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- Table of Contents
Plan paraffin-section PIP4K2A IHC around the general nuclear pattern, with high staining reported in brain glial cells (HPA tissue IHC). The catalog antibody has a documented human brain IHC-P example at 1:25 with DAB detection (datasheet: A04244-1).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | General nuclear tissue staining (HPA tissue IHC) | |
| Staining pattern | General nuclear staining across tissues (HPA tissue IHC) | |
| Antigen retrieval | Tris-EDTA pH 9.0 HIER, 95–98 °C, 20 min (rule: nuclear antigen) | |
| 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 (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 A04244) | |
| Caveat | Staining has medium consistency with RNA expression (HPA tissue IHC) | |
| Regulation | Brain-enhanced RNA expression (HPA tissue RNA) | |
| Isoform / epitope | 2 isoforms; check epitope coverage for each (UniProt) |
The catalog antibody protocol is followed by published PIP4K2A IHC conditions for cutaneous melanoma and glioma (PMC11585527; PMC6504209).
| Sample | Paraffin-embedded rat kidney tissue; fixative not specified (datasheet A04244) |
| Fixation | Image fixative and duration unreported (datasheet A04244); 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-PIP4K2A, 1:50-1:200 (datasheet A04244) |
| 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 | PIP4K2A-positive staining in glandular cells of adrenal gland (HPA tissue IHC: High). HPA tissue profile: General nuclear expression. No signal in the no-primary control. |
PIP4K2A has no transmembrane segment and is reported in the nucleus, cytoplasm, lysosome and at the cell membrane (UniProt P48426 topology and subcellular location). In paraffin-section IHC, expect predominantly nuclear staining in appropriate tissue cells (HPA: general nuclear expression). HPA rates the tissue IHC pattern “Supported,” with medium consistency between antibody staining and RNA expression (HPA: tissue IHC reliability).
| Clear nuclear stain in adrenal or appendix glandular cells, bronchial respiratory epithelium, or marrow hematopoietic cells (HPA: High in each listed cell type). | This fits the reported general nuclear IHC pattern (HPA: tissue IHC). Score the relevant cells and their nuclear intensity; visible stain in other compartments does not automatically invalidate the slide because UniProt also reports cytoplasmic and membrane locations (UniProt P48426 subcellular location). |
| Strong stain restricted to extracellular material or glandular lumina, with nuclei of expected positive cells unstained. | That distribution conflicts with the reported nuclear IHC pattern and intracellular locations (HPA: general nuclear expression; UniProt P48426 subcellular location). Treat it as a possible artefact until a known-positive section and detection controls support a specific signal (general IHC practice). |
| Strong adipocyte staining in breast or adipose tissue, especially when expected positive cell populations show little signal (HPA: Low in adipocytes). | This is discordant with HPA’s low adipocyte staining, but “Low” does not mean absent (HPA: breast and adipose tissue). Consider cross-reactivity or endogenous detection activity; compare the cell pattern with a no-primary control before assigning a cause (general IHC practice). |
| Uniform haze across cells, connective tissue and empty spaces obscures nuclear boundaries. | The pattern cannot be scored as the reported general nuclear expression (HPA: tissue IHC). It suggests nonspecific staining or detection background; a no-primary control helps distinguish detection background from staining associated with the primary antibody (general IHC practice). |
| No visible signal in a section containing adrenal glandular cells or marrow hematopoietic cells (HPA: High in those cell types). | This is an unexpected result for the selected positive tissue, although HPA reports only medium consistency between staining and RNA data (HPA: tissue IHC reliability). Check section quality and the IHC staining workflow before interpreting an experimental sample as PIP4K2A negative (general IHC practice). |
| Which tissue and cells provide a positive comparison? | HPA reports High IHC staining in adrenal and appendix glandular cells, bronchial respiratory epithelial cells, marrow hematopoietic cells, and several glial populations (HPA: tissue IHC). Identify the expected cell population on the section before scoring, rather than treating every cell in a positive tissue as positive (general IHC practice). |
| What can the compartment tell you? | HPA describes a general nuclear tissue IHC pattern, while UniProt also lists cytoplasm, lysosome and cell membrane (HPA: tissue IHC; UniProt P48426 subcellular location). Predominant nuclear stain supports the tissue-IHC expectation; additional cellular stain needs context rather than automatic rejection. |
| How strong is the validation evidence? | The tissue IHC profile is “Supported,” with medium staining–RNA consistency; the listed IHC antibody HPA068771 is also “Supported” (HPA: tissue IHC reliability; HPA: antibody validation). These ratings support using the reported pattern as a comparison, while leaving room to investigate discordant sections. |
