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- Table of Contents
Plan VDAC1 staining in paraffin sections using the IHC-validated antibody and chromogenic detection (datasheet A01168-1). Compare cytoplasmic signal across cell types, including high staining in lung macrophages and low staining in adipocytes (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 | Cytoplasmic signal; high in lung macrophages (HPA tissue IHC). | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet A01168-1) | |
| Positive control | Cerebellum+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 | Cell-type intensity varies; adipocytes stain low (HPA tissue IHC). | |
| Regulation | Expression regulation unