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- Table of Contents
Plan chromogenic SNAPC5 IHC on paraffin sections using the catalog antibody at 1:100–1:300 (datasheet). Interpret the reported cytoplasmic tissue staining (HPA tissue IHC) alongside the nuclear molecular annotation (UniProt), with caution because tissue staining reliability is uncertain (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Cytoplasmic tissue stain (HPA tissue IHC); nuclear location (UniProt) | |
| Staining pattern | Cytoplasmic staining in most tissues (HPA tissue IHC) | |
| Antigen retrieval | Tris-EDTA pH 9.0 HIER, 95–98 °C, 20 min (rule: nuclear antigen) | |
| Positive control | Appendix+4 more · see all | |
| Negative control | Adipose tissue+3 more · see all |
| Fixation | Keep fixation consistent across paraffin sections (standard IHC practice; not target-specific) | |
| Caveat | Tissue staining has low concordance with RNA expression (HPA tissue IHC) | |
| Regulation | Regulation unannotated (UniProt) | |
| Isoform / epitope | 2 isoforms; epitope differences unannotated (UniProt) |
The catalog antibody’s IHC-P protocol is followed by one published SNAPC5 IHC example in human colon cancer tissue (PMC10373975).
| Sample | Paraffin-embedded human brain tissue; fixative not specified (datasheet A07260) |
| Fixation | Image fixative and duration unreported (datasheet A07260); 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 anti-SNAPC5, 1:100 - 1:300 (datasheet A07260) |
| 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 | SNAPC5-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. |
SNAPC5 is a nuclear protein with no transmembrane segment (UniProt O75971: subcellular location and topology). Nucleoplasmic signal is supported by HPA ICC-IF (HPA: nucleoplasm, supported), while tissue IHC reports mainly cytoplasmic staining with uncertain reliability (HPA: tissue IHC, Uncertain). On paraffin sections, inspect the reported medium staining in appendix, breast, and colon glandular cells and in bronchial respiratory epithelial cells, but treat compartment assignment cautiously (HPA: tissue IHC).
| Distinct nuclear signal in glandular or respiratory epithelial cells, with a visible nuclear counterstain. | This fits the nuclear localization assigned by UniProt and supported by HPA ICC-IF (UniProt O75971: nucleus; HPA: nucleoplasm, supported). These cell types have medium tissue IHC staining, although that IHC profile describes the signal as cytoplasmic and rates its reliability Uncertain (HPA: tissue IHC). Record the compartment actually seen. |
| Cytoplasmic staining dominates, with little discernible nuclear signal. | This resembles HPA's tissue IHC profile, which reports cytoplasmic expression in most tissues (HPA: tissue IHC). It conflicts with the nuclear localization evidence (UniProt O75971: nucleus; HPA: nucleoplasm, supported). Because HPA rates the tissue IHC profile Uncertain, cytoplasmic signal alone does not establish SNAPC5 localization; assess background and antibody specificity. |
| Strong staining appears in adipocytes, smooth muscle cells, or soft-tissue fibroblasts. | These cell populations are listed as not detected in HPA tissue IHC (HPA: adipose tissue, smooth muscle, soft tissue). Unexpected staining raises possible cross-reactivity or endogenous detection activity, both general IHC concerns (standard IHC practice). Compare with an appropriate detection-only control before assigning the signal to SNAPC5. |
| Color covers nuclei, cytoplasm, and surrounding tissue without clear cell boundaries. | This is difficult to score as a cellular pattern and can reflect nonspecific staining or excess detection background (standard IHC practice). It cannot resolve the disagreement between nuclear localization and the uncertain cytoplasmic tissue profile (UniProt O75971: nucleus; HPA: tissue IHC, Uncertain). Interpret only compartment-resolved staining. |
| No signal is visible in appendix, breast, or colon glandular cells, or bronchial respiratory epithelial cells. | These are reported at medium intensity, making them useful comparison cells, although HPA rates the tissue IHC profile Uncertain (HPA: tissue IHC). Absence of signal can reflect assay performance or a difference between the specimen and HPA observations (standard IHC practice). Check the control and detection workflow before calling the specimen negative. |
| Localization evidence | UniProt places SNAPC5 in the nucleus, and HPA ICC-IF supports nucleoplasmic localization (UniProt O75971; HPA: subcellular). HPA tissue IHC instead describes cytoplasmic expression and rates its profile Uncertain (HPA: tissue IHC). This disagreement limits how confidently a chromogenic compartment can be assigned. |
| Tissue and cell context | HPA reports medium staining in glandular, respiratory epithelial, and selected neuronal populations; adipocytes, smooth muscle cells, and soft-tissue fibroblasts are not detected (HPA: tissue IHC). These are observed levels, not a universal positive or negative guarantee: HPA reports low tissue RNA specificity and uncertain IHC reliability (HPA: tissue IHC). |
| Antibody validation | The listed antibody, HPA024379, is rated Uncertain for IHC and Supported for ICC (HPA: antibodies). The tissue profile also has low consistency between antibody staining and RNA expression data and awaits external verification (HPA: tissue IHC). Treat an unexpected IHC compartment or cell population as provisional. |
