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- Table of Contents
Plan EIF3A staining in paraffin sections around its broadly observed cytoplasmic pattern (HPA tissue IHC). Start with the catalog antibody at 2–5 μg/ml and score signal by cell type, noting that smooth muscle cells were not detected (datasheet A02339-3; 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 tissue sections (HPA tissue IHC) | |
| Staining pattern | Broad cytoplasmic staining across cell types (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet A02339-3) | |
| Positive control | Adrenal gland+4 more · see all | |
| Negative control | Smooth muscle |
| Fixation | Keep fixation consistent across sections (standard IHC practice; not target-specific) | |
| Caveat | Smooth muscle cells may show no staining (HPA tissue IHC) | |
| Regulation | Abundance regulation is unreported (UniProt) | |
| Isoform / epitope | 2 isoforms; epitope coverage is unknown (UniProt) |
The catalog antibody’s IHC-P protocol (datasheet A02339-3) is followed by four published EIF3A immunohistochemistry protocols (PMC8684683; PMC4999401; PMC12065328; PMC4005749).
| Sample | Paraffin-embedded human colorectal adenocarcinoma tissue; fixative not specified (datasheet A02339-3) |
| Fixation | Image fixative and duration unreported (datasheet A02339-3); 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 A02339-3); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A02339-3) |
| Primary antibody | Rabbit anti-EIF3A, 2-5 μg/ml (datasheet A02339-3) |
| Primary incubation | Overnight at 4 °C (datasheet A02339-3) |
| Detection | HRP-conjugated secondary, DAB chromogen (datasheet A02339-3) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | EIF3A-positive staining in glandular cells of adrenal gland (HPA tissue IHC: Medium). HPA tissue profile: Ubiquitous cytoplasmic expression. No signal in the no-primary control. |
EIF3A should show predominantly cytoplasmic staining in many cell types: HPA describes a ubiquitous cytoplasmic IHC pattern with Enhanced reliability and medium agreement with RNA data (HPA: tissue IHC). This fits its cytoplasmic location and lack of a transmembrane segment (UniProt Q14152: subcellular location and topology). Expect medium staining in several glandular and other listed cell populations, while intensity varies by tissue (HPA: tissue IHC).
| Cytoplasmic stain in appendix or breast glandular cells. | This matches the expected compartment and the medium staining reported in those cells (HPA: tissue IHC; UniProt Q14152: cytoplasm). Judge the cells against adjacent background and a counterstain before scoring intensity; a cytoplasmic tint alone is insufficient if the whole section is similarly colored (standard IHC practice). |
| Predominantly nuclear stain, with little cytoplasmic signal. | This is discordant with the tissue IHC profile and UniProt location (HPA: ubiquitous cytoplasmic expression; UniProt Q14152: cytoplasm). Check staining specificity and detection background before assigning a nuclear IHC pattern. HPA reports uncertain nucleoplasmic localization by ICC-IF, which does not establish nuclear staining as the expected paraffin IHC result (HPA: subcellular ICC-IF). |
| Strong stain in smooth muscle cells while listed positive cells are weak. | Smooth muscle cells are reported as not detected, so that reversal warrants scrutiny (HPA: tissue IHC). Possible explanations include nonspecific antibody binding or endogenous detection activity (standard IHC practice); the image alone cannot distinguish them. Compare the cell type, compartment and controls before calling the stain EIF3A. |
| Uniform haze across cells, stroma and empty areas. | A diffuse, cell-independent deposit is less convincing than a cytoplasmic cell pattern (HPA: tissue IHC; standard IHC interpretation). Consider incomplete blocking, excessive antibody or detection reagent, or inadequate washing as general workflow causes (standard IHC practice). Do not score the haze as EIF3A-positive cells. |
| No visible stain in appendix glandular cells or bone marrow hematopoietic cells. | Both are reported at medium intensity, so an entirely blank result should prompt a technical check before a biological conclusion (HPA: tissue IHC). Assess section quality, retrieval, antibody and detection steps with appropriate controls (standard IHC practice). HPA does not establish a target-specific fixation effect. |
| Compartment and topology | UniProt places EIF3A in the cytoplasm and lists no transmembrane segment (UniProt Q14152: subcellular location and topology). HPA describes ubiquitous cytoplasmic tissue staining (HPA: tissue IHC). Evaluate intracellular cytoplasmic distribution; a membrane-only pattern has no support from these sources. |
| Tissue context and validation | HPA lists medium stain in appendix glandular, bone marrow hematopoietic and cerebellar Purkinje cells, low stain in several other cells, and no detection in smooth muscle cells (HPA: tissue IHC). Its Enhanced IHC assessment reflects antibody-pattern support, while the tissue profile reports medium agreement with RNA data (HPA: tissue IHC; HPA: antibodies). |
| Antibody evidence | Both listed antibodies have Enhanced IHC validation; only HPA038316 has Supported ICC validation (HPA: antibodies). These ratings help select evidence for interpreting a pattern, but they do not specify a dilution, retrieval condition or guaranteed result for another IHC-validated antibody (HPA: antibodies). |
