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- Table of Contents
Plan chromogenic STAT3 IHC in paraffin sections using its variable cytoplasmic and nuclear tissue staining as a reference (HPA tissue IHC). Compare compartments across conditions because LIF can increase nuclear STAT3 (UniProt).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Variable cytoplasmic and nuclear staining (HPA tissue IHC) | |
| Staining pattern | Variable cytoplasmic/nuclear signal; high in cytotrophoblasts (HPA tissue IHC) | |
| Antigen retrieval | Tris-EDTA pH 9.0 HIER, 95–98 °C, 20 min (rule: nuclear antigen) | |
| Positive control | Placenta+4 more · see all | |
| Negative control | Heart muscle+3 more · see all |
| Fixation | Keep formalin fixation consistent across sections. (standard IHC practice; not target-specific) | |
| Caveat | Nuclear staining alone does not prove Tyr705 phosphorylation (UniProt) | |
| Regulation | LIF increases nuclear STAT3 (UniProt) | |
| Isoform / epitope | Three isoforms; verify antibody epitope coverage (UniProt) |
The catalog antibody’s IHC-P protocol is accompanied by four published phospho-STAT3 IHC workflows (PMC7114280; PMC5374098; PMC6829927; PMC4287356).
| Sample | Paraffin-embedded tissue sections; fixative not specified (datasheet M00007-1; sample unspecified) |
| Fixation | Image fixative and duration unreported (datasheet M00007-1); verify before use. |
| Sectioning | 4–5 µm sections on charged slides (standard) |
| Deparaffinisation | Xylene, graded ethanol series to water (standard) |
| Antigen retrieval | Heat-induced epitope retrieval in Tris-EDTA buffer, pH 9.0, 20 min at 95–98 °C (standard rule: nuclear antigen) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% normal serum of the secondary host, 30 min, room temperature (standard) |
| Primary antibody | Rabbit monoclonal (clone CAB-19) anti-STAT3, 1:50-1:200 (datasheet M00007-1) |
| Primary incubation | Overnight at 4 °C (standard) |
| Detection | HRP-polymer secondary, DAB chromogen 5–10 min (standard) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | STAT3-positive staining in cytotrophoblasts of placenta (HPA tissue IHC: High). HPA tissue profile: General cytoplasmic and nuclear expression at variable levels. No signal in the no-primary control. |
STAT3 is a cytoplasmic and nuclear protein that shuttles between compartments; it has no transmembrane segment (UniProt P40763). In paraffin-section IHC, expect variable staining across cells, including high staining in placental cytotrophoblasts and medium staining in bronchial respiratory epithelial cells (HPA: tissue IHC). HPA rates the tissue pattern Supported, with medium consistency between antibody staining and RNA expression (HPA: tissue IHC).
| Placental cytotrophoblasts stain strongly, with cytoplasmic and/or nuclear signal. | This fits the reported high cytotrophoblast staining and general cytoplasmic and nuclear pattern (HPA: tissue IHC). Score the two compartments separately: nuclear signal can reflect STAT3 localisation, but total STAT3 staining alone does not establish pathway activation (UniProt P40763). |
| Some cells show stronger nuclear staining than nearby cells. | STAT3 shuttles, is predominantly cytoplasmic without stimuli, and can accumulate in the nucleus after signalling (UniProt P40763). Constitutive nuclear presence can also occur independently of tyrosine phosphorylation, so nuclear staining alone cannot identify the stimulus or prove phosphorylation (UniProt P40763). |
| Signal is confined to an extracellular rim or a crisp plasma-membrane outline. | An exclusively extracellular or membrane-bound pattern is inconsistent with the reported cytoplasmic and nuclear localisation and absence of a transmembrane segment (UniProt P40763; HPA: tissue IHC). Check whether the pattern persists in controls before assigning it to STAT3 (standard IHC practice). |
| Strong staining appears in a cell population reported as not detected by HPA. | For example, HPA reports no staining in heart-muscle cardiomyocytes or prostate glandular cells (HPA: tissue IHC). Cross-reactivity or endogenous detection activity is possible; HPA’s Supported rating has only medium staining-to-RNA consistency, so investigate the discrepancy rather than declaring the cells STAT3-negative (HPA: tissue IHC; standard IHC practice). |
| Color covers tissue broadly, obscuring cell borders and nuclei. | This diffuse pattern cannot support a compartment or cell-type call (standard IHC practice). Compare a primary-omission control and the expected distribution before interpreting any remaining cellular signal; nonspecific binding or detection background may be responsible (standard IHC practice; HPA: tissue IHC). |
| Cell and tissue context | HPA reports high cytotrophoblast staining, medium bronchial respiratory epithelial and adipocyte staining, and low hepatocyte staining (HPA: tissue IHC). Use the named cell population when comparing sections; a tissue-level positive does not imply uniform intensity in every cell (HPA: tissue IHC). |
| Activation and compartment | STAT3 is predominantly cytoplasmic without stimuli and can move into the nucleus after signalling, including LIF stimulation (UniProt P40763). Nuclear presence can also be constitutive and independent of tyrosine phosphorylation; record localisation without calling activation from total STAT3 staining alone (UniProt P40763). |
