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- Table of Contents
Plan CBX5 IHC in paraffin sections around the nuclear staining seen in most tissues (HPA tissue IHC). The guide covers controls, antigen retrieval, chromogenic detection and interpretation of staining intensity.
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Nuclei in most tissues (HPA tissue IHC) | |
| Staining pattern | Nuclear staining in cells across most tissues (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet M02780-2) | |
| Positive control | Cerebellum+4 more · see all | |
| Negative control | Heart muscle+4 more · see all |
| Fixation | Keep formalin fixation consistent across sections. (standard IHC practice; not target-specific) | |
| Caveat | Staining and RNA show medium consistency (HPA tissue IHC) | |
| Regulation | Expression regulation not annotated (UniProt) | |
| Isoform / epitope | No annotated isoforms or processing variants (UniProt) |
The catalog antibody has an IHC-P protocol (datasheet: M02780-2). The following published protocols describe CBX5 staining of tissue microarrays, GBM samples, lung adenocarcinoma tissue, and osteosarcoma tissue (PMC13355934; PMC6658867; PMC3419921; PMC12450695).
| Sample | Paraffin-embedded rat brain tissue; fixative not specified (datasheet M02780-2) |
| Fixation | Image fixative and duration unreported (datasheet M02780-2); 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 M02780-2); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet M02780-2) |
| Primary antibody | Mouse monoclonal (clone 8G6) anti-CBX5, 2μg/ml (datasheet M02780-2) |
| Primary incubation | Overnight at 4 °C (datasheet M02780-2) |
| Detection | Streptavidin-biotin complex (SABC), DAB chromogen (datasheet M02780-2) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | CBX5-positive staining in cells in molecular layer of cerebellum (HPA tissue IHC: High). HPA tissue profile: Nuclear expression in most tissues. No signal in the no-primary control. |
CBX5 is a nuclear, chromatin-associated protein with centromeric and pericentromeric localization (UniProt P45973: subcellular location). In paraffin-section IHC, expect nuclear staining in many cell types, including neuronal cells of the cerebral cortex and placental cytotrophoblasts (HPA tissue IHC: High; nuclear expression in most tissues). HPA rates the tissue profile Enhanced, while noting medium consistency between antibody staining and RNA expression (HPA tissue IHC: reliability description).
| Distinct nuclear staining in cortical neuronal cells or placental cytotrophoblasts. | This matches reported High staining in those cells (HPA tissue IHC: cerebral cortex; placenta). Score the relevant cell nuclei, rather than treating every cell in the section as an equivalent positive control (general IHC practice). |
| Predominantly cytoplasmic or membranous staining with little nuclear signal. | Treat this as a localization mismatch requiring investigation: CBX5 is nuclear and chromatin-associated, and has no transmembrane segment (UniProt P45973: subcellular location; topology). The pattern alone cannot identify the artefact's cause. |
| Strong staining in cardiomyocytes, cholangiocytes, or skeletal myocytes. | These cells were Not detected in the HPA tissue profile (HPA tissue IHC: heart muscle; liver; skeletal muscle). Check possible cross-reactivity or endogenous detection activity before interpreting the staining as CBX5; an HPA negative is an observed reference pattern, not proof that expression is impossible. |
| Diffuse colour across nuclei, cytoplasm, and tissue spaces. | A diffuse deposit does not provide the nuclear contrast expected for CBX5 (UniProt P45973: subcellular location; HPA tissue IHC: nuclear expression). Assess background against a section processed without primary antibody (general IHC practice). |
| No nuclear staining in a reported High cell population. | This conflicts with the HPA reference pattern for, for example, cortical neuronal cells or parathyroid glandular cells (HPA tissue IHC: High). First assess the run's controls and tissue integrity; one blank section cannot establish that CBX5 is absent (general IHC practice). |
| Cell population selected for assessment | HPA reports High staining in several specific populations, including cerebellar molecular-layer cells and gallbladder glandular cells, but Not detected in cardiomyocytes (HPA tissue IHC). Compare the same cell population when judging controls. |
| Antibody validation for IHC | CAB017548 has an Enhanced IHC validation entry; HPA016699 has no IHC validation entry in the supplied antibody record (HPA antibodies). An ICC Supported entry should not be treated as IHC validation (HPA antibodies). |
| Compartment and protein architecture | CBX5 occupies the nucleus and chromatin, including centromeric heterochromatin (UniProt P45973: subcellular location). Its sequence has no transmembrane segment or signal peptide (UniProt P45973: topology; processing), supporting a nuclear interpretation. |
