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- Table of Contents
Plan chromogenic RXRA IHC around widespread nuclear tissue staining (HPA tissue IHC). This guide covers fixation consistency and nuclear scoring (standard IHC practice), using the IHC-validated antibody at 0.5–1 μg/mL (datasheet A01299-1).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Nuclear staining in tissue IHC (HPA tissue IHC) | |
| Staining pattern | Widespread nuclear staining across tissue cell types (HPA tissue IHC) | |
| Antigen retrieval | Citrate pH 6 HIER, heat-mediated (datasheet A01299-1) | |
| 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 consistent across sections (standard IHC practice; not target-specific); Matched tissue-IHC evidence does not establish the fixation claim. Validate the specimen-specific method before use. (selected-SKU IHC image A01299-1) | |
| Caveat | NR4A1 interaction can redirect RXRA to mitochondria (UniProt) | |
| Regulation | Vitamin D3 enhances nuclear localisation (UniProt) | |
| Isoform / epitope | Two isoforms; antibody epitope and isoform coverage unspecified (UniProt; datasheet A01299-1) |
Compare the catalog antibody’s citrate pH 6 retrieval protocol (datasheet A01299-1) with two published human tissue IHC protocols (PMC12995935; PMC13513811).
| Sample | Paraffin-embedded mouse liver tissue; fixative not specified (datasheet A01299-1) |
| Fixation | Image fixative and duration unreported (datasheet A01299-1); verify before use. |
| Sectioning | 4–5 µm sections on charged slides (standard) |
| Deparaffinisation | Xylene, graded ethanol series to water (standard) |
| Antigen retrieval | Heat retrieval: Citrate pH 6, 20 min (datasheet A01299-1) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A01299-1) |
| Primary antibody | Rabbit anti-RXRA, 0.5-1μg/ml (datasheet A01299-1) |
| Primary incubation | Overnight at 4 °C (datasheet A01299-1) |
| Detection | Streptavidin-biotin complex (SABC), DAB chromogen (datasheet A01299-1) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | RXRA-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. |
In paraffin-section IHC, expect predominantly nuclear RXRA staining across many cell types (HPA: ubiquitous nuclear expression; reliability Supported, with medium antibody–RNA consistency and external verification pending). High staining has been observed in glandular, hematopoietic, respiratory epithelial and glial cells, among others (HPA: tissue IHC). RXRA has no transmembrane segment, although cytoplasmic and mitochondrial localization is also reported (UniProt P19793: topology and subcellular location).
| Clear nuclear chromogen in the expected cells, with interpretable counterstained nuclei. | This fits the principal tissue pattern (HPA: ubiquitous nuclear expression). Stronger staining is plausible in the listed High groups, including adrenal glandular cells and bone-marrow hematopoietic cells (HPA: tissue IHC). Score the cell type and nuclear fraction; intensity alone does not establish specificity. |
| Predominantly cytoplasmic staining with little or no nuclear staining. | This departs from the principal tissue-IHC pattern (HPA: ubiquitous nuclear expression). RXRA can also occur in cytoplasm or mitochondria (UniProt P19793: subcellular location), so compartment alone cannot prove artefact. Review the nuclear counterstain and controls before calling the signal RXRA. |
| Signal concentrates in an unexpected cell population while the expected nuclei are unstained. | Consider antibody cross-reactivity or endogenous detection activity. The comparison is contextual: HPA reports broad nuclear expression and lists no negative tissue here (HPA: tissue IHC). An unlisted cell type is therefore not automatically RXRA-negative; check morphology and detection controls. |
| Brown haze covers nuclei, cytoplasm and extracellular spaces without crisp cell boundaries. | Treat this as background until controls and morphology support a cellular pattern. It does not resemble the principal nuclear profile (HPA: tissue IHC). Uneven blocking, residual detection activity or excess chromogen are general IHC possibilities, not documented RXRA-specific effects. |
| No nuclear signal appears in a section containing a listed High population. | Check the run before inferring absent RXRA. Examples include bronchial respiratory epithelial cells and caudate glial cells (HPA: High in those cell types). A single blank section cannot resolve failed staining from biological variation; HPA rates the tissue profile Supported, with external verification pending. |
| Cell context and localization | The nuclear fraction can vary: vitamin D3, VDR interaction and pulsatile shear stress have been linked to increased nuclear localization, while NR4A1 interaction can drive mitochondrial translocation (UniProt P19793: subcellular location). These observations do not predict the result in every paraffin tissue. |
| Choice of comparison tissue | Use a listed High population as a practical positive comparator, such as adrenal glandular or bronchial respiratory epithelial cells (HPA: tissue IHC). HPA also describes ubiquitous nuclear expression and provides no negative tissue in this payload, so avoid treating another tissue as a proven negative. |