| Antibody evidence | HPA lists five antibodies with Supported IHC status, while its overall tissue-IHC reliability is Supported with medium staining-to-RNA consistency (HPA: antibodies; HPA: tissue IHC). This supports comparison with the atlas pattern, but does not validate every antibody or every cell-level result (HPA: antibodies; HPA: tissue IHC). |
| Protein forms and epitope coverage | UniProt lists three STAT3 isoforms and no signal peptide or propeptide (UniProt P40763). Without an antibody epitope in the supplied evidence, isoform coverage cannot be predicted; do not assign a staining difference to a particular isoform from morphology alone (UniProt P40763). |
| IF/ICC Q: where should STAT3 appear? | HPA reports enhanced nucleoplasm and cytosol localisation in ICC-IF (HPA: subcellular). That supports the compartment expectation, but the ICC-IF observation does not establish a paraffin-section intensity or an IHC protocol (HPA: subcellular; HPA: tissue IHC). |
| Situation | Likely cause | Next action |
|---|---|---|
| No signal in placental cytotrophoblasts. | The reported high-staining cell population is absent from the section, or the IHC run has inadequate detection (HPA: tissue IHC; standard IHC practice). | Confirm cytotrophoblasts are present, then review the catalog antibody’s IHC-P instructions and run controls for primary-antibody and detection steps (HPA: tissue IHC; standard IHC practice). |
| Only background color appears in a primary-omission control. | Detection chemistry or endogenous tissue activity may contribute signal without the primary antibody (standard IHC practice). | Review detection blocking and the chromogen-development step, then compare the corrected control with cellular staining (standard IHC practice). |
| Strong color appears in HPA not-detected cells. | Cross-reactivity or endogenous detection activity is possible; HPA reports cardiomyocytes and prostate glandular cells as not detected (HPA: tissue IHC; standard IHC practice). | Check cell identity and a primary-omission control, then compare the same pattern with another IHC-Supported antibody if available (HPA: antibodies; standard IHC practice). |
| Signal appears only as a membrane-like outline. | The pattern does not match the reported cytoplasmic and nuclear localisation or lack of a transmembrane segment (UniProt P40763; HPA: tissue IHC). | Inspect the primary-omission control and section morphology; report the pattern as discordant until cell-resolved cytoplasmic or nuclear staining is shown (standard IHC practice; HPA: tissue IHC). |
| Nuclear staining is interpreted as proof of STAT3 activation. | STAT3 can be constitutively nuclear independently of tyrosine phosphorylation (UniProt P40763). | Score nuclear and cytoplasmic staining separately, and reserve phosphorylation claims for a separately validated phosphorylation-specific assay (UniProt P40763; standard IHC practice). |
| A low-signal tissue is treated as a failed run. | HPA reports low staining in hepatocytes and no staining in some named cell populations despite broad tissue expression (HPA: tissue IHC; UniProt P40763). | Compare the exact cell population with HPA and assess an appropriate positive-control section before changing the IHC workflow (HPA: tissue IHC; 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 |
|---|---|---|---|---|
| Placenta | Cytotrophoblasts | High | Protein (IHC) | HPA → |
| Adipose tissue | Adipocytes | Medium | Protein (IHC) | HPA → |
| Adrenal gland | Glandular cells | Medium | Protein (IHC) | HPA → |
| Appendix | Glandular cells | Medium | Protein (IHC) | HPA → |
| Breast | Adipocytes | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Heart muscle | Cardiomyocytes | Not detected | Protein (IHC) | HPA → |
| Hippocampus | Glial cells | Not detected | Protein (IHC) | HPA → |
| Parathyroid gland | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Prostate | Glandular cells | Not detected | Protein (IHC) | HPA → |
Use compartment aware controls and matched processing to troubleshoot STAT3 staining in paraffin section IHC (UniProt P40763; HPA tissue IHC).
Catalog IHC images show STAT3 staining in human tissues, mouse liver, and rat brain; IF images include human cells (catalog IHC/IF captions).
M00007-1 shows paraffin-embedded human Hodgkin’s lymphoma (catalog IHC caption); A00007-1 shows human small intestine (catalog IHC caption); M00007 shows paraffin-embedded human thyroid carcinoma (catalog IHC caption). M00007-2 shows paraffin-embedded mouse liver despite listing human-only reactivity (catalog IHC caption; catalog reactivity); M00007-4 shows human pancreas (catalog IHC caption); P00007-1 shows paraffin-embedded rat brain with phospho-STAT3 (S727) staining (catalog IHC caption).
Which to pick: For tissue IHC, start with M00007-1: its image documents a paraffin-embedded human Hodgkin’s lymphoma section at 1:50, but does not report the fixative (catalog IHC caption). For IF/ICC, M00007 is a rabbit monoclonal listed for both applications at 1:50, with a HeLa IF image (catalog applications, dilution, clone and IF caption). For work across species, M00007-1 lists Human, Mouse and Rat reactivity and has a paraffin-embedded rat brain IHC image; check performance in each intended tissue (catalog reactivity and IHC captions).