| Isoforms and epitope scope | UniProt lists two SNAPC5 isoforms but supplies no epitope position for the antibody here (UniProt O75971: isoforms; HPA: antibodies). The record therefore cannot show whether both isoforms are recognized or whether an isoform difference explains a tissue result. Avoid assigning an isoform from stain intensity alone. |
| Topology, processing, and modification | SNAPC5 has no transmembrane segment or signal peptide; its annotated chain spans residues 1–98, with phosphothreonine at residue 85 (UniProt O75971: topology, processing, modified residues). The supplied evidence gives no antibody epitope or target-specific fixation effect, so these features do not predict retrieval needs, staining intensity, or antigen loss. |
| Situation | Likely cause | Next action |
|---|---|---|
| A reported medium-staining tissue has no visible signal. | The assay may have failed, or the specimen may differ from HPA's observation (standard IHC practice; HPA: tissue IHC, Uncertain). | Confirm that the positive control and detection reagents worked, then review antibody dilution and the chosen antigen-retrieval procedure as general IHC checks (standard IHC practice). Do not infer SNAPC5-specific retrieval or fixation sensitivity from this record. |
| Only cytoplasmic staining appears. | HPA reports cytoplasmic tissue staining, but its IHC reliability is Uncertain and nuclear localization has separate support (HPA: tissue IHC; HPA: nucleoplasm, supported; UniProt O75971: nucleus). | Score nuclear and cytoplasmic signal separately. Compare with a detection-only control and, where available, independent specificity evidence (standard IHC practice); describe cytoplasmic-only staining as unresolved rather than confirmed SNAPC5. |
| Staining appears in a population listed as not detected. | Cross-reactivity or endogenous detection activity is possible (standard IHC practice); HPA lists adipocytes, smooth muscle cells, and soft-tissue fibroblasts as not detected (HPA: tissue IHC). | Run a suitable control without the primary antibody and inspect whether the color follows the detection system (standard IHC practice). Reassess antibody-specific signal before changing the expected tissue pattern. |
| Diffuse color obscures cells or compartments. | Nonspecific binding or detection background can obscure localization (standard IHC practice). The uncertain HPA tissue IHC profile cannot validate an indistinct signal (HPA: tissue IHC, Uncertain). | Inspect controls, blocking, washing, antibody dilution, and detection exposure; adjust only the implicated workflow step (standard IHC practice). Score the slide once cell boundaries and the nuclear counterstain can be distinguished. |
| A negative comparator stains as strongly as the test population. | The result conflicts with HPA's not-detected calls for the specified comparator cells, though the IHC profile itself is Uncertain (HPA: tissue IHC). | Verify the cell identity and compare staining with the detection-only control (standard IHC practice). Report the discordance explicitly; HPA's uncertain profile does not justify calling either observation definitive. |
| Does IF/ICC clarify the expected compartment? | HPA ICC-IF supports a mainly nucleoplasmic location, whereas HPA tissue IHC reports cytoplasmic expression with Uncertain reliability (HPA: subcellular; HPA: tissue IHC). | Use the ICC-IF result as localization context when interpreting the IHC slide, while keeping the assays' evidence separate (standard IHC practice). The supplied ICC-IF evidence provides no IF/ICC protocol or basis for an IF reagent setting. |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Uncertain — Low 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 |
|---|---|---|---|---|
| Appendix | Glandular cells | Medium | Protein (IHC) | HPA → |
| Breast | Glandular cells | Medium | Protein (IHC) | HPA → |
| Bronchus | Respiratory epithelial cells | Medium | Protein (IHC) | HPA → |
| Caudate | Neuronal cells | Medium | Protein (IHC) | HPA → |
| Cerebellum | Cells in granular layer | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Adipose tissue | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Smooth muscle | Smooth muscle cells | Not detected | Protein (IHC) | HPA → |
| Soft tissue | Fibroblasts | Not detected | Protein (IHC) | HPA → |
| Vagina | Squamous epithelial cells | Not detected | Protein (IHC) | HPA → |
These questions address chromogenic IHC of SNAPC5 in paraffin sections, with one entry for interpreting related IF/ICC evidence.
A07260 has a human brain paraffin-section IHC image (catalog IHC caption); IF/ICC are listed applications without a supplied IF image (catalog applications; IF image alts).
A07260 will render with an IHC image of paraffin-embedded human brain tissue and a peptide-blocked comparison (catalog IHC caption). Human and mouse reactivity and IF/ICC applications are listed, but no IF image is supplied (catalog reactivity; catalog applications; IF image alts).
Which to pick: Choose A07260 for tissue IHC because its own image shows paraffin-embedded human brain tissue; the fixative is unreported (catalog IHC caption). For IF/ICC, A07260 is the listed option, with a catalog IF dilution of 1:50, but no IF image is supplied (catalog applications; catalog IF dilution; IF image alts). For human or mouse samples, A07260 is the listed rabbit polyclonal option; its IHC image documents human tissue only (catalog reactivity; catalog host; catalog dilution_raw; catalog IHC caption).