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- Table of Contents
Plan chromogenic IHC on paraffin sections with the IHC-validated antibody at 1–2 μg/mL (datasheet A01986-1). Use glomerular cells as a high-staining reference and score membranous and cytoplasmic signal by cell type (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Membranous and cytoplasmic tissue staining (HPA tissue IHC) | |
| Staining pattern | Muscle, glomeruli, endothelium, basal cells: membrane/cytoplasm (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet A01986-1) | |
| Positive control | Kidney+4 more · see all | |
| Negative control | Adipose tissue+4 more · see all |
| Fixation | Keep fixation consistent across sections (standard IHC practice; not target-specific) | |
| Caveat | Appendix glandular cells may lack signal in a positive section (HPA tissue IHC; datasheet A01986-1) | |
| Regulation | Expression varies by tissue and cell type (HPA tissue IHC) | |
| Isoform / epitope | 5 isoforms; map epitopes to mature aa 139–693, which lacks a cytoplasmic tail (UniProt) |
Compare the catalog antibody’s IHC-P protocol (datasheet A01986-1) with published CDH13 staining in lung tumors, mouse brain, aorta, and hepatocellular carcinoma (PMC13114730; PMC4930129; PMC9339483; PMC12817644).
| Sample | Paraffin-embedded human appendicitis tissue; fixative not specified (datasheet A01986-1) |
| Fixation | Image fixative and duration unreported (datasheet A01986-1); verify before use. |
| Sectioning | 4–5 µm sections on charged slides (standard) |
| Deparaffinisation | Xylene, graded ethanol series to water (standard) |
| Antigen retrieval | Heat retrieval: EDTA pH 8.0 (datasheet A01986-1); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A01986-1) |
| Primary antibody | Rabbit anti-CDH13, 1-2μg/ml (datasheet A01986-1) |
| Primary incubation | Overnight at 4 °C (datasheet A01986-1) |
| Detection | Streptavidin-biotin complex (SABC), DAB chromogen (datasheet A01986-1) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | CDH13-positive staining in cells in glomeruli of kidney (HPA tissue IHC: High). HPA tissue profile: Distinct membranous and cytoplasmic expression in muscle tissues, renal glomeruli, cerebral cortex, in endothelial cells and in basal cells of squamous epithelia. No signal in the no-primary control. |
CDH13 should show membranous staining, with cytoplasmic staining also reported in tissue IHC (HPA: tissue IHC profile). Look for signal in renal glomerular cells, cardiomyocytes, myocytes, smooth muscle cells, and basal cells of squamous epithelia (HPA: tissue IHC). The tissue profile has Enhanced reliability, reflecting high consistency with RNA expression (HPA: reliability). CDH13 has a GPI anchor and no transmembrane segment (UniProt P55290 topology and keywords).
| Glomerular cells stain strongly; cardiomyocytes, skeletal myocytes, or smooth muscle cells stain less intensely. | This matches HPA's High glomerular and Medium muscle-cell staining. Judge intensity within the identified cell type, rather than treating every cell in a positive tissue as positive (HPA: tissue IHC). |
| Membranous staining is accompanied by cytoplasmic staining in expected cells. | Both compartments occur in HPA tissue IHC, while HPA ICC-IF supports plasma-membrane localization. Cytoplasmic tissue staining alone does not establish mislocalization; assess its cell-type distribution and the control slide (HPA: tissue IHC and subcellular ICC-IF). |
| Predominantly nuclear staining appears without the expected cell-boundary pattern. | Nuclear localization is absent from the supplied HPA and UniProt localization records. Treat this as suspect staining and review morphology, controls, and detection background before assigning it to CDH13 (HPA: localization; UniProt P55290 subcellular location; general IHC practice). |
| Strong signal appears in adipocytes or cerebellar granular-layer cells. | HPA reports CDH13 as not detected in those cell types. Check whether the signal belongs to neighboring structures; if it persists in the specified cells, investigate nonspecific antibody binding or endogenous detection activity (HPA: tissue IHC; general IHC practice). |
| No signal appears in renal glomerular cells on the test section. | HPA reports High staining in glomerular cells, so an absent signal warrants a run-control review. It does not by itself prove that the specimen lacks CDH13 (HPA: kidney IHC; general IHC practice). |
| IHC validation and tissue context | HPA rates tissue IHC reliability Enhanced and lists two antibodies with Enhanced IHC validation, HPA001380 and CAB025863. This supports the reported pattern, while cell identity remains essential when reading a mixed tissue section (HPA: reliability and antibodies; general IHC practice). |
| Topology and compartment | CDH13 is GPI-anchored and lacks a transmembrane segment (UniProt P55290 topology and keywords). HPA reports membranous and cytoplasmic tissue staining, so membrane signal is expected without requiring exclusively membrane staining in IHC (HPA: tissue IHC). |
| Processing, isoforms, and epitope | UniProt lists a mature chain at residues 139–693, processed terminal regions, and 5 isoforms. The supplied records give no epitope for the test antibody; do not infer which forms it detects from staining alone (UniProt P55290 processing and isoforms). |
