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- Table of Contents
Plan chromogenic AP2M1 IHC in paraffin sections using the catalog antibody at 2 μg/mL, as demonstrated in human kidney (datasheet A06179-3). Assess cytoplasmic staining against the reported medium signal in neuronal and glandular cells, bearing in mind the uncertain tissue staining reliability (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Cytoplasmic staining in most tissues (HPA tissue IHC) | |
| Staining pattern | Medium cytoplasmic staining in neuronal and glandular cells (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet A06179-3) | |
| Positive control | Appendix+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 | Tissue staining has uncertain reliability (HPA tissue IHC) | |
| Regulation | Expression regulation unreported (UniProt) | |
| Isoform / epitope | 2 isoforms; no transmembrane segment; epitope coverage unknown (UniProt) |
The catalog antibody protocol and this published colorectal tissue IHC protocol provide starting conditions for AP2M1 staining (datasheet A06179-3; PMC10900655).
| Sample | Paraffin-embedded human kidney tissue; fixative not specified (datasheet A06179-3) |
| Fixation | Image fixative and duration unreported (datasheet A06179-3); 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 A06179-3); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A06179-3) |
| Primary antibody | Rabbit anti-AP2M1, 2-5 μg/ml (datasheet A06179-3) |
| Primary incubation | Overnight at 4 °C (datasheet A06179-3) |
| Detection | HRP-conjugated secondary, DAB chromogen (datasheet A06179-3) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | AP2M1-positive staining in glandular cells of appendix (HPA tissue IHC: Medium). HPA tissue profile: Cytoplasmic expression in most tissues. No signal in the no-primary control. |
AP2M1 is an AP-2 adaptor at the cell membrane and coated pits, with no transmembrane segment (UniProt Q96CW1). In paraffin IHC, expect cytoplasmic staining in many tissues, including neuronal and glandular cells (HPA: tissue IHC). Interpret the pattern cautiously: HPA rates its tissue IHC reliability Uncertain because antibody staining and RNA expression show medium consistency (HPA: tissue IHC).
| Moderate cytoplasmic staining in cortical neurons, cerebellar granular-layer cells, or appendix glandular cells. | These are reported positive cell populations with Medium staining (HPA: tissue IHC). Assess the named cells rather than treating all cells in the section as equally positive. Cytoplasmic IHC can be compatible with AP2M1's membrane-associated role; HPA tissue images report a broadly cytoplasmic pattern (HPA: tissue IHC; UniProt Q96CW1). |
| Staining concentrated exclusively in nuclei, with little or no cytoplasmic signal. | An isolated nuclear pattern conflicts with the reported cytoplasmic tissue IHC and membrane/coated-pit localization (HPA: tissue IHC; UniProt Q96CW1). Treat it as suspect and review morphology, detection controls, and antibody specificity before scoring it as AP2M1. |
| Strong staining in adipocytes or esophageal squamous epithelial cells. | Both cell populations are reported Not detected by HPA tissue IHC (HPA: tissue IHC). Unexpected signal can reflect cross-reactivity or endogenous detection activity; inspect a reagent control and repeat with adjusted detection conditions. HPA's Uncertain IHC reliability also limits how decisively a single discordant section can be judged (HPA: tissue IHC). |
| Brown precipitate spread across cells, stroma, and empty spaces without a cell-bound pattern. | This favors nonspecific background or a detection artifact over the reported cellular distribution (general IHC practice; HPA: tissue IHC). Compare a primary-antibody omission control, inspect washing and chromogen development, and score only signal that follows identifiable cell boundaries and morphology (general IHC practice). |
| No signal in cortical neurons or appendix glandular cells while the slide otherwise appears intact. | These are Medium-staining populations in the HPA tissue survey (HPA: tissue IHC). First check positive-control performance, antibody dilution, antigen retrieval, and detection reagents (general IHC practice). A failed control makes the test section uninterpretable; HPA's Uncertain IHC reliability means absence in one specimen alone cannot establish AP2M1 absence (HPA: tissue IHC). |
| Compartment and topology | AP2M1 associates with the cell membrane and coated pits but has no transmembrane segment (UniProt Q96CW1). HPA reports cytoplasmic tissue IHC, while its separate ICC-IF record supports plasma-membrane localization (HPA: tissue IHC; HPA: subcellular). Do not require a sharply outlined membrane in chromogenic sections. |
| Tissue and cell selection | HPA reports Medium staining in neuronal and several glandular populations, Low staining in liver hepatocytes, and Not detected in adipocytes (HPA: tissue IHC). Choose a reported Medium population as a practical comparison; a Low population offers a less clear readout. |
| Strength of IHC evidence | HPA labels the tissue IHC profile Uncertain and antibody HPA036849 Uncertain for IHC (HPA: tissue IHC; HPA: antibodies). Treat the reported pattern as a reference for comparison, then verify specificity with appropriate controls rather than using intensity alone as proof. |
| Assay-specific localization evidence | HPA's plasma-membrane call comes from ICC-IF and is Supported for HPA069870; its tissue IHC summary is cytoplasmic and its listed IHC antibody is Uncertain (HPA: subcellular; HPA: antibodies; HPA: tissue IHC). IF/ICC interpretation belongs to the separate guide and does not supply an IHC protocol. |
