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- Table of Contents
Plan XRCC6 IHC in paraffin sections around the widespread nuclear tissue pattern (HPA tissue IHC). High staining in colon glandular cells offers a reference (HPA tissue IHC); assess cytoplasmic signal cautiously because trimethylated XRCC6 can localize there (UniProt).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Predominantly nuclear in tissue sections (HPA tissue IHC) | |
| Staining pattern | Widespread nuclear staining (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet PB9520) | |
| Positive control | Adrenal gland+4 more · see all | |
| Negative control | None in HPA (detected in all 45 tissues); use no-primary + isotype controls |
| Fixation | Keep fixation conditions consistent across sections. (standard IHC practice; not target-specific) | |
| Caveat | Trimethylation may shift XRCC6 to the cytoplasm (UniProt) | |
| Regulation | Low tissue specificity (HPA tissue RNA) | |
| Isoform / epitope | 2 isoforms; epitope differences are unspecified (UniProt) |
The catalog antibody’s IHC-P protocol (datasheet PB9520) is accompanied by published XRCC6 IHC protocols from osteosarcoma and colorectal cancer studies (PMC4964557; PMC12623751).
| Sample | Paraffin-embedded human bladder cancer tissue; fixative not specified (datasheet PB9520) |
| Fixation | Image fixative and duration unreported (datasheet PB9520); 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 PB9520); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet PB9520) |
| Primary antibody | Rabbit anti-XRCC6, 2-5μg/ml (datasheet PB9520) |
| Primary incubation | Overnight at 4 °C (datasheet PB9520) |
| Detection | HRP-conjugated secondary, DAB chromogen (datasheet PB9520) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | XRCC6-positive staining in glandular cells of adrenal gland (HPA tissue IHC: High). HPA tissue profile: Ubiquitous nuclear expression. No signal in the no-primary control. |
XRCC6 should stain predominantly in nuclei across many cell types: HPA describes ubiquitous nuclear expression with Enhanced tissue IHC reliability, including High staining in colon glandular and bronchial respiratory epithelial cells (HPA: tissue IHC). UniProt also places XRCC6 on chromosomes and, when trimethylated, in the cytoplasm; it has no transmembrane segment (UniProt P12956: subcellular location and topology).
| Clear nuclear staining in colon glandular cells or bronchial respiratory epithelial cells. | This matches reported High staining in those cells and the broader ubiquitous nuclear profile (HPA: tissue IHC). Assess nuclear signal against the counterstain and neighboring tissue structures; intensity alone cannot establish antibody specificity (general IHC practice). |
| Predominantly cytoplasmic staining, with little or no nuclear signal. | This conflicts with the usual nuclear tissue pattern (HPA: ubiquitous nuclear expression). UniProt reports cytoplasmic localization when XRCC6 is trimethylated, so cytoplasmic signal is not automatically false (UniProt P12956: subcellular location). Check whether the nuclear positive control stains before interpreting it as biology (general IHC practice). |
| Strong staining in an unexpected cell population while expected glandular nuclei are blank. | For colon or appendix, blank glandular nuclei conflict with reported High glandular staining (HPA: tissue IHC). Cross-reactivity or endogenous chromogenic activity may explain the unexpected signal (general IHC practice); HPA provides no negative cell-type list, so do not declare that population XRCC6-negative. |
| Diffuse color across nuclei, cytoplasm and tissue spaces. | This obscures the expected nuclear distribution (HPA: tissue IHC). Excess detection background, inadequate blocking or incomplete washes are possible general IHC causes; the appearance alone cannot identify which step failed (general IHC practice). Compare a no-primary control with the stained section. |
| No detectable signal in a well-preserved known-positive tissue. | Adrenal gland, breast, colon and duodenum glandular cells are reported High (HPA: tissue IHC). A blank run in one of these tissues raises a technical concern, but is not proof that XRCC6 is absent. Review control performance, detection chemistry and tissue quality (general IHC practice). |
| Compartment and cell context | HPA reports ubiquitous nuclear tissue staining and Enhanced reliability, reflecting high consistency between antibody staining and RNA expression data (HPA: tissue IHC). Score interpretable nuclei in the relevant cell population rather than treating all colored areas as equivalent. |
| Conditional cytoplasmic localization | UniProt lists nucleus, chromosome and cytoplasm, specifying cytoplasmic localization when XRCC6 is trimethylated (UniProt P12956: subcellular location). This permits a biological explanation for some cytoplasmic signal, but neither source supplies a tissue-specific cytoplasmic IHC pattern. |