| Fixation sensitivity | Target-specific effects of fixation or antigen retrieval on CBX5 staining are unreported in the supplied UniProt and HPA records. Select and assess retrieval conditions as a general paraffin-IHC workflow decision, without inferring sensitivity from HPA staining levels. |
| Situation | Likely cause | Next action |
|---|---|---|
| No signal in a reported High population. | The result conflicts with the HPA reference pattern; the section alone does not distinguish technical failure from specimen variation (HPA tissue IHC: High populations). | Review a positive control in the same run, confirm that the primary antibody is IHC-validated, and check retrieval and detection steps (HPA antibodies: CAB017548 IHC Enhanced; general IHC practice). |
| Predominantly cytoplasmic or membranous colour. | The compartment conflicts with nuclear CBX5 localization (UniProt P45973: subcellular location). Nonspecific staining or detection background is possible (general IHC practice). | Compare the suspect signal with a no-primary control, then assess whether the nuclear pattern is reproducible with the IHC-validated antibody (HPA antibodies: CAB017548 IHC Enhanced; general IHC practice). |
| Strong signal in a reported Not detected cell type. | Cross-reactivity or endogenous detection activity may explain staining that conflicts with the HPA observation (HPA tissue IHC: cardiomyocytes, cholangiocytes, skeletal myocytes Not detected). | Examine a no-primary control for detection background and compare staining in a reported High population before assigning the signal to CBX5 (HPA tissue IHC; general IHC practice). |
| Diffuse staining obscures individual nuclei. | Background can prevent assessment of the expected nuclear pattern (UniProt P45973: subcellular location; general IHC practice). Its source cannot be determined from appearance alone. | Check the no-primary control and review blocking, washes, primary-antibody concentration, and detection conditions as general IHC variables; reassess only where nuclei remain distinguishable (general IHC practice). |
| A reported negative cell population is blank. | This can agree with the HPA reference: cardiomyocytes and smooth muscle cells are Not detected (HPA tissue IHC). A blank negative population does not show that the staining run worked. | Use a reported High cell population and the run controls to assess assay performance; record the specific cell type scored (HPA tissue IHC: High and Not detected populations; general IHC practice). |
| IF/ICC: where should CBX5 fluorescence appear? | HPA reports an enhanced nucleoplasmic location in ICC-IF images, consistent with UniProt nuclear localization (HPA subcellular ICC-IF; UniProt P45973: subcellular location). | Interpret fluorescence against a nuclear counterstain and appropriate background control (general IF practice). Use the separate IF/ICC guide for experimental conditions; HPA's ICC Supported status is distinct from IHC validation (HPA antibodies). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Enhanced — 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 |
|---|---|---|---|---|
| Cerebellum | Cells in molecular layer | High | Protein (IHC) | HPA → |
| Cerebral cortex | Neuronal cells | High | Protein (IHC) | HPA → |
| Gallbladder | Glandular cells | High | Protein (IHC) | HPA → |
| Hippocampus | Glial cells | High | Protein (IHC) | HPA → |
| Parathyroid gland | Glandular cells | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Heart muscle | Cardiomyocytes | Not detected | Protein (IHC) | HPA → |
| Liver | Cholangiocytes | Not detected | Protein (IHC) | HPA → |
| Skeletal muscle | Myocytes | Not detected | Protein (IHC) | HPA → |
| Smooth muscle | Smooth muscle cells | Not detected | Protein (IHC) | HPA → |
| Soft tissue | Chondrocytes | Not detected | Protein (IHC) | HPA → |
Troubleshoot chromogenic CBX5 IHC by checking retrieval, nuclear localisation, staining controls and scoring before interpreting tissue differences.
Anti-CBX5 antibodies have IHC images from human, mouse and rat paraffin sections, and IF/ICC images from human HeLa and A549 cells (catalog image captions).
M02780-2 has IHC images from rat brain and three human tumors; A02780-3 has IHC images from human lung and mammary cancers and mouse intestine (catalog IHC captions). M02780 has IHC images from mouse and rat brain; M02780-3 has IHC images from rat and mouse pancreas and human breast carcinoma (catalog IHC captions).
Which to pick: For tissue IHC, start with A02780-3: its caption documents staining of paraffin sections of human lung cancer at 1 μg/ml after EDTA pH 8.0 retrieval; the fixative is unreported (A02780-3 IHC caption). For IF/ICC, M02780-2 is a mouse monoclonal with a documented A549 cell IF image (M02780-2 catalog and IF caption). For work spanning human, mouse and rat tissue, consider the rabbit monoclonal M02780-3: its IHC captions show human breast carcinoma and mouse and rat pancreas, though they do not report fixation or processing conditions (M02780-3 catalog and IHC captions).