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- Table of Contents
Plan ALDH1A1 paraffin IHC around cytoplasmic staining in selected tissues (HPA tissue IHC). The guide covers a catalog antibody's IHC dilution of 0.5–1 μg/ml (datasheet A01392) and tissue controls based on reported staining (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Cytoplasmic staining in selected tissues (HPA tissue IHC) | |
| Staining pattern | Cytoplasmic signal in selected cells, including glandular cells (HPA tissue IHC) | |
| Antigen retrieval | Citrate pH 6 HIER, heat-mediated (datasheet A01392) | |
| Positive control | Epididymis+4 more · see all | |
| Negative control | Adrenal gland+4 more · see all |
| Fixation | Keep fixation consistent across paraffin sections. (standard IHC practice; not target-specific) | |
| Caveat | Antibody staining and RNA show medium consistency (HPA tissue IHC) | |
| Regulation | Regulation is not specified (UniProt) | |
| Isoform / epitope | 0 annotated isoforms; mature chain spans 2–501 (UniProt) |
The catalog antibody protocol is paired with published ALDH1A1 IHC methods for pancreatic cancer (PMC3135572) and colorectal tumors and liver metastases (PMC6181398).
| Sample | Paraffin-embedded human renal cancer tissues; fixative not specified (datasheet A01392) |
| Fixation | Image fixative and duration unreported (datasheet A01392); 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 A01392) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A01392) |
| Primary antibody | Rabbit anti-ALDH1A1, 0.5-1μg/ml (datasheet A01392) |
| Primary incubation | Overnight at 4 °C (datasheet A01392) |
| Detection | Streptavidin-biotin complex (SABC), DAB chromogen (datasheet A01392) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | ALDH1A1-positive staining in glandular cells of epididymis (HPA tissue IHC: High). HPA tissue profile: Cytoplasmic expression in selected tissues. No signal in the no-primary control. |
ALDH1A1 is a cytosolic protein with no transmembrane segment (UniProt P00352: subcellular location and topology). In paraffin section IHC, expect cytoplasmic staining in selected cells, especially epididymal and stomach glandular cells, with lower staining in several other listed tissues (HPA: tissue IHC). HPA rates the tissue profile Enhanced, while reporting medium consistency between antibody staining and RNA expression (HPA: tissue IHC reliability).
| Strong cytoplasmic staining in epididymal or stomach glandular cells, with cell boundaries still discernible. | This fits the reported High protein staining in those cell types and the cytosolic location (HPA: tissue IHC; HPA: subcellular ICC-IF). Judge intensity against controls processed in the same IHC run (general IHC practice). |
| Predominantly nuclear, membrane outlined, or extracellular staining, especially without cytoplasmic signal. | These compartments conflict with the reported cytosolic location and lack of a transmembrane segment (HPA: subcellular ICC-IF; UniProt P00352: topology). Consider nonspecific staining or a detection artefact; compartment alone cannot identify its cause (general IHC practice). |
| Prominent staining in a cell type reported as Not detected, such as adrenal glandular cells. | That result disagrees with the reference cell type, although HPA's category is an observation, not a guarantee for every specimen (HPA: adrenal gland IHC). Check for cross-reactivity or endogenous chromogenic activity using appropriate assay controls (general IHC practice). |
| Uniform colour across cells and surrounding tissue, obscuring cell boundaries. | A nonselective deposit is difficult to reconcile with HPA's cytoplasmic expression in selected tissues (HPA: tissue IHC profile). Review blocking, washes and chromogen controls before assigning any of that colour to ALDH1A1 (general IHC practice). |
| No cytoplasmic signal in an epididymis or stomach section expected to be positive. | HPA reports High staining in the glandular cells of both tissues (HPA: epididymis and stomach IHC). First confirm that the relevant cells are present, then check assay controls and detection steps; a negative slide alone cannot establish absent protein (general IHC practice). |
| Reference tissue and cell type | HPA reports High staining in epididymis and stomach glandular cells, but Medium staining in hepatocytes and several other listed cells (HPA: tissue IHC). Compare like cell types; liver's enhanced RNA specificity does not imply the strongest protein IHC signal (HPA: tissue IHC and RNA specificity). |
| Intracellular location and topology | Cytosol is the main location in ICC-IF, and UniProt lists cytosol and axon with no transmembrane segment (HPA: subcellular ICC-IF; UniProt P00352: location and topology). Interpret membrane outlined IHC staining cautiously. |
| Antibody validation | HPA lists Enhanced IHC validation for HPA002123 and CAB020690; Enhanced means the pattern is reproduced by independent antibodies or orthogonal data (HPA: antibody validation). This supports the reference pattern, but a new run still needs appropriate controls (general IHC practice). |