| Antibody validation | HPA047549 and HPA062226 have Enhanced IHC and ICC ratings; CAB004254 has Supported IHC status (HPA: antibodies). Those ratings support the reported patterns for those antibodies; they do not validate an unlisted catalog antibody or establish its epitope. |
| Protein forms and epitope limits | UniProt lists two isoforms, a 2–609 chain and no signal peptide, propeptide or transmembrane segment (UniProt P12956: processing, isoforms and topology). The supplied sources give no antibody epitope, so isoform recognition and effects of processing cannot be predicted from this record. |
| Retrieval and chromogenic detection | Antigen retrieval, blocking and detection conditions can alter visibility or background in paraffin IHC (general IHC practice). The supplied HPA and UniProt records do not establish XRCC6-specific retrieval needs or fixation sensitivity; optimize against controls without attributing a failed stain to XRCC6-specific masking. |
| Situation | Likely cause | Next action |
|---|---|---|
| Known-positive glandular nuclei are blank. | Possible missed detection, ineffective retrieval or unsuitable antibody conditions (general IHC practice); HPA reports High glandular staining in colon (HPA: tissue IHC). | Confirm section integrity and positive-control staining, then check retrieval, antibody dilution and detection steps using the IHC-validated antibody's instructions (general IHC practice). |
| Color is widespread but nuclear boundaries are indistinct. | Nonspecific binding or excess chromogenic background can obscure localization (general IHC practice); the expected tissue profile is nuclear (HPA: tissue IHC). | Inspect a no-primary control; review blocking, washes, antibody concentration and development time, then score only resolved cellular staining (general IHC practice). |
| Unexpected cells stain while expected nuclei remain blank. | Cross-reactivity or endogenous enzyme activity is possible (general IHC practice); HPA does not designate negative cell types (HPA: tissue IHC). | Compare a no-primary control and an established nuclear-positive tissue; evaluate the unexpected cells cautiously rather than assigning specificity from color alone (general IHC practice). |
| Cytoplasm stains more strongly than nuclei. | The usual IHC profile is nuclear (HPA: tissue IHC), although trimethylated XRCC6 can localize to cytoplasm (UniProt P12956: subcellular location). | Check nuclear staining in a positive control and background in a no-primary control before interpreting cytoplasmic signal; these controls cannot establish trimethylation (general IHC practice). |
| Two antibodies give different tissue patterns. | HPA assigns antibody-specific IHC status: Enhanced for HPA047549 and HPA062226, Supported for CAB004254 (HPA: antibodies). These ratings do not prove identical epitope recognition. | Compare nuclear localization and known-positive cell populations for each antibody; retain the antibody-specific result and investigate discordance with controls (HPA: tissue IHC; general IHC practice). |
| IF/ICC question: Where should XRCC6 signal appear? | HPA reports enhanced nucleoplasmic localization in ICC-IF (HPA: subcellular); UniProt also lists conditional cytoplasmic localization (UniProt P12956: subcellular location). | Expect predominantly nucleoplasmic signal when interpreting IF/ICC images (HPA: subcellular). Assess cytoplasmic signal cautiously; the tissue IHC pattern does not by itself validate an IF/ICC result. |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Enhanced — High 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 |
|---|---|---|---|---|
| Adrenal gland | Glandular cells | High | Protein (IHC) | HPA → |
| Appendix | Glandular cells | High | Protein (IHC) | HPA → |
| Breast | Glandular cells | High | Protein (IHC) | HPA → |
| Bronchus | Respiratory epithelial cells | High | Protein (IHC) | HPA → |
| Cerebellum | Cells in molecular layer | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: XRCC6 is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot XRCC6/Ku70 staining by checking retrieval, nuclear localisation and controls before interpreting changes in chromogenic IHC signal.
Five anti-XRCC6 antibodies have human paraffin-section IHC images (catalog IHC captions); four also have IF images from human tissue or cultured cells (catalog IF captions).
PB9520 is shown on human bladder cancer, M01732-4 on renal clear cell carcinoma, and M01732-3 on breast cancer paraffin sections (respective catalog IHC captions). PA1642 is shown on human placenta and M01732-1 on human tonsil paraffin sections (respective catalog IHC captions).
Which to pick: For tissue IHC, PB9520 has a human bladder cancer paraffin-section example with EDTA pH 8 retrieval and 2 μg/ml primary antibody (PB9520 IHC caption); its fixative is unreported (PB9520 IHC caption). For IF/ICC, M01732-4 is a mouse monoclonal with IF images from cultured cells and a human colon cancer paraffin section (M01732-4 catalog entry and IF captions). None of these SKUs has documented cross-species reactivity: all list human only (catalog reactivity fields).