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- Table of Contents
Plan DCAF1 paraffin IHC with catalog antibody A31776 at 2–5 μg/mL (datasheet A31776). Use lung alveolar type II cells as a high-staining reference and score cytoplasmic signal (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Cytoplasmic tissue staining (HPA tissue IHC) | |
| Staining pattern | Many tissue cell types show cytoplasmic staining (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet A31776) | |
| Positive control | Lung+4 more · see all | |
| Negative control | None in HPA (detected in all 45 tissues); use no-primary + isotype controls |
| Fixation | Keep fixation consistent across sections (standard IHC practice; not target-specific) | |
| Caveat | Staining and RNA have medium consistency (HPA tissue IHC) | |
| Regulation | Testis-enhanced RNA (HPA tissue RNA) | |
| Isoform / epitope | 3 isoforms; epitope coverage is unspecified (UniProt) |
The catalog antibody uses heat-mediated EDTA retrieval at pH 8.0 (datasheet A31776). The published IHC examples below describe FFPE tissue staining (PMC7407567; PMC10526264).
| Sample | Paraffin-embedded human placenta tissue; fixative not specified (datasheet A31776) |
| Fixation | Image fixative and duration unreported (datasheet A31776); 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 A31776); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A31776) |
| Primary antibody | Rabbit anti-DCAF1, 2-5μg/ml (datasheet A31776) |
| Primary incubation | Overnight at 4 °C (datasheet A31776) |
| Detection | Streptavidin-biotin complex (SABC), DAB chromogen (datasheet A31776) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | DCAF1-positive staining in alveolar cells type II of lung (HPA tissue IHC: High). HPA tissue profile: Ubiquitous cytoplasmic expression. No signal in the no-primary control. |
DCAF1 is an intracellular protein without a transmembrane segment (UniProt Q9Y4B6 topology). In paraffin tissue IHC, expect broadly distributed cytoplasmic staining, especially strong in lung alveolar type II cells (HPA: ubiquitous cytoplasmic expression; High in alveolar type II cells). Interpret this pattern with care: HPA rates tissue IHC Approved, with medium consistency between staining and RNA expression (HPA: tissue IHC reliability).
| Clear cytoplasmic signal in alveolar type II cells, with weaker signal in several other tissue cell types. | This fits the strongest listed tissue result and the broad cytoplasmic IHC profile (HPA: High in lung alveolar type II cells; Medium in several other cell types). Compare intensity within a slide using morphology and counterstain; an HPA level is a reference observation, not a universal scoring threshold (general IHC interpretation). |
| Predominantly nuclear staining in tissue, with little cytoplasmic signal. | An exclusively nuclear tissue pattern conflicts with the reported cytoplasmic IHC profile (HPA: ubiquitous cytoplasmic expression). Check the antibody and detection controls before calling it specific. Nuclear DCAF1 remains biologically plausible (UniProt Q9Y4B6: nucleus); HPA ICC-IF supports nucleoplasmic localization, so compartment alone cannot prove an artefact (HPA: nucleoplasm supported). |
| Strong staining appears in a cell population scored Low by HPA, or in structures that do not resemble intact cells. | Recheck cell identity and slide morphology before assigning DCAF1 expression (general IHC interpretation). For example, HPA lists prostate glandular cells and smooth muscle cells as Low (HPA: tissue IHC). Unexpected strong signal may reflect cross-reactivity or endogenous detection activity (general IHC practice); the HPA listing cannot diagnose its cause. |
| A diffuse wash of chromogen obscures cell borders and both positive and low-staining areas. | This cannot be read as the reported cell-associated cytoplasmic pattern (HPA: ubiquitous cytoplasmic expression). Diffuse background can arise from nonspecific binding, incomplete washing, or detection background (general IHC practice). Judge DCAF1 only where individual cells and compartments remain distinguishable (general IHC interpretation). |
| No staining is visible in lung alveolar type II cells. | That misses a listed High reference cell type (HPA: High in lung alveolar type II cells). First confirm those cells are present and identifiable, then evaluate slide-wide technical failure with appropriate controls (general IHC practice). A negative result in one preparation alone does not establish absence of DCAF1, given HPA's medium staining-to-RNA consistency (HPA: tissue IHC reliability). |
| Tissue and cell choice | Lung alveolar type II cells offer a High staining reference; adipocytes, adrenal and breast glandular cells, and bronchial respiratory epithelial cells are listed Medium (HPA: tissue IHC). Prostate glandular cells, ovarian stromal cells, smooth muscle cells, and bone marrow hematopoietic cells are listed Low (HPA: tissue IHC). Low means a weak reference, not a proven DCAF1-null control (HPA: tissue IHC). |
| Compartment and assay | Tissue IHC is described as ubiquitously cytoplasmic (HPA: tissue IHC), while DCAF1 is annotated in cytoplasm, nucleus, and centrosome (UniProt Q9Y4B6: subcellular location). These observations set different expectations for different preparations; tissue chromogen alone cannot resolve fine nuclear structures or establish centrosomal localization (general microscopy interpretation). |
| Antibody validation | HPA036142 and HPA053203 are Approved for IHC; HPA052445 has no listed IHC status (HPA: antibody validation). Approved tissue reliability carries a medium staining-to-RNA consistency description (HPA: tissue IHC reliability). Use validation status to choose evidence, while checking the actual slide against morphology and controls (general IHC practice). |
