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- Table of Contents
Plan chromogenic FTO IHC on paraffin sections using nuclear staining as the tissue reference (HPA tissue IHC). Start with the IHC-validated antibody at 2–5 μg/mL (datasheet A00219-3), and compare high staining in adrenal glandular cells with low staining in hepatocytes (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Predominantly nuclear in tissue sections (HPA tissue IHC) | |
| Staining pattern | General nuclear staining (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet A00219-3) | |
| 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 conditions consistent across sections. (standard IHC practice; not target-specific) | |
| Caveat | Staining and RNA show medium consistency (HPA tissue IHC) | |
| Regulation | Elevated in select AML genotypes (UniProt) | |
| Isoform / epitope | 4 isoforms; verify epitope coverage (UniProt) |
The catalog antibody’s IHC-P protocol is accompanied by FTO IHC methods from three published articles (PMC9107638; PMC9792536; PMC12078176).
| Sample | Paraffin-embedded human colon cancer tissue; fixative not specified (datasheet A00219-3) |
| Fixation | Image fixative and duration unreported (datasheet A00219-3); 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 A00219-3); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A00219-3) |
| Primary antibody | Rabbit anti-FTO, 2-5μg/ml (datasheet A00219-3) |
| Primary incubation | Overnight at 4 °C (datasheet A00219-3) |
| Detection | Streptavidin-biotin complex (SABC), DAB chromogen (datasheet A00219-3) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | FTO-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. |
FTO shows general nuclear staining in tissue IHC, with high staining in adrenal glandular cells, cerebellar granular-layer cells, and duodenal Paneth cells (HPA: tissue IHC). UniProt places FTO mainly in the nucleus, with additional cytoplasmic localization; it has no transmembrane segment (UniProt Q9C0B1: localization and topology). HPA rates the tissue IHC profile Enhanced, while reporting medium consistency between antibody staining and RNA expression (HPA: tissue IHC).
| Nuclear staining in glandular cells of adrenal gland or Paneth cells of duodenum (HPA: High in both). | This fits the reported tissue IHC pattern and UniProt's mainly nuclear localization (HPA: general nuclear expression; UniProt Q9C0B1). Compare staining across cells within the section; a positive control supports interpretation of the run (standard IHC practice). |
| Predominantly membrane-associated staining, with little nuclear signal. | FTO has no transmembrane segment and is mainly nuclear by UniProt; HPA tissue IHC also reports general nuclear expression (UniProt Q9C0B1: topology and localization; HPA: tissue IHC). Review this pattern for nonspecific staining or a detection artefact (standard IHC practice). |
| Strong staining appears only in an unexpected cell population. | Assess the cell identity and controls before calling it FTO: HPA reports low tissue specificity and staining in multiple cell types (HPA: tissue IHC). Cross-reactivity or endogenous detection activity is possible, especially if the expected nuclear pattern is absent (standard IHC practice). |
| Diffuse color covers nuclei, cytoplasm, and tissue spaces without clear cell boundaries. | That distribution cannot establish FTO localization (standard IHC practice). Background from the detection system or insufficient blocking or washing can obscure the nuclear pattern expected in tissue IHC (HPA: general nuclear expression; standard IHC practice). |
| No visible signal in an adrenal gland section's glandular cells. | HPA reports high staining in these cells, so a blank result calls for a technical check (HPA: adrenal gland tissue IHC). Review the positive control, primary antibody, retrieval, and detection steps before interpreting the section as FTO-negative (standard IHC practice). |
| Tissue and cell choice (HPA: tissue IHC) | Adrenal glandular cells, cerebellar granular-layer cells, and duodenal Paneth cells have high reported staining (HPA: tissue IHC). Hepatocytes and adipocytes are reported low, which makes them weaker positive benchmarks, rather than established negatives (HPA: tissue IHC). |
| IHC versus ICC-IF localization (HPA: tissue IHC and subcellular ICC-IF) | Q: What if IF appears cytosolic? A: HPA ICC-IF supports cytosol as the main location and also reports vesicles, whereas its tissue IHC profile is generally nuclear (HPA: subcellular ICC-IF; HPA: tissue IHC). Compare each result with its own application evidence; UniProt also lists cytoplasm (UniProt Q9C0B1: localization). |
| Antibody evidence (HPA: antibody validation) | HPA041086 and HPA068695 each have Enhanced IHC validation (HPA: antibodies). That supports using their reported staining patterns as references, while HPA's tissue summary still notes medium consistency with RNA expression (HPA: tissue IHC). Match any catalog antibody to its own documented IHC-P validation (standard IHC practice). |