| Isoforms and epitope | UniProt lists 2 EIF3A isoforms and a chain spanning residues 2–1382 (UniProt Q14152: isoforms and processing). No antibody epitope is supplied here, so isoform recognition or an epitope-specific staining difference cannot be predicted from this record. |
| What should IF/ICC show? | HPA reports supported cytosolic and uncertain nucleoplasmic localization, with ICC-IF images in A-431, U-251MG and U2OS (HPA: subcellular ICC-IF). Treat the nucleoplasmic observation as uncertain; it does not override the cytoplasmic expectation for this paraffin IHC guide (HPA: tissue IHC; UniProt Q14152: cytoplasm). |
| Situation | Likely cause | Next action |
|---|---|---|
| A listed medium-staining tissue is blank. | The result conflicts with the reported cell pattern (HPA: tissue IHC); section, retrieval or detection failure is possible (standard IHC practice). | Check section preservation and the run's positive and detection controls, then review retrieval and the antibody's IHC instructions (standard IHC practice). Do not infer EIF3A-specific fixation sensitivity from this result. |
| The expected cytoplasmic stain is very weak. | Signal may be weak from general IHC workflow conditions; tissue intensity also varies, with some populations reported low (standard IHC practice; HPA: tissue IHC). | Confirm the sampled cell type and compare a listed medium-staining tissue in the same run (HPA: tissue IHC). Review antibody concentration, retrieval and detection using the applicable IHC instructions (standard IHC practice). |
| The whole section has a brown haze. | Cell-independent chromogen may reflect nonspecific binding, endogenous enzyme activity or incomplete washing (standard chromogenic IHC practice). | Inspect the appropriate negative and detection controls; review blocking, washing and detection conditions (standard IHC practice). Score only cell-associated cytoplasmic stain that remains distinguishable from background (HPA: tissue IHC; standard IHC interpretation). |
| Nuclei stain more strongly than cytoplasm. | This differs from the expected IHC compartment (HPA: tissue IHC; UniProt Q14152: cytoplasm). The uncertain ICC-IF nucleoplasmic observation does not explain a dominant nuclear paraffin IHC result (HPA: subcellular ICC-IF). | Compare antibody and detection controls, inspect counterstain and reassess cellular localization (standard IHC practice). Report the nuclear pattern as discordant unless independently supported. |
| Smooth muscle cells stain prominently. | HPA reports smooth muscle cells as not detected (HPA: tissue IHC). Nonspecific binding or endogenous detection activity is possible, but the stain alone cannot establish which (standard IHC practice). | Check the tissue cell identity, cytoplasmic distribution and detection controls; compare with a listed medium-staining population in the run (HPA: tissue IHC; standard IHC practice). |
| Staining differs between fields or sections. | Uneven reagent coverage or section handling can produce spatial differences (standard IHC practice); cell composition and reported tissue intensity also vary (HPA: tissue IHC). | Compare like cell types across fields, inspect section integrity and review staining uniformity (standard IHC practice). Base the interpretation on identifiable cells and controls, rather than assigning every field the same EIF3A score. |
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 |
|---|---|---|---|---|
| Adrenal gland | Glandular cells | Medium | Protein (IHC) | HPA → |
| Appendix | Glandular cells | Medium | Protein (IHC) | HPA → |
| Bone marrow | Hematopoietic cells | Medium | Protein (IHC) | HPA → |
| Breast | Glandular cells | Medium | Protein (IHC) | HPA → |
| Bronchus | Respiratory epithelial cells | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Smooth muscle | Smooth muscle cells | Not detected | Protein (IHC) | HPA → |
Troubleshoot EIF3A staining in paraffin sections by checking retrieval, cytoplasmic localisation, controls and scoring before interpreting differences between samples.
Anti-EIF3A antibodies have IHC images from paraffin-embedded human colorectal and esophageal cancers and mouse and rat brain (A02339-3 IHC captions); IF images cover human intestinal cancer (A02339-3 IF caption).
A02339-3 has IHC images of paraffin-embedded human colorectal adenocarcinoma, esophageal squamous carcinoma, mouse brain and rat brain, plus an IF image of paraffin-embedded human intestinal cancer (A02339-3 image captions). M02339 lists human, mouse and rat reactivity and IHC/ICC/IF applications; its IF captions report dilutions but do not identify samples (M02339 catalog; M02339 IF captions).
Which to pick: For tissue IHC, choose A02339-3: its paraffin-section captions document EDTA pH 8 retrieval and 2 μg/ml primary antibody; the fixative is unreported (A02339-3 IHC captions). For IF/ICC, consider M02339 when a rabbit monoclonal is preferred: ICC/IF is listed and IF figures are provided, though their samples are unidentified (M02339 catalog; M02339 IF captions). For cross-species IHC, A02339-3 has human, mouse and rat tissue images; M02339 lists reactivity with all three species but has no IHC image in the supplied catalog (A02339-3 IHC captions; M02339 catalog).