| Isoforms and antibody epitope | UniProt lists 2 AP2M1 isoforms, but the supplied evidence does not identify the tested antibody epitope or isoform coverage (UniProt Q96CW1; HPA: antibodies). Do not infer isoform-specific staining or explain a missing signal by epitope differences without antibody documentation. |
| Retrieval and detection settings | For paraffin IHC, retrieval and detection conditions can change the visibility of an immunostain (general IHC practice). No AP2M1-specific retrieval condition or fixation sensitivity is supplied here; use the selected antibody's validated IHC instructions and judge changes against controls. |
| Situation | Likely cause | Next action |
|---|---|---|
| Expected Medium-staining cells show no chromogenic signal. | The run may have failed, or assay settings may be insufficient; one blank specimen does not establish biological absence (general IHC practice; HPA: tissue IHC, Uncertain). | Run a reported Medium-staining neuronal or glandular control alongside the specimen (HPA: tissue IHC). Check reagent activity, the selected antibody's IHC dilution and retrieval instructions, and detection steps (general IHC practice). |
| Only nuclei stain strongly. | This distribution disagrees with HPA's cytoplasmic tissue profile and UniProt's membrane/coated-pit annotation (HPA: tissue IHC; UniProt Q96CW1). | Review cell morphology and a primary-antibody omission control; confirm the pattern with another appropriately validated approach before calling it AP2M1 (general IHC practice). |
| Adipocytes or esophageal squamous cells stain as strongly as the selected positive control. | Those cell types are reported Not detected, so cross-reactivity or endogenous detection activity is possible (HPA: tissue IHC; general IHC practice). | Compare omission and detection-system controls, inspect where precipitate forms, and avoid scoring the discordant signal as specific without further validation (general IHC practice). |
| The whole section has diffuse brown haze. | Excess background can obscure the cell-based pattern used for interpretation (general IHC practice; HPA: tissue IHC). | Check an omission control, washing, blocking, antibody concentration, and chromogen development; adjust one condition at a time while retaining a positive control (general IHC practice). |
| A reported Low-staining population appears negative. | HPA reports Low staining in some cells, including liver hepatocytes, and rates its overall tissue IHC reliability Uncertain (HPA: tissue IHC). | Compare a reported Medium-staining population in the same run before judging assay performance; record the Low result as below detection if the control works (HPA: tissue IHC; general IHC practice). |
| IHC looks cytoplasmic, but an ICC-IF image highlights the plasma membrane. | These are different assay readouts: HPA reports cytoplasmic tissue IHC and Supported plasma-membrane localization in ICC-IF (HPA: tissue IHC; HPA: subcellular). | Interpret the paraffin section against tissue IHC cell patterns and its own controls. Consult the separate IF/ICC guide for that assay; do not transfer its localization threshold to chromogenic IHC (general IHC practice). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Uncertain — 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 | Medium | Protein (IHC) | HPA → |
| Caudate | Neuronal cells | Medium | Protein (IHC) | HPA → |
| Cerebellum | Cells in granular layer | Medium | Protein (IHC) | HPA → |
| Cerebral cortex | Neuronal cells | Medium | Protein (IHC) | HPA → |
| Cervix | Glandular cells | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Adipose tissue | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Bone marrow | Hematopoietic cells | Not detected | Protein (IHC) | HPA → |
| Esophagus | Squamous epithelial cells | Not detected | Protein (IHC) | HPA → |
| Oral mucosa | Squamous epithelial cells | Not detected | Protein (IHC) | HPA → |
| Ovary | Ovarian stroma cells | Not detected | Protein (IHC) | HPA → |
Troubleshoot AP2M1 staining in paraffin sections by checking retrieval, compartment, controls, and scoring; use the IF guidance when comparing fluorescent images.
Validated anti-AP2M1 antibodies have IHC images from human and mouse kidney tissue and IF images from MCF-7 and mouse kidney cells (catalog image captions); both list Human, Mouse, and Rat reactivity (catalog).
A06179-3 has an IHC image from a paraffin-embedded human kidney section and an IF image from MCF-7 cells (A06179-3 image captions). A06179-1 has an IHC image from mouse kidney tissue and an IF image from mouse kidney cells (A06179-1 image captions).
Which to pick: For human paraffin-section IHC, choose rabbit-host A06179-3: its image documents EDTA retrieval and 2 μg/ml primary antibody, but does not report the fixative (A06179-3 IHC caption; catalog host). For mouse tissue IHC, chicken-host A06179-1 lists IHC-P and shows mouse kidney tissue at 2.5 μg/mL; its caption does not report the fixative (A06179-1 applications, IHC caption, and catalog host). For IF/ICC, A06179-3 lists both applications and shows IF in MCF-7 cells; A06179-1 lists IF and shows mouse kidney cells (catalog applications and IF captions). Both list Human, Mouse, and Rat reactivity for cross-species planning, while their IHC images document human tissue for A06179-3 and mouse tissue for A06179-1 (catalog reactivity and IHC captions).