| Protein forms and epitope information (UniProt Q9C0B1) | UniProt lists four isoforms and one annotated chain spanning residues 1–505, with no signal peptide or propeptide (UniProt Q9C0B1: isoforms and processing). The supplied evidence does not map a catalog antibody epitope; isoform coverage and epitope-specific staining therefore remain unresolved. |
| Endogenous chromogenic activity (standard IHC practice) | Native tissue activity can produce chromogenic signal independently of primary antibody binding (standard IHC practice). A suitable no-primary control helps identify detection-derived staining; interpret residual color against the cell-resolved nuclear pattern reported for FTO tissue IHC (HPA: tissue IHC; standard IHC practice). |
| Situation | Likely cause | Next action |
|---|---|---|
| Expected positive cells remain blank (HPA: High in adrenal glandular cells). | The staining run may have failed, or the selected conditions may not detect the antigen in that section (standard IHC practice). | Confirm tissue and cell identity, check a known-positive control, then review primary antibody application, retrieval, and chromogenic detection records (HPA: tissue IHC; standard IHC practice). No FTO-specific retrieval condition is established here. |
| Signal is mostly membrane-associated, without the expected nuclear pattern (HPA: tissue IHC). | This conflicts with general nuclear tissue staining and the lack of a transmembrane segment (HPA: tissue IHC; UniProt Q9C0B1: topology); nonspecific detection is possible (standard IHC practice). | Compare with a no-primary control and an HPA-supported positive cell population; re-evaluate antibody specificity if the membrane pattern persists (HPA: tissue IHC; standard IHC practice). |
| Brown color is widespread, including tissue spaces (standard IHC practice). | Detection background can conceal cell boundaries and subcellular localization (standard IHC practice). | Inspect the no-primary control, blocking, wash steps, and development time; score FTO only where cell-associated staining can be distinguished (standard IHC practice). |
| Only unexpected cell types stain strongly. | HPA reports low tissue specificity, so cell identity alone cannot establish an artefact; cross-reactivity or endogenous activity remains possible (HPA: tissue IHC; standard IHC practice). | Check the nuclear pattern, tissue morphology, and no-primary control, then compare with HPA's reported cell-level staining before assigning FTO positivity (HPA: tissue IHC; standard IHC practice). |
| A low-staining tissue gives little or no usable signal (HPA: Low in hepatocytes and adipocytes). | Those HPA observations provide a limited positive benchmark (HPA: tissue IHC). | Assess the run in a reported high population, such as adrenal glandular cells, before drawing a conclusion from the low-staining tissue (HPA: tissue IHC; standard IHC practice). |
| Results differ between antibodies or between tissue IHC and ICC-IF. | HPA reports medium tissue IHC–RNA consistency, while its ICC-IF localization is mainly cytosolic (HPA: tissue IHC; HPA: subcellular ICC-IF). | Record the antibody and application, compare like with like, and use an independently validated IHC pattern when available (HPA: antibody validation; standard IHC practice). Treat unresolved compartment differences as an interpretation limit. |
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 | High | Protein (IHC) | HPA → |
| Cerebellum | Cells in granular layer | High | Protein (IHC) | HPA → |
| Cervix | Glandular cells | High | Protein (IHC) | HPA → |
| Duodenum | Paneth cells | High | Protein (IHC) | HPA → |
| Epididymis | Glandular cells | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: FTO is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot FTO staining in paraffin sections by checking retrieval, compartment, controls, and scoring before interpreting changes in expression.
Anti-FTO antibodies cover human, mouse, and rat reactivity (catalog reactivity), with IHC images from human and mouse tissues and IF images from cells or an unspecified sample (catalog image captions).
A00219-3 shows paraffin-section IHC in human colon cancer at 2 μg/mL (catalog IHC caption); A00219 shows mouse brain IHC at 2.5 μg/mL, although its reactivity listing names only Human (catalog IHC caption; catalog reactivity). M00219-2 shows human kidney IHC (catalog IHC caption); M00219 has an IF image at 1:50 with no sample identified (catalog IF caption).
Which to pick: For tissue IHC, A00219-3 has a documented paraffin-section example with EDTA retrieval at pH 8.0; the fixative is unreported (catalog IHC caption). For IF/ICC, A00219-3 has a U2OS cell image at 5 μg/mL, while M00219 lists both applications but does not identify the sample in its IF caption (catalog applications; catalog IF captions). For cross-species IHC, A00219-3 has Human, Mouse, and Rat reactivity plus mouse and rat brain IHC captions; M00219-2 lists the same species but its IHC caption identifies only human kidney (catalog reactivity; catalog IHC captions).