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- Table of Contents
Plan chromogenic SUB1 IHC in paraffin sections around widespread nuclear staining (HPA tissue IHC). The IHC-validated antibody M02698-3 has a 2–5 μg/ml IHC-P range, with 2 μg/ml used overnight at 4°C in its tissue images (datasheet M02698-3).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Nuclear staining across tissues (HPA tissue IHC) | |
| Staining pattern | Widespread nuclear staining across cell types (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet M02698-3) | |
| Positive control | Appendix+4 more · see all | |
| Negative control | None in HPA (detected in all 45 tissues); use no-primary + isotype controls |
| Fixation | Keep fixation consistent across sections (standard IHC practice; not target-specific) | |
| Caveat | Smooth muscle and fibroblasts show low staining (HPA tissue IHC) | |
| Regulation | Expression regulation not annotated (UniProt) | |
| Isoform / epitope | No isoforms; chain 2–127, no membrane sidedness (UniProt) |
The catalog antibody’s IHC-P protocol is paired with one published SUB1 tissue-staining protocol (datasheet M02698-3; PMC5140777 methods).
| Sample | Paraffin-embedded human colorectal adenocarcinoma tissue; fixative not specified (datasheet M02698-3) |
| Fixation | Image fixative and duration unreported (datasheet M02698-3); 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 M02698-3); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet M02698-3) |
| Primary antibody | Mouse monoclonal (clone 8D9D1) anti-SUB1, 2-5 μg/ml (datasheet M02698-3) |
| Primary incubation | Overnight at 4 °C (datasheet M02698-3) |
| Detection | HRP-conjugated secondary, DAB chromogen (datasheet M02698-3) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | SUB1-positive staining in glandular cells of appendix (HPA tissue IHC: High). HPA tissue profile: Ubiquitous nuclear expression. No signal in the no-primary control. |
SUB1 should stain predominantly in nuclei across many cell types (UniProt P53999: nucleus; HPA tissue IHC: ubiquitous nuclear expression). Strong examples include colon glandular cells, liver hepatocytes and bone marrow hematopoietic cells (HPA tissue IHC: High). SUB1 has no transmembrane segment (UniProt P53999 topology). HPA rates the tissue IHC pattern Supported, with medium consistency between staining and RNA expression (HPA tissue IHC reliability).
| Distinct nuclear chromogen in colon glandular cells, hepatocytes or bone marrow hematopoietic cells. | This matches the reported compartment and High staining in those cells (UniProt P53999: nucleus; HPA tissue IHC: High). Judge intensity against adjacent cells on the same section; a darker nucleus alone does not establish a different cell type or a tissue-specific pattern (HPA tissue IHC: ubiquitous nuclear expression; low tissue specificity). |
| Dominant membrane or cytoplasmic staining, with little nuclear signal. | That distribution conflicts with the expected nuclear pattern and should be treated as suspect (UniProt P53999: nucleus; HPA tissue IHC: ubiquitous nuclear expression). Check morphology and the staining controls before scoring it as SUB1; the record supplies no membrane localisation or transmembrane segment (UniProt P53999 topology). |
| A cell population stains strongly while expected nuclei nearby remain unstained. | Consider cross-reactivity or endogenous detection activity, then check cell identity and controls (standard IHC practice). SUB1 has low tissue specificity, so staining in a different cell type is not, by itself, evidence of cross-reactivity (HPA tissue IHC: low tissue specificity). |
| Broad chromogen haze obscures nuclear borders or covers tissue spaces. | The result cannot be scored confidently as nuclear SUB1 (HPA tissue IHC: ubiquitous nuclear expression). Background may arise from nonspecific binding or detection chemistry; inspect the reagent control and reduce background using standard IHC practice before interpreting cell-to-cell differences. |
| No nuclear staining in a well-preserved colon, liver or bone marrow section. | Investigate assay performance before calling the sample SUB1 negative: HPA reports High staining in colon glandular cells, hepatocytes and hematopoietic cells (HPA tissue IHC: High). Confirm the relevant cells are present and review the positive control, antibody and detection run (standard IHC practice). |
| Which tissue gives a useful positive reference? | HPA reports High staining in appendix, breast, cervix and colon glandular cells; liver hepatocytes; bone marrow hematopoietic cells; cerebellar molecular-layer cells; and gallbladder glandular cells (HPA tissue IHC). Choose a section in which the named cell population is identifiable. |
| Can a low-staining cell population serve as a negative reference? | HPA reports Low staining in ovarian follicle cells, smooth muscle cells, skeletal muscle myocytes and soft-tissue fibroblasts, and lists no negative tissue (HPA tissue IHC). Low means a weak signal may be expected; it does not make these populations validated negative controls. |