| IF/ICC: what pattern should I expect? | Expect cytosolic fluorescence: HPA's ICC-IF summary says cytosol and lists HPA002123 as Supported for ICC (HPA: subcellular ICC-IF; HPA: antibody validation). This answers localisation only; the IF/ICC guide handles its assay procedure. |
| Protein processing and modifications | UniProt reports no signal peptide or propeptide and lists a chain spanning residues 2–501, plus modified residues (UniProt P00352: processing and modifications). These annotations provide no target-specific prediction of antigen retrieval or fixation sensitivity. |
| Situation | Likely cause | Next action |
|---|---|---|
| The positive reference section is blank. | The expected glandular cells may be absent from the section, or an IHC reagent or detection step may have failed (HPA: High in epididymis and stomach glandular cells; general IHC practice). | Confirm the relevant cells on the counterstained section, then review the run's positive control and primary antibody and detection steps (general IHC practice). |
| Signal appears mainly nuclear or at cell borders. | The distribution conflicts with ALDH1A1's cytosolic assignment and lack of a transmembrane segment (HPA: subcellular ICC-IF; UniProt P00352: topology). | Compare with a cytoplasmic positive reference and a primary antibody omission control; reassess specificity before scoring it as ALDH1A1 (general IHC practice). |
| A reported negative cell type stains strongly. | Cross-reactivity or endogenous detection activity is possible; HPA reports Not detected for adrenal glandular cells, among other specified cell types (HPA: tissue IHC; general IHC practice). | Check cell identity and compare primary antibody omission and detection controls; report the discrepancy rather than treating the HPA category as an absolute rule (general IHC practice). |
| Brown deposit or diffuse colour obscures the cells. | Background from chromogenic detection or insufficient blocking or washing can obscure selective cytoplasmic staining (general IHC practice; HPA: tissue IHC profile). | Inspect a primary antibody omission control, check the relevant endogenous enzyme block, and review wash and chromogen development steps (general IHC practice). |
| Liver staining is weaker than stomach staining. | This can match the reference: hepatocytes are Medium and stomach glandular cells are High by IHC (HPA: tissue IHC). | Score the observed cells against their tissue specific reference level and same run controls, rather than expecting equal intensity (HPA: tissue IHC; general IHC practice). |
| ICC-IF fluorescence seems widespread despite a plausible positive signal. | HPA places ALDH1A1 in the cytosol, so fluorescence outside cell boundaries or in an unrelated compartment needs evaluation (HPA: subcellular ICC-IF). | Check the cellular outline and compare secondary only and background controls before assigning a cytosolic pattern; use the separate IF/ICC guide for procedure (general IF practice). |
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 |
|---|---|---|---|---|
| Epididymis | Glandular cells | High | Protein (IHC) | HPA → |
| Stomach | Glandular cells | High | Protein (IHC) | HPA → |
| Adipose tissue | Adipocytes | Medium | Protein (IHC) | HPA → |
| Bronchus | Respiratory epithelial cells | Medium | Protein (IHC) | HPA → |
| Gallbladder | Glandular cells | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Adrenal gland | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Breast | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Cerebral cortex | Endothelial cells | Not detected | Protein (IHC) | HPA → |
| Cervix | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Colon | Endothelial cells | Not detected | Protein (IHC) | HPA → |
Troubleshoot ALDH1A1 staining in paraffin sections by checking retrieval, cytoplasmic localisation, detection background, and cell-specific scoring (datasheet A01392; HPA tissue IHC).
The catalog shows ALDH1A1 IHC images from human and mouse tissues and IF/ICC images from A431 and A549 cells (catalog IHC and IF image captions).
A01392 shows IHC in paraffin sections of human renal cancer and IF/ICC in A431 and A549 cells (A01392 image captions); M01392-2 shows IHC in paraffin sections of human gall bladder adenosquamous carcinoma and IF/ICC in A549 cells (M01392-2 image captions); PA1671 shows IHC in paraffin sections of human lung cancer and IF/ICC in A549 cells (PA1671 image captions). M01392-3 shows IHC in mouse, rat, and human lung (M01392-3 IHC captions), while M01392-1 shows IHC in a paraffin section of human liver cancer (M01392-1 IHC caption).
Which to pick: For paraffin-section tissue IHC, A01392 has human renal cancer and mouse stomach images, with citrate retrieval at pH 6 for 20 minutes and primary antibody at 1 μg/mL overnight at 4°C (A01392 IHC captions); its fixative is unreported (A01392 IHC captions). For human IF/ICC, A01392 has A431 and A549 images at 2 μg/mL (A01392 IF captions), while M01392-2 offers mouse monoclonal clone 4C3 with an A549 image at 5 μg/mL (catalog clone; M01392-2 IF caption). For cross-species tissue IHC, M01392-3 has mouse, rat, and human lung images and a listed 1:500–1:2000 IHC range; its image captions do not report the fixative or retrieval conditions (M01392-3 IHC captions; catalog IHC dilution).