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- Table of Contents
Plan BRF1 chromogenic IHC in paraffin sections around its variable nuclear staining pattern (HPA tissue IHC). Use the IHC-validated antibody and compare positive tissue with a negative control, while checking for off-target staining (HPA tissue IHC; datasheet).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Nuclear staining in most tissues (HPA tissue IHC) | |
| Staining pattern | Variable nuclear staining across most tissues (HPA tissue IHC) | |
| Antigen retrieval | Tris-EDTA pH 9.0 HIER, 95–98 °C, 20 min (rule: nuclear antigen) | |
| Positive control | Adrenal gland+4 more · see all | |
| Negative control | Adipose tissue+4 more · see all |
| Fixation | Keep fixation consistent across sections. (standard IHC practice; not target-specific) | |
| Caveat | Presumed off-target binding may confound staining (HPA tissue IHC) | |
| Regulation | Staining intensity varies by tissue (HPA tissue IHC) | |
| Isoform / epitope | 9 isoforms; epitope coverage is undetermined (UniProt; datasheet) |
The catalog antibody’s IHC-P protocol is accompanied by four published BRF1 IHC protocols (PMC8081602; PMC4868753; PMC7336232; PMC11369479).
| Sample | Paraffin-embedded human brain tissue; fixative not specified (datasheet A03761-1) |
| Fixation | Image fixative and duration unreported (datasheet A03761-1); verify before use. |
| Sectioning | 4–5 µm sections on charged slides (standard) |
| Deparaffinisation | Xylene, graded ethanol series to water (standard) |
| Antigen retrieval | Heat-induced epitope retrieval in Tris-EDTA buffer, pH 9.0, 20 min at 95–98 °C (standard rule: nuclear antigen) |
| 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 monoclonal (clone 2F1) anti-BRF1, 1:100-1:300 (datasheet A03761-1) |
| 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 | BRF1-positive staining in glandular cells of adrenal gland (HPA tissue IHC: High). HPA tissue profile: Nuclear expression of varying levels in most tissues. No signal in the no-primary control. |
BRF1 is a nuclear transcription factor with no annotated transmembrane segment (UniProt Q92994: subcellular location, function, topology). In paraffin-section IHC, expect nuclear staining of varying intensity across most tissues, including high staining in kidney tubular cells, cerebral-cortex neurons and testicular spermatogonia (HPA: tissue IHC). HPA rates its tissue pattern Approved, while noting presumed off-target binding was disregarded and external verification is pending (HPA: tissue IHC reliability).
| Nuclear staining in kidney tubules, cerebral-cortex neurons or testicular spermatogonia. | This matches HPA’s High cell-level staining in those tissues and BRF1’s nuclear location (HPA: tissue IHC; UniProt Q92994: subcellular location). Assess nuclei within the named cell population rather than calling an entire section uniformly positive (HPA: tissue IHC). |
| Predominantly cytoplasmic, membranous or extracellular staining, with little nuclear signal. | That distribution conflicts with the expected nuclear pattern and lack of an annotated transmembrane segment (UniProt Q92994: subcellular location, topology; HPA: tissue IHC). Treat it as suspect until controls and staining conditions are reviewed; location alone cannot identify the artefact’s cause (general IHC interpretation). |
| Strong staining in an HPA-listed cell population reported as Not detected, such as adipocytes or prostate glandular cells. | It differs from HPA’s observed cell-level result, so consider nonspecific antibody binding or endogenous chromogen-generating activity (HPA: tissue IHC; general chromogenic IHC practice). A single discordant section does not establish cross-reactivity; review controls and tissue identity (general IHC interpretation). |
| Diffuse staining across nuclei and surrounding tissue, obscuring cell boundaries. | The distribution cannot be scored confidently against HPA’s cell-specific nuclear pattern (HPA: tissue IHC). Excess primary-antibody signal, incomplete blocking or endogenous detection activity are general IHC possibilities; control sections help distinguish them (general chromogenic IHC practice). |
| No nuclear signal in a correctly identified, well-preserved HPA High cell population. | The result is discordant with that reported positive population (HPA: tissue IHC). Check the assay and positive-control section before interpreting the study tissue as BRF1-negative (general IHC practice). HPA’s Approved rating still carries a pending-external-verification caveat (HPA: tissue IHC reliability). |
| Which cells provide a useful comparison? | HPA reports High nuclear staining in kidney tubules, cerebral-cortex neurons, testicular spermatogonia and several other named populations; it reports Not detected in adipocytes and prostate glandular cells (HPA: tissue IHC). These are cell-level observations, and staining varies across tissues (HPA: tissue IHC profile). |
| How secure is the IHC pattern? | The tissue-IHC profile is Approved, with presumed off-target binding disregarded and external verification pending (HPA: tissue IHC reliability). HPA074990 has an Approved IHC entry; the supplied record does not label its IHC validation Enhanced (HPA: antibodies). |
| Can IF/ICC inform the expected compartment? | Yes: HPA reports approved nucleoplasm and nuclear-body localization in ICC-IF (HPA: subcellular ICC-IF). This supports looking for nuclear signal, while the paraffin-section pattern should be judged against tissue IHC (HPA: tissue IHC). HPA051918 has Approved ICC status; that record alone does not establish its IHC performance (HPA: antibodies). |