| How certain is the tissue pattern? | The overall IHC profile is Supported, with medium consistency between staining and RNA expression (HPA tissue IHC reliability). HPA lists HPA001311 and CAB015351 as IHC Supported; neither is labelled IHC Enhanced in the supplied antibody record (HPA antibodies). Interpret unexpected patterns with this evidence limit in mind. |
| What should IF/ICC show? | HPA reports supported nucleoplasmic and nucleolar localisation in ICC-IF and lists images from A-431, U-251MG and U2OS (HPA subcellular ICC-IF). This is a compartment reference for the separate IF/ICC guide; it does not establish how distinctly nucleoli will appear in chromogenic tissue IHC. |
| Do topology or processing predict an extracellular pattern? | UniProt places SUB1 in the nucleus, annotates no transmembrane segment and lists no signal peptide or propeptide (UniProt P53999). Those annotations support a nuclear expectation; they supply no basis for interpreting surface staining as the expected SUB1 pattern. |
| Situation | Likely cause | Next action |
|---|---|---|
| Positive-control tissue has no nuclear signal. | The relevant HPA High cell population may be absent from the viewed area, or the IHC run may have failed (HPA tissue IHC: High; standard IHC practice). | Locate the named cells, inspect section preservation and review the antibody, retrieval and detection records with the run controls (standard IHC practice). No SUB1-specific retrieval condition is supplied. |
| Signal is mainly cytoplasmic or membranous. | The compartment disagrees with nuclear SUB1 and may reflect nonspecific staining or misread morphology (UniProt P53999: nucleus; HPA tissue IHC: ubiquitous nuclear expression). | Compare with a clearly identifiable HPA High cell population and the reagent control; score SUB1 only where nuclear localisation is convincing (HPA tissue IHC: High; standard IHC practice). |
| Chromogen appears in many cells but nuclei cannot be distinguished. | Diffuse background can obscure the HPA nuclear pattern (HPA tissue IHC: ubiquitous nuclear expression; standard IHC practice). | Review blocking, antibody dilution, washes and detection background using the run controls, then reassess nuclear boundaries (standard IHC practice). |
| Unexpected cells stain much more strongly than nearby expected cells. | Cell identification, cross-reactivity or endogenous detection activity may explain the contrast (standard IHC practice); low tissue specificity limits conclusions from cell type alone (HPA tissue IHC). | Check morphology, reagent controls and a named HPA High population before assigning the contrast to SUB1 biology (HPA tissue IHC: High; standard IHC practice). |
| Smooth muscle or fibroblasts show weak nuclear colour. | Weak staining can agree with HPA Low calls for smooth muscle cells and soft-tissue fibroblasts (HPA tissue IHC: Low). | Compare nuclear localisation and intensity with an HPA High population on a comparable run; do not treat Low as an absolute negative (HPA tissue IHC: Low and High). |
| A repeat section gives a different intensity ranking. | HPA reports only medium consistency between antibody staining and RNA expression, so small differences need cautious interpretation (HPA tissue IHC reliability). | Compare the same cell populations under consistent staining and scoring conditions, and verify the positive and reagent controls before reporting a biological difference (standard IHC practice). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Supported — Medium 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 |
|---|---|---|---|---|
| Appendix | Glandular cells | High | Protein (IHC) | HPA → |
| Bone marrow | Hematopoietic cells | High | Protein (IHC) | HPA → |
| Breast | Glandular cells | High | Protein (IHC) | HPA → |
| Cerebellum | Cells in molecular layer | High | Protein (IHC) | HPA → |
| Cervix | Glandular cells | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: SUB1 is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot SUB1 staining in paraffin sections by checking retrieval, nuclear localisation, controls, and cell-level scoring before interpreting differences in signal.
Four anti-SUB1 antibodies have human paraffin-section IHC images; three also have human IF images. The catalog lists human, mouse and rat reactivity for all four (catalog applications, reactivity and image captions).
M02698-3 has human colorectal adenocarcinoma IHC and intestine cancer IF images (M02698-3 IHC/IF captions); M02698-2 has a human colonic adenoma IHC image (M02698-2 IHC caption). A02698-1 has human bladder epithelial carcinoma IHC and cervical carcinoma IF images (A02698-1 IHC/IF captions); PB10098 has human esophageal squamous carcinoma IHC and intestinal cancer IF images (PB10098 IHC/IF captions).
Which to pick: For tissue IHC, M02698-2 is a mouse monoclonal with a human paraffin-section DAB image after EDTA pH 8 retrieval; the fixative is unreported (M02698-2 catalog and IHC caption). For IF, M02698-3, A02698-1 and PB10098 each have a human paraffin-section fluorescence image; ICC validation is unreported (respective catalog applications and IF captions). For mouse or rat samples, all four list reactivity, but their supplied IHC images show human tissue; M02698-3 also lists IF (catalog reactivity/applications; respective IHC captions).