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- Table of Contents
PDIA6 shows granular cytoplasmic staining across tissues (HPA tissue IHC). This IHC guide uses high-staining pancreatic exocrine cells as a reference (HPA tissue IHC) and a starting antibody concentration of 2–5 μg/ml (datasheet: M03813-1).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Granular cytoplasm in tissue (HPA tissue IHC); ER lumen expected (UniProt) | |
| Staining pattern | Granular cytoplasmic staining across tissue cell types (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet M03813-1) | |
| Positive control | Bone marrow+4 more · see all | |
| Negative control | None in HPA (detected in all 45 tissues); use no-primary + isotype controls |
| Fixation | Matched tissue-IHC evidence does not establish the fixation claim. Validate the specimen-specific method before use. (selected-SKU IHC image M03813-1) | |
| Caveat | Some cell types stain weakly despite broad tissue expression (HPA tissue IHC) | |
| Regulation | Expression regulation unreported (UniProt) | |
| Isoform / epitope | 5 isoforms; mature chain 20–440; epitope coverage unknown (UniProt; catalog record) |
The catalog antibody’s IHC-P protocol is accompanied by published PDIA6 staining methods for tumor and rat spinal cord sections (PMC13444140; PMC6491656; PMC9449696).
| Sample | Paraffin-embedded human bladder epithelial carcinoma tissue; fixative not specified (datasheet M03813-1) |
| Fixation | Image fixative and duration unreported (datasheet M03813-1); 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 M03813-1); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet M03813-1) |
| Primary antibody | Mouse monoclonal (clone 3H5E7) anti-PDIA6, 2 μg/ml (datasheet M03813-1) |
| Primary incubation | Overnight at 4 °C (datasheet M03813-1) |
| Detection | HRP-conjugated secondary, DAB chromogen (datasheet M03813-1) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | PDIA6-positive staining in hematopoietic cells of bone marrow (HPA tissue IHC: High). HPA tissue profile: Cytoplasmic expression with a granular pattern in all tissues. No signal in the no-primary control. |
PDIA6 should appear mainly as granular cytoplasmic staining, consistent with its endoplasmic reticulum lumen location and lack of a transmembrane segment (HPA: tissue IHC profile; UniProt Q15084: location and topology). High staining is reported in several cell populations, including pancreatic exocrine glandular cells and lung alveolar type II cells (HPA: High). HPA rates the tissue IHC profile Enhanced, with medium consistency against RNA data and external verification pending (HPA: tissue IHC reliability).
| Granular cytoplasmic staining in pancreatic exocrine glandular cells or lung alveolar type II cells (HPA: High). | This fits the reported tissue pattern and the predominantly endoplasmic reticulum localization (HPA: tissue IHC profile; HPA: subcellular, supported). Judge intensity within the identified cell population, rather than treating every cell in the section as an equivalent control (HPA: cell-specific tissue IHC levels). |
| Predominantly nuclear, sharply surface-restricted, or extracellular staining, with little granular cytoplasmic signal. | Recheck specificity and detection: these patterns do not match the dominant tissue IHC appearance (HPA: granular cytoplasmic profile). UniProt also lists cell membrane and melanosome locations, so an isolated atypical compartment cannot be dismissed solely by topology (UniProt Q15084: locations; no transmembrane segment). |
| Strong signal confined to cells reported as low, while expected high-staining cells in the same comparison are weak (HPA: tissue IHC levels). | Consider antibody cross-reactivity or endogenous chromogenic activity before assigning that contrast to PDIA6 (general IHC practice). Low staining is reported for oral squamous epithelium and cardiomyocytes, but HPA reports low tissue specificity; these are weak comparators, not proven negatives (HPA: Low; RNA specificity). |
| Uniform haze across cells, stroma, or the whole section obscures cellular detail. | The signal is difficult to score as PDIA6 because HPA describes a granular cytoplasmic pattern (HPA: tissue IHC profile). Excess background can arise from detection or blocking conditions in chromogenic IHC (general IHC practice); compare a no-primary control and inspect whether granules remain discernible. |
| No detectable staining in pancreatic exocrine glandular cells or bone marrow hematopoietic cells (HPA: High). | Treat this as a failed expected-positive result, then check the antibody's IHC-P validation, retrieval and detection controls (HPA: tissue IHC levels; general IHC practice). HPA's Enhanced rating supports the reported pattern, but its medium RNA agreement and pending external verification limit certainty for an individual section (HPA: reliability). |
| Compartment and topology (UniProt Q15084: ER lumen; no transmembrane segment). | Expect the dominant tissue signal in granular cytoplasm (HPA: tissue IHC profile). UniProt also records cell membrane and melanosome locations, but those entries do not establish a dominant membrane or melanosome pattern in paraffin sections (UniProt Q15084: locations; HPA: tissue IHC profile). |
| Cell population chosen for comparison (HPA: High and Low tissue IHC levels). | Use a reported high-staining population to judge whether the stain worked: pancreatic exocrine cells, endometrial glandular cells and lung alveolar type II cells are examples (HPA: High). Low-staining populations can provide contrast, but HPA lists no negative tissue and reports low RNA tissue specificity (HPA: Low; negative list; RNA specificity). |
