyloid, 17–24, clone 4G8 | ms | 1:1000 | BioLegend Cat# 800701, RRID:AB_2564633 | Immunogen based on human sequence, reacts with human | |
| Neuronal cells | ||||||
| A1 | Pyramidal neuron | CAMKIIA (CAMK2A) | rb | 1:300 | Abcam Cat# ab103840, RRID:AB_10900968 | Immunogen based on human sequence |
| A2 | Purkinje cell | Calbindin D28k (CALB1) | rb | 1:300 | Synaptic Systems (SySy) Cat# 214 003, RRID:AB_2619901 | Immunogen based on human sequence, reacts with human |
| A3 | Purkinje cell | CALB1 | ms | 1:300 | SySy Cat# 214 011, RRID:AB_2068201 | Immunogen based on human sequence, reacts with human |
| A4 | Interneuron | CRH | ms | 1:100 | Sigma-Aldrich Cat# WH0001392M2, RRID:AB_1840911 | Immunogen based on human sequence, reacts with human |
| A5 | Catecholaminergic neuron | TH | ms | 1:200 | Millipore Cat# MAB318, RRID:AB_2201528 | Reacts with human |
| Glial cells | ||||||
| B | Microglia | IBA1 (AIF1) | rb | 1:200 | SySy Cat# 234 003, RRID:AB_10641962 | Reacts with human, K.O. verified (SySy) |
| C1 | Astrocyte | GFAP | rb | 1:250 | Agilent Cat# Z0334, RRID:AB_10013382 | Reacts with human |
| C2 | Astrocyte | GFAP | ms | 1:200 | SySy Cat# 173 011, RRID:AB_2232308 | Immunogen based on human sequence, reacts with human, K.O. verified (SySy) |
| C3 | Astrocyte (mature) | S100B | gp | 1:200 | SySy Cat# 287 004, RRID:AB_2620025 | |
| D1 | Oligodendrocyte (myelin sheath) | MBP | rb | 1:200 | Abcam Cat# ab133620, no RRID available | Immunogen based on human sequence, reacts with human |
| D2 | Oligodendrocyte (myelin sheath) | MBP, clone SMI 94 | ms | 1:200 | BioLegend Cat# 836504, RRID:AB_2616694 | Immunogen based on human sequence, reacts with human |
| D3 | Oligodendrocyte (myelin sheath) | MBP | ms | 1:100 | Atlas Antibodies Cat# AMAb91064, RRID:AB_2665784 | Immunogen based on human sequence, reacts with human |
| Neuronal compartments | ||||||
| Neuronal processes | ||||||
| E1 | Axon | Pan-axonal neurofilament, clone SMI-312 | ms | 1:200 | BioLegend Cat# 837904, RRID:AB_2566782 | Reacts with human |
| E2 | Axon, paranodal region | Caspr/paranodin (CNTNAP1) | ms | 1:100 | UC Davis/NIH NeuroMab Facility Cat# 75–001, RRID:AB_2083496 | Reacts with human |
| F | Dendrite | MAP2 | ms | 1:200 | Millipore Cat# MAB3418, RRID:AB_94856 | Reacts with human |
| Synaptic proteins & organelles | ||||||
| G1 | Presynapse (synaptic vesicle) | Synapsin 1/2 | rb | 1:200 | SySy Cat# 106 003, RRID:AB_2619773 | Reacts with human, K.O. verified (SySy) |
| G2 | Presynapse (synaptic vesicle) | Synaptophysin 1 (SYP) | gp | 1:500 | SySy Cat# 101 004, RRID:AB_1210382 | Immunogen based on human sequence, reacts with human |
| G3 | Presynapse (synaptic vesicle) | SYP | rb | 1:100 | Abcam Cat# ab14692, RRID:AB_301417 | Immunogen based on human sequence |
| G4 | Presynapse (GABAergic synaptic vesicle) | VGAT, cytoplasmic domain (SLC32A1) | ms | 1:50 | SySy Cat# 131 011, RRID:AB_887872 | Reacts with human, K.O. verified (SySy) |
| G5 | Presynapse (glutamatergic synaptic vesicle) | VGLUT1 (SLC17A7) | gp | 1:200 | SySy Cat# 135 304, RRID:AB_887878 | Reacts with human, K.O. verified (SySy) |
| G6 | Postsynapse (inhibitory) | Gephyrin (GPHN) | ms | 1:100 | SySy Cat# 147 011, RRID:AB_887717 | Reacts with human, K.O. verified (SySy) |
| G7 | Postsynapse (excitatory) | GLUA2 (GRIA2) | ms | 1:200 | SySy Cat# 182 111, RRID:AB_10645888 | |
| G8 | Postsynapse (excitatory) | HOMER3 | rb | 1:300 | SySy Cat# 160 303, RRID:AB_10804288 | |
| G9 | Postsynapse (excitatory) | PSD-95, PDZ domain (DLG4) | ms | 1:100 | SySy Cat# 124 011, RRID:AB_10804286 | K.O. verified (SySy) |
| H | Endoplasmic reticulum | Calreticulin (CALR) | rb | 1:200 | SySy Cat# 315 003, RRID:AB_2620050 | |
| Others | ||||||
| J1 | Basal lamina (e.g., in vessels) | Collagen IV | ms | 1:200 | Agilent Cat# M0785, RRID:AB_2082944 | Immunogen based on human sequence, reacts with human |
| J2 | Smooth muscle cell (e.g., in vessels) | α-Actin (smooth muscle) | ms | 1:200 | Agilent Cat# M0851, RRID:AB_2223500 | Immunogen based on human sequence, reacts with human |
| K | Cells using glycolysis | GAPDH | rb | 1:100 | SySy Cat# 247 002, RRID:AB_10804053 | Immunogen based on human sequence, reacts with human |
Abbreviations: Fig. Figure, ID Identifier, RRID Research Resource Identifier, ms Mouse, rb Rabbit, gp Guinea pig, K.O. Knockout
a The most significant one is mentioned. b If applicable, name according to HUGO Gene Nomenclature Committee appears in brackets when different from the vendor’s antibody name. c Differing concentrations might work as well