| Does topology imply a cell-surface-only pattern? | No transmembrane segment is annotated, and UniProt reports both intracellular and cell-membrane locations (UniProt P48426 topology and subcellular location). A surface-only chromogenic pattern would need independent validation before it replaces the reported nuclear tissue-IHC expectation (HPA: general nuclear expression). |
| Why might IF/ICC look different from tissue IHC? | HPA’s ICC-IF data place PIP4K2A mainly at the Golgi apparatus, with additional plasma-membrane and cytosolic signal; its tissue IHC profile is generally nuclear (HPA: subcellular ICC-IF; HPA: tissue IHC). Compare results within each assay’s evidence rather than requiring identical compartment patterns. |
| Situation | Likely cause | Next action |
|---|---|---|
| Known-positive tissue has no nuclear stain (HPA: High in adrenal glandular or marrow hematopoietic cells). | The tissue result may reflect an unsuccessful IHC run or an unsuitable section; the supplied sources do not establish a PIP4K2A-specific fixation effect (general IHC practice; HPA: tissue IHC). | Confirm the expected cells are present, review section and counterstain quality, and check retrieval, primary-antibody application and detection against the validated IHC workflow (general IHC practice). |
| Brown chromogen appears broadly, including where no cells are present. | Detection background or nonspecific staining can obscure the expected nuclear pattern (general IHC practice; HPA: general nuclear expression). | Run a no-primary control; if it also stains, check blocking and detection steps, including endogenous enzyme blocking when enzyme-based detection is used (general IHC practice). |
| The expected cells stain, but nuclei cannot be distinguished from surrounding cytoplasm. | Overdeveloped chromogen or diffuse background may prevent compartment scoring; cytoplasmic PIP4K2A is also reported (general IHC practice; UniProt P48426 subcellular location). | Review chromogen development, dilution and counterstain using the validated IHC workflow; compare with a no-primary control before calling the pattern nuclear or cytoplasmic (general IHC practice). |
| Only luminal or extracellular material stains while expected positive nuclei remain clear. | This distribution conflicts with HPA’s general nuclear tissue pattern and UniProt’s listed cellular locations (HPA: tissue IHC; UniProt P48426 subcellular location). | Inspect morphology and compare a known-positive section plus a no-primary control before interpreting the luminal stain as PIP4K2A (general IHC practice). |
| Adipocytes stain as strongly as nearby expected positive cells (HPA: Low in breast and adipose adipocytes). | The intensity is discordant with HPA’s low adipocyte observation; cross-reactivity or detection background remains possible (HPA: tissue IHC; general IHC practice). | Compare matched no-primary and positive-tissue sections, then report adipocyte staining as uncertain if specificity remains unresolved (general IHC practice). |
| ICC-IF shows Golgi signal, but the paraffin-section IHC result is predominantly nuclear. | Those are the respective HPA assay observations; the supplied evidence does not establish that one pattern should replace the other (HPA: subcellular ICC-IF; HPA: tissue IHC). | Interpret the paraffin section against the nuclear tissue-IHC profile and its “Supported” reliability; use the ICC-IF localization as assay-specific context (HPA: tissue IHC reliability; HPA: subcellular ICC-IF). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Supported — 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 |
|---|---|---|---|---|
| Adrenal gland | Glandular cells | High | Protein (IHC) | HPA → |
| Appendix | Glandular cells | High | Protein (IHC) | HPA → |
| Bone marrow | Hematopoietic cells | High | Protein (IHC) | HPA → |
| Bronchus | Respiratory epithelial cells | High | Protein (IHC) | HPA → |
| Caudate | Glial cells | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: PIP4K2A is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot PIP4K2A chromogenic IHC in paraffin sections by checking retrieval, compartment patterns, controls and scoring before interpreting staining.
Anti-PIP4K2A antibodies A04244 and A04244-1 have IHC images from paraffin sections and IF images from cells (catalog image captions). Listed reactivity spans human, mouse and rat (catalog application and reactivity lists).
A04244 has IHC images from paraffin-embedded rat kidney and mouse lung and an IF image from A549 cells (A04244 image captions). A04244-1 has an IHC image from a paraffin-embedded human brain section and an IF image from HeLa cells (A04244-1 image captions).
Which to pick: For paraffin-section IHC, choose A04244 for rat kidney or mouse lung examples, or A04244-1 for a human brain example; both IHC captions leave the fixative unreported (A04244 and A04244-1 IHC image captions). For IF/ICC, A04244 lists both IF and ICC and shows IF in A549 cells, while A04244-1 lists IF and shows IF in HeLa cells (catalog application lists; A04244 and A04244-1 IF image captions). For cross-species work, A04244 lists human, mouse and rat reactivity, while A04244-1 lists human only (catalog reactivity lists).