| Antibody evidence | CAB004565 and CAB005352 each have Supported IHC status (HPA: antibodies). The tissue profile has medium antibody–RNA consistency and awaits external verification (HPA: reliability). Concordant cell morphology and controls still matter when interpreting either antibody. |
| Isoforms and epitope | Two isoforms and multiple modified residues are recorded (UniProt P19793: isoforms and modifications). No antibody epitope is supplied, so their effects on either antibody’s staining cannot be predicted. RXRA has no signal peptide or propeptide listed (UniProt P19793: processing). |
| IF/ICC Q&A | What should an IF/ICC signal look like? Mainly nucleoplasmic, with additional Golgi localization in the HPA cell images; A-431 and U2OS images are listed (HPA: subcellular ICC-IF). This is cell-based evidence, separate from the paraffin-section IHC pattern. |
| Situation | Likely cause | Next action |
|---|---|---|
| A listed High population is blank. | The run or antibody may have failed, or the sampled cells may differ; the slide alone cannot distinguish these. | Check section identity, nuclear morphology, detection controls and the antibody’s IHC-P instructions. Reassess against a listed High population (HPA: tissue IHC). Do not infer RXRA absence from one blank field. |
| Nuclear staining is faint or patchy. | Biological variation or uneven staining may contribute; no RXRA-specific fixation sensitivity is reported in these sources. | Compare like cell types across the section and a positive comparator (HPA: tissue IHC). Check general IHC retrieval and detection steps against the antibody instructions without assuming a target-specific fixation effect. |
| Diffuse brown background obscures nuclei. | Residual endogenous detection activity, incomplete blocking or excess chromogen are general IHC possibilities. | Inspect reagent and no-primary controls; review blocking, washing and development under the detection system’s instructions. Only score signal with clear cellular boundaries and a readable counterstain. |
| Cytoplasmic color dominates the field. | It may reflect background or context-dependent RXRA localization; cytoplasm and mitochondrion are reported locations (UniProt P19793: subcellular location). | Check whether convincing nuclei remain in expected cells (HPA: ubiquitous nuclear expression). Compare control sections and avoid calling cytoplasmic color alone a standard positive IHC pattern. |
| Only unexpected cells or acellular material stain. | Cross-reactivity or endogenous detection activity is possible; an unlisted cell type is not a validated negative (HPA: ubiquitous nuclear expression). | Confirm cell identity by morphology, inspect no-primary controls and compare a listed High population (HPA: tissue IHC). Treat extracellular deposits as background unless separately validated. |
| Two antibodies give different cellular patterns. | Each has Supported IHC status, but the overall tissue profile has only medium antibody–RNA consistency (HPA: antibodies and reliability). | Compare matched sections, controls and the same cell populations before interpretation. Record the disagreement; neither result alone establishes a new RXRA tissue pattern. |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Supported — Medium 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 |
|---|---|---|---|---|
| Adrenal gland | Glandular cells | High | Protein (IHC) | HPA → |
| Appendix | Glandular cells | High | Protein (IHC) | HPA → |
| Bone marrow | Hematopoietic cells | High | Protein (IHC) | HPA → |
| Breast | Adipocytes | High | Protein (IHC) | HPA → |
| Bronchus | Respiratory epithelial cells | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: RXRA is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot RXRA staining in paraffin sections by checking retrieval, nuclear localisation, antibody specificity and scoring controls.
A01299-1 has IHC images of paraffin sections from mouse and rat liver and human liver and liver cancer tissue, plus an IF image of A431 cells (catalog image captions).
A01299-1 is the only SKU that will render as an IHC card; its IHC captions document paraffin sections from mouse and rat liver and human liver and liver cancer tissue (catalog IHC image captions). Its IF caption documents A431 cells, and the catalog lists human, mouse and rat reactivity (catalog IF image caption; catalog reactivity).
Which to pick: Choose A01299-1 for tissue IHC: its own captions document paraffin sections across human, mouse and rat; the fixative is unreported (A01299-1 IHC image captions). For IF/ICC, A01299-1 has an A431 IF image, while rabbit monoclonal M01299-2, clone 20R23, lists ICC/IF without an IF image in the payload (A01299-1 IF image caption; M01299-2 catalog clone and applications). For cross-species IHC, A01299-1 has images across all three listed species; M01299-2 lists the same reactivity but does not list IHC as an application (A01299-1 IHC image captions and catalog reactivity; M01299-2 catalog reactivity and applications).