| IF/ICC Q&A: What localization should an IF image show? | HPA supports plasma-membrane localization in ICC-IF and lists HaCaT and SiHa image sets. This is an interpretation reference for IF/ICC; compare tissue IHC against its separate HPA tissue profile (HPA: subcellular ICC-IF and tissue IHC). |
| Situation | Likely cause | Next action |
|---|---|---|
| Glomerular cells lack signal while the section has interpretable tissue morphology. | A failed staining or detection step is possible; HPA reports High glomerular staining but provides no CDH13-specific retrieval or fixation-effect evidence (HPA: kidney IHC; general IHC practice). | Review a known-positive control, primary-antibody application, detection reagents, and counterstain; then optimize retrieval under the antibody's IHC-P instructions without assuming a CDH13-specific retrieval requirement (general IHC practice). |
| Staining is mainly nuclear or appears detached from recognizable cell structures. | The pattern conflicts with the supplied membrane and cytoplasmic localizations; nonspecific staining or detection artefact is possible (HPA: localization; UniProt P55290 subcellular location; general IHC practice). | Recheck focus and cell boundaries, compare the known-positive control, and repeat with appropriate negative detection controls before interpreting the compartment (general IHC practice). |
| Adipocytes stain as strongly as glomerular cells. | HPA reports adipocytes as not detected and glomerular cells as High; signal assigned to adipocytes may reflect misidentified neighboring structures or nonspecific staining (HPA: tissue IHC; general IHC practice). | Confirm cell identity on the counterstained section and inspect a negative control for background; score staining by cell type rather than by whole-tissue brightness (general IHC practice). |
| Color is diffuse across the section, obscuring cell boundaries. | Diffuse background can arise from inadequate blocking, washing, or detection controls in chromogenic IHC; this appearance is not the distinct cellular pattern reported for CDH13 (general IHC practice; HPA: tissue IHC profile). | Inspect negative controls, review blocking and wash steps, and adjust detection conditions according to the assay instructions before scoring CDH13 localization (general IHC practice). |
| Cytoplasmic staining is present alongside membrane staining in expected cells. | HPA describes both membranous and cytoplasmic tissue IHC, although its ICC-IF localization is supported at the plasma membrane (HPA: tissue IHC and subcellular ICC-IF). | Record both compartments and their cell-type distribution. Use the tissue IHC profile when interpreting the paraffin section; do not reject an otherwise matching result solely for cytoplasmic signal (HPA: tissue IHC; general IHC practice). |
| A muscle section has weaker staining than a glomerular control. | That intensity difference can fit HPA's Medium staining in listed muscle cells versus High staining in glomerular cells (HPA: tissue IHC). | Compare the correct cell types and compartment patterns before calling the muscle section negative; investigate the run if its positive control also fails (HPA: tissue IHC; general IHC practice). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Enhanced — High consistency between antibody staining and RNA expression data.). Rows are taken directly from the HPA tissue chart — click any row's HPA link to view the source.
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Kidney | Cells in glomeruli | High | Protein (IHC) | HPA → |
| Heart muscle | Cardiomyocytes | Medium | Protein (IHC) | HPA → |
| Skeletal muscle | Myocytes | Medium | Protein (IHC) | HPA → |
| Skin | Cells in basal layer | Medium | Protein (IHC) | HPA → |
| Smooth muscle | Smooth muscle cells | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Adipose tissue | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Adrenal gland | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Appendix | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Bone marrow | Hematopoietic cells | Not detected | Protein (IHC) | HPA → |
| Breast | Adipocytes | Not detected | Protein (IHC) | HPA → |
Troubleshoot CDH13 staining by checking retrieval, cell type and compartment, then compare each run with appropriate positive and negative controls.
These anti-CDH13 antibodies have IHC images from human and mouse tissues and IF images from cultured cells (catalog image captions); listed species reactivity spans human, mouse, and rat (catalog reactivity).
A01986-1 has IHC images of human appendicitis, gastric cancer, renal carcinoma, and melanoma sections, plus IF in SIHA cells (A01986-1 image captions). M01986-1 has IHC images of human cervical cancer, human squamous cell carcinoma, and mouse skeletal muscle; A10606 has IHC in mouse brain and IF in K562 and 3T3 cells (M01986-1 and A10606 image captions).
Which to pick: For paraffin-section IHC, choose A01986-1 when its documented EDTA retrieval at pH 8.0 and 2 μg/mL staining conditions fit the experiment; M01986-1 also has paraffin-section images, while the A10606 mouse-brain caption does not specify section processing (respective IHC image captions). The paraffin-section captions do not report a fixative (A01986-1 and M01986-1 IHC image captions). For IF/ICC, A01986-1 has a SIHA-cell IF image and lists both applications; for broader listed species reactivity in tissue IHC, M01986-1 is a rabbit monoclonal reactive with human, mouse, and rat, with IHC images from human and mouse tissue (catalog applications, host, clone, reactivity, and image captions).