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- Table of Contents
This FANCD2 chromogenic IHC guide centers on nuclear staining in glandular epithelia and subsets of testicular and lymphoid cells (HPA tissue IHC). It gives a catalog antibody starting range of 1:100–1:300 (datasheet A00563) and highlights cell-cycle-dependent nuclear foci when interpreting staining (UniProt).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Nuclear in most glandular epithelia (HPA tissue IHC) | |
| Staining pattern | Nuclear glandular cells; subsets in testis and germinal centers (HPA tissue IHC) | |
| Antigen retrieval | Tris-EDTA pH 8.0 HIER, heat-mediated (datasheet A00563) | |
| Positive control | Testis+4 more · see all | |
| Negative control | Adipose tissue+4 more · see all |
| Fixation | Keep fixation consistent across paraffin sections. (standard IHC practice; not target-specific) | |
| Caveat | Mitotic redistribution may reduce nuclear-only scoring (UniProt) | |
| Regulation | S phase or DNA damage promotes nuclear foci (UniProt) | |
| Isoform / epitope | 4 isoforms; epitope coverage is unspecified (UniProt) |
Compare the catalog antibody’s IHC-P protocol (datasheet A00563) with four published FANCD2 chromogenic IHC workflows (PMC10210052; PMC2096638; PMC10425492; PMC6403512).
| Sample | Paraffin-embedded Human lung cancer tissue; fixative not specified (datasheet A00563) |
| Fixation | Image fixative and duration unreported (datasheet A00563); verify before use. |
| Sectioning | 4–5 µm sections on charged slides (standard) |
| Deparaffinisation | Xylene, graded ethanol series to water (standard) |
| Antigen retrieval | Heat retrieval: Tris-EDTA pH 8.0 (datasheet A00563); 20 min, 95–100 °C (standard) |
| 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-FANCD2, 1:100-1:300 (datasheet A00563) |
| 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 | FANCD2-positive staining in pachytene spermatocytes of testis (HPA tissue IHC: High). HPA tissue profile: Nuclear expression in most glandular epithelia, subset of cells in testis and in germinal centers of lymphoid tissues. No signal in the no-primary control. |
FANCD2 should stain predominantly in nuclei, especially in pachytene spermatocytes of testis and glandular epithelial cells of colon, duodenum and rectum (HPA tissue IHC). Nuclear foci may occur during S phase or after genotoxic stress (UniProt Q9BXW9). HPA rates its tissue IHC profile Approved, with medium consistency between antibody staining and RNA expression; FANCD2 has no transmembrane segment (HPA tissue IHC; UniProt Q9BXW9).
| High nuclear staining in pachytene spermatocytes; medium nuclear staining in colon or duodenal glandular cells. | This matches the reported positive cell types and levels (HPA tissue IHC). Score the relevant cells and their nuclear compartment, since the HPA profile describes expression in a subset of testis cells rather than every cell (HPA tissue IHC). |
| Prominent cytoplasmic staining with little or no nuclear signal in an expected positive cell population. | Question this paraffin-section IHC pattern: FANCD2 is predominantly nuclear (UniProt Q9BXW9; HPA tissue IHC). UniProt describes transient cytoplasmic diffusion at mitotic onset, so an isolated cell outside the usual nuclear pattern is less decisive than widespread cytoplasmic staining (UniProt Q9BXW9). |
| Strong staining in adipocytes of adipose tissue or another cell population reported as undetected. | HPA reports FANCD2 as not detected in adipose-tissue adipocytes (HPA tissue IHC). Check whether the signal follows that cell type and whether a no-primary control also develops color; cross-reactivity or endogenous detection activity are possible explanations (general IHC practice). |
| Color spreads across the section without a clear nuclear boundary or cell-type pattern. | This is difficult to score as FANCD2 because the expected tissue pattern is nuclear and cell selective (HPA tissue IHC). Broad background can arise from nonspecific binding or detection chemistry; compare a no-primary control before interpreting weak positive cells (general IHC practice). |
| No nuclear staining in pachytene spermatocytes of a testis section. | This conflicts with the high signal reported for that cell population (HPA tissue IHC). First confirm that pachytene spermatocytes are present and identifiable; then review the catalog antibody's IHC-P conditions and the detection controls (general IHC practice). |
| Tissue and cell selection | Testis pachytene spermatocytes provide a reported high reference; colon, duodenum and rectum glandular cells are medium, while adipose-tissue adipocytes are not detected (HPA tissue IHC). A negative field is meaningful only after its cell types are identified (general IHC practice). |
| Cell-cycle context | FANCD2 concentrates in nuclear foci during S phase and after genotoxic stress; it can leave chromosomes and diffuse into cytoplasm at mitotic onset (UniProt Q9BXW9). These are localization contexts, not promised frequencies or staining intensities in routine tissue IHC (UniProt Q9BXW9). |
| IHC antibody validation | HPA marks CAB016117 IHC as Approved and HPA063742 IHC as unlisted; Approved tissue staining has medium consistency with RNA expression (HPA antibodies; HPA tissue IHC). Antibody-specific IHC validation matters when comparing slide patterns (HPA antibodies). |
| Detection interpretation | A no-primary control can reveal background from the chromogenic detection system, while a known-positive tissue checks the staining run (general IHC practice). These controls help interpret unexpected color; they do not establish antibody specificity by themselves (general IHC practice). |
| IF/ICC Q: Should nuclear puncta appear in fluorescence images? | Yes, nuclear bodies and nucleoplasm are supported main locations in HPA ICC-IF, and UniProt describes stress- and S-phase-associated nuclear foci (HPA subcellular; UniProt Q9BXW9). Nucleoli are an additional supported location; cytosol is uncertain in HPA ICC-IF (HPA subcellular). |
| Situation | Likely cause | Next action |
|---|---|---|
| Testis control lacks staining in identifiable pachytene spermatocytes. | Those cells are reported high by HPA, so the observation may reflect a failed staining run or a mismatch between antibody and method (HPA tissue IHC; general IHC practice). | Verify cell identity and section quality, then check the catalog antibody's IHC-P instructions and run-level positive and no-primary controls (general IHC practice). |
| Colon glands stain weakly compared with testis. | A difference can be expected: HPA reports medium colon glandular staining and high pachytene-spermatocyte staining (HPA tissue IHC). | Score each tissue against its own reported cell type and level; use the same detection and counterstain assessment across compared sections (HPA tissue IHC; general IHC practice). |
| Color appears mainly in cytoplasm throughout positive tissue. | A broad cytoplasmic pattern conflicts with the predominant nuclear tissue profile, although UniProt notes transient cytoplasmic diffusion at mitotic onset (HPA tissue IHC; UniProt Q9BXW9). | Compare nuclear boundaries against the counterstain and examine a no-primary control; treat widespread cytoplasmic color cautiously when nuclear staining is absent (general IHC practice). |
| Adipocytes show convincing-looking chromogenic signal. | Adipose-tissue adipocytes are reported as not detected; nonspecific binding or endogenous detection activity could explain unexpected color (HPA tissue IHC; general IHC practice). | Check the no-primary control in the same tissue and compare localization with a positive tissue's nuclear pattern before scoring adipocytes as positive (HPA tissue IHC; general IHC practice). |
| Most tissue compartments develop diffuse brown background. | The expected HPA pattern is nuclear and cell selective; diffuse color can arise from detection background or nonspecific binding (HPA tissue IHC; general IHC practice). | Inspect the no-primary control, blocking and wash steps, then assess whether identifiable nuclei retain a cell-type-specific signal above background (general IHC practice). |
| Discrete nuclear dots differ between otherwise comparable positive cells. | FANCD2 can form nuclear foci during S phase and following genotoxic stress; variable dots alone do not establish a staining failure (UniProt Q9BXW9). | Record diffuse nuclear signal and puncta separately, with tissue and cell identity; avoid assigning a DNA-damage state from IHC appearance alone (UniProt Q9BXW9; general IHC practice). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Approved — 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 |
|---|---|---|---|---|
| Testis | Pachytene spermatocytes | High | Protein (IHC) | HPA → |
| Colon | Glandular cells | Medium | Protein (IHC) | HPA → |
| Duodenum | Glandular cells | Medium | Protein (IHC) | HPA → |
| Esophagus | Squamous epithelial cells | Medium | Protein (IHC) | HPA → |
| Nasopharynx | Ciliated cells (cell body) | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Adipose tissue | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Adrenal gland | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Breast | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Bronchus | Basal cells | Not detected | Protein (IHC) | HPA → |
| Caudate | Glial cells | Not detected | Protein (IHC) | HPA → |
Troubleshoot FANCD2 staining in paraffin sections by checking retrieval, nuclear localisation and cell specific controls before comparing chromogenic scores.
Catalog anti-FANCD2 antibodies have IHC images from human paraffin sections and an IF/ICC image from human cells; all four list Human, Mouse and Rat reactivity (catalog applications, image captions and reactivity).
A00563 shows IHC in human lung cancer and breast carcinoma paraffin sections; A00563-1 shows IHC in human breast carcinoma paraffin sections (A00563 and A00563-1 image captions). M00563 shows IHC in human spleen paraffin sections, while A00563-2 shows IF/ICC in SW480 cells fixed with paraformaldehyde (M00563 and A00563-2 image captions).
Which to pick: For tissue IHC, choose A00563 for its peptide-absorption controls, A00563-1 for its breast carcinoma example, or monoclonal M00563 for its spleen example; their paraffin-section captions do not report the fixative (A00563, A00563-1 and M00563 image captions; catalog clone field). For IF/ICC, choose A00563-2 for its SW480 cell image and listed IF/ICC applications (A00563-2 image caption and catalog applications). All four list Human, Mouse and Rat reactivity, but the supplied images document human samples only (catalog reactivity and image captions).