| Could isoforms affect interpretation? | UniProt lists nine BRF1 isoforms with distinct reported transcription roles for isoforms 1 and 2 (UniProt Q92994: isoforms, function). The supplied sources do not map an IHC antibody epitope to those isoforms; avoid assigning an observed tissue-staining difference to a particular isoform (UniProt Q92994: isoforms; HPA: antibodies). |
| What can antigen retrieval establish here? | Retrieval conditions can be optimized against a positive-control section as general paraffin-IHC practice. The supplied UniProt and HPA records give no BRF1-specific retrieval or fixation-sensitivity result, so a change in staining after optimization cannot, by itself, establish a BRF1-specific fixation effect. |
| Situation | Likely cause | Next action |
|---|---|---|
| Kidney tubular nuclei are unstained while the section otherwise appears usable. | This conflicts with HPA’s High staining in tubular cells; an assay failure or a mismatch between the scored cells and reference population is possible (HPA: tissue IHC; general IHC interpretation). | Confirm tubular-cell identity, examine a same-run positive control, then review antibody dilution, retrieval and detection steps as general paraffin-IHC checks. Avoid declaring BRF1 absent from the study tissue until the positive control works (general IHC practice). |
| Color is strongest outside nuclei, including at cell edges. | The compartment conflicts with BRF1’s nuclear annotation and HPA’s nuclear tissue profile (UniProt Q92994: subcellular location; HPA: tissue IHC). The pattern does not pinpoint a single technical cause (general IHC interpretation). | Compare a no-primary control and the positive-control tissue, inspect morphology, and review blocking and detection steps (general chromogenic IHC practice). Score only interpretable nuclear signal against the named cell population (HPA: tissue IHC). |
| An HPA Not detected cell population stains strongly. | The result is discordant with HPA’s cell-level observation and could reflect nonspecific binding or endogenous detection activity (HPA: tissue IHC; general chromogenic IHC practice). | Verify cell identity and compare no-primary and detection controls (general IHC practice). Keep the discrepancy explicit: HPA’s Approved tissue profile notes presumed off-target binding was disregarded and external verification is pending (HPA: tissue IHC reliability). |
| Nearly every structure has diffuse brown signal. | Widespread signal obscures the nuclear, cell-specific pattern needed for interpretation (HPA: tissue IHC). Incomplete blocking, excessive primary-antibody signal or endogenous detection activity are general IHC possibilities. | Use a no-primary control to assess background, then review blocking, antibody dilution, washing and chromogen development against the positive-control section (general chromogenic IHC practice). Reassess only after nuclei can be distinguished. |
| Only faint signal appears in a tissue expected to stain strongly. | HPA’s High label refers to specified cells, not every cell in that tissue (HPA: tissue IHC). A weak field can reflect cell selection or assay performance; the supplied sources do not establish a BRF1-specific fixation effect. | Identify the HPA-listed cell population, compare it with a same-run positive control, and review retrieval and detection as general paraffin-IHC steps (HPA: tissue IHC; general IHC practice). |
| ICC-IF shows nuclear bodies, while chromogenic tissue IHC looks broadly nuclear. | HPA reports nucleoplasm and nuclear bodies by ICC-IF, and a nuclear tissue-IHC profile (HPA: subcellular ICC-IF; HPA: tissue IHC). These observations use different preparations and readouts; the supplied sources do not require nuclear bodies to resolve in chromogenic tissue sections. | Use the IF/ICC result to check nuclear compartment, then score the paraffin section by its tissue-IHC cell population and nuclear signal (HPA: subcellular ICC-IF; HPA: tissue IHC). Do not treat unresolved nuclear bodies alone as an IHC failure. |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Approved — Presumed off target binding observed and disregarded. Pending external verification.). 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 → |
| Cerebral cortex | Neuronal cells | High | Protein (IHC) | HPA → |
| Endometrium | Cells in endometrial stroma | High | Protein (IHC) | HPA → |
| Kidney | Cells in tubules | High | Protein (IHC) | HPA → |
| Testis | Spermatogonia cells | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Adipose tissue | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Liver | Cholangiocytes | Not detected | Protein (IHC) | HPA → |
| Ovary | Ovarian stroma cells | Not detected | Protein (IHC) | HPA → |
| Parathyroid gland | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Prostate | Glandular cells | Not detected | Protein (IHC) | HPA → |
Troubleshoot BRF1 staining by checking nuclear localisation, cell type, section quality and controls before interpreting chromogenic signal.
Two anti-BRF1 antibodies have IHC images from human brain paraffin sections and IF images from MCF7 cells (each SKU’s image captions); both list human and mouse reactivity (catalog reactivity).
A03761-1 lists IHC and IF, with its own human brain paraffin-section IHC image and MCF7-cell IF image (catalog applications; A03761-1 image captions). A30544 lists IHC, IF and ICC, with its own human brain paraffin-section IHC image and MCF7-cell IF image (catalog applications; A30544 image captions).
Which to pick: For tissue IHC, either A03761-1 (clone 2F1) or A30544 (polyclonal) has its own human brain paraffin-section image; neither caption reports the fixative (catalog clone/type; each SKU’s IHC image caption). Choose A30544 if an explicit ICC application listing matters; both list IF and show MCF7-cell IF images (catalog applications; each SKU’s IF image caption). Both list human and mouse reactivity, while the supplied IHC images show human tissue only (catalog reactivity; each SKU’s IHC image caption).