| Antibody evidence (HPA: antibody validation; tissue IHC reliability). | HPA lists Enhanced IHC status for HPA034652, HPA034653 and CAB034347; its tissue profile still notes medium consistency with RNA and pending external verification (HPA: antibodies; reliability). Match interpretation to the antibody actually used and its own validated IHC-P procedure (general IHC practice). |
| Processing and isoforms (UniProt Q15084: signal peptide 1–19; five isoforms). | The annotated chain begins at residue 20, and five isoforms are listed (UniProt Q15084: processing; isoforms). Antibody epitope and isoform coverage are absent from these payloads, so neither loss of staining nor isoform-specific staining can be inferred from those annotations. |
| Chromogenic detection and retrieval (general IHC practice). | Blocking, retrieval and detection settings can change background or visibility in routine IHC (general IHC practice). No PDIA6-specific retrieval condition, dilution or fixation sensitivity is supplied here; use the selected antibody's validated IHC-P instructions and evaluate controls. |
| IF/ICC Q&A: Where should fluorescence appear? | Mainly in the endoplasmic reticulum (HPA: ICC-IF, supported). HPA additionally reports primary cilium, centriolar satellite and basal body locations as uncertain; treat those signals cautiously (HPA: ICC-IF, uncertain). IF/ICC procedure selection belongs in its separate guide. |
| Situation | Likely cause | Next action |
|---|---|---|
| Expected high-staining pancreatic exocrine cells are blank (HPA: High). | The result conflicts with the reported tissue pattern; the cause cannot be assigned from HPA staining levels alone (HPA: High). | Confirm cell identity, section integrity and detection controls; review the antibody's IHC-P retrieval and dilution instructions (general IHC practice). |
| Signal appears chiefly nuclear. | Nuclear predominance differs from HPA's granular cytoplasmic profile (HPA: tissue IHC profile). | Compare a no-primary control and a reported high-staining cell population before scoring nuclear signal as PDIA6 (HPA: High; general IHC practice). |
| The entire section has brown haze that hides cell boundaries. | Background may reflect chromogen or blocking conditions (general IHC practice); it prevents assessment of the reported granules (HPA: tissue IHC profile). | Review no-primary control staining, blocking and detection development; score only cellular signal separable from background (general IHC practice). |
| Low-staining oral squamous epithelium appears intensely positive (HPA: Low). | Cross-reactivity or endogenous detection activity is possible (general IHC practice); HPA does not establish this tissue as PDIA6-negative (HPA: Low; negative list). | Check the detection control and compare the pattern with a reported high-staining population using the same run (HPA: High; general IHC practice). |
| A rim-like membrane signal dominates over cytoplasmic granules. | The balance differs from HPA tissue IHC, although UniProt lists cell membrane localization (HPA: tissue IHC profile; UniProt Q15084: locations). | Inspect staining in high-staining cells and controls; document the atypical compartment separately rather than treating membrane localization as validated for this section (HPA: High; general IHC practice). |
| Two antibodies produce different intensities in the same cell population. | Enhanced IHC status does not guarantee identical results from each reagent, and the tissue profile awaits external verification (HPA: antibodies; reliability). | Check each antibody's IHC-P instructions and compare localization, controls and cell identity before interpreting the intensity difference biologically (general IHC practice; HPA: tissue IHC profile). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Enhanced — Medium consistency between antibody staining and RNA expression data. Pending external verification.). 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 |
|---|---|---|---|---|
| Bone marrow | Hematopoietic cells | High | Protein (IHC) | HPA → |
| Duodenum | Endocrine cells | High | Protein (IHC) | HPA → |
| Endometrium | Glandular cells | High | Protein (IHC) | HPA → |
| Epididymis | Glandular cells | High | Protein (IHC) | HPA → |
| Gallbladder | Glandular cells | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: PDIA6 is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot PDIA6 staining in paraffin sections by checking retrieval, compartment, background and cell type before interpreting DAB intensity.
Anti-PDIA6 antibodies have paraffin-section IHC images from human, mouse and rat tissues (catalog IHC captions), plus IF/ICC images from HepG2 and U20S cells (catalog IF captions).
M03813-1 has paraffin-section IHC images from human bladder epithelial carcinoma, breast infiltrating ductal carcinoma, colorectal adenocarcinoma and endometrial cancer tissue, plus an IF/ICC image from HepG2 cells (M03813-1 image captions). A03813-2 has paraffin-section IHC images from mouse and rat ovary, human breast cancer and human liver cancer tissue, plus an IF/ICC image from U20S cells (A03813-2 image captions).
Which to pick: For human tissue IHC, choose M03813-1 when a mouse monoclonal is preferred (catalog: clone 3H5E7); its own paraffin-section caption uses EDTA retrieval at pH 8.0 and 2 μg/ml primary antibody, and does not report the fixative (M03813-1 IHC caption). For IF/ICC, both SKUs have cell images: M03813-1 in HepG2 and A03813-2 in U20S, each at 5 μg/ml in its own caption (catalog IF captions). For IHC across human, mouse and rat samples, choose A03813-2 (catalog: IHC application and human, mouse, rat reactivity); its own paraffin-section captions show those species with EDTA retrieval at pH 8.0, while the fixative is unreported (A03813-2 IHC captions).