| Isoforms and epitope scope | UniProt lists three DCAF1 isoforms and a full-length chain spanning residues 1–1507 (UniProt Q9Y4B6: isoforms; processing). No antibody epitope or isoform coverage is supplied here; an IHC pattern cannot be assigned to a particular isoform from these records alone (UniProt Q9Y4B6: isoforms; HPA: antibody listings). |
| IF/ICC expectation? | For IF/ICC, HPA reports mainly nucleoplasmic signal with an additional nucleoli fibrillar-center location, both supported (HPA: subcellular ICC-IF). That is the IF/ICC interpretation here; it does not replace the cytoplasmic tissue IHC reference (HPA: tissue IHC). |
| Situation | Likely cause | Next action |
|---|---|---|
| Lung reference cells are unstained while the whole slide is pale. | A slide-wide failure is possible, but the observation alone does not identify which step failed (general IHC practice; HPA: High in alveolar type II cells). | Verify alveolar type II cells by morphology and counterstain, then inspect primary-antibody, detection, and run controls; repeat the run if controls failed (general IHC practice). Do not infer DCAF1 absence from a failed reference. |
| A strong nuclear-only tissue signal replaces the expected cytoplasmic pattern. | The result is discordant with HPA tissue IHC, although nuclear localization is recorded by UniProt and supported in HPA ICC-IF (HPA: cytoplasmic tissue IHC; UniProt Q9Y4B6: nucleus; HPA: nucleoplasm supported). | Compare compartments in intact cells, review the antibody's IHC validation, and check detection controls (general IHC practice; HPA: antibody validation). Report the discordance rather than treating nuclear signal alone as proof of specificity. |
| Low-reference cell types stain as strongly as the lung reference. | The contrast differs from HPA's listed High and Low observations; nonspecific binding or endogenous detection activity is possible (HPA: tissue IHC levels; general IHC practice). | Confirm cell identity and compare matched sections with an appropriate negative detection control (general IHC practice). Interpret any residual staining cautiously because HPA levels are observations, not absolute exclusions (HPA: tissue IHC). |
| Diffuse color persists outside recognizable cells. | Nonspecific reagent binding, insufficient washing, or endogenous detection activity may contribute (general IHC practice). This pattern cannot establish the reported cytoplasmic localization (HPA: tissue IHC). | Inspect a control that omits the primary antibody, check washing and blocking, and assess the detection chemistry's endogenous-activity control as appropriate (general IHC practice). Reassess only cell-associated signal. |
| Only scattered weak cytoplasmic cells are visible in a broadly positive tissue. | Cell composition and low staining intensity may limit interpretation; HPA's broad profile does not promise equal intensity in every cell (HPA: ubiquitous cytoplasmic expression; HPA: tissue IHC levels). | Identify the stained cell population on the counterstained section, compare it with the relevant HPA cell-level reference, and verify run controls before scoring the tissue (general IHC practice; HPA: tissue IHC). |
| IF/ICC looks nucleoplasmic while the tissue IHC slide looks cytoplasmic. | The two reported assay observations differ: nucleoplasm is supported in ICC-IF, whereas the tissue IHC profile is cytoplasmic (HPA: subcellular ICC-IF; HPA: tissue IHC). | Document each assay with its own compartment reference and inspect its controls (general microscopy practice). Do not score a tissue IHC slide against the ICC-IF location alone (HPA: tissue IHC; HPA: subcellular ICC-IF). |
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 |
|---|---|---|---|---|
| Lung | Alveolar cells type II | High | Protein (IHC) | HPA → |
| Adipose tissue | Adipocytes | Medium | Protein (IHC) | HPA → |
| Adrenal gland | Glandular cells | Medium | Protein (IHC) | HPA → |
| Appendix | Glandular cells | Medium | Protein (IHC) | HPA → |
| Breast | Glandular cells | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: DCAF1 is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot DCAF1 staining in paraffin sections by checking retrieval, controls, cellular localisation and scoring before interpreting changes in chromogenic signal.
Two catalog antibodies have IHC images from human paraffin sections; one also has mouse and rat brain IHC images (catalog IHC captions). Both have human cell IF/ICC images (catalog IF captions).
A31776 has paraffin-section IHC images from human placenta, breast cancer, ovarian adenocarcinoma and pancreatic cancer (A31776 IHC captions), plus an IF/ICC image from PC-3 cells (A31776 IF caption). A31776-1 has paraffin-section IHC images from human chronic tonsillitis, human colonic adenocarcinoma, mouse brain and rat brain (A31776-1 IHC captions), plus an IF/ICC image from HeLa cells (A31776-1 IF caption).
Which to pick: For human tissue IHC, choose the SKU with an image closest to your specimen; both use EDTA retrieval at pH 8.0 and 2 μg/ml primary antibody in their own paraffin-section captions (A31776 and A31776-1 IHC captions). For IF/ICC, both have human cell images at 5 μg/ml; choose A31776 for the PC-3 example or A31776-1 for the HeLa example (A31776 and A31776-1 IF captions). For mouse or rat tissue IHC, A31776-1 has direct brain-section images, while A31776 lists mouse and rat reactivity without those species in its IHC captions; clonality and the paraffin sections’ fixative are unreported (catalog reactivity, clone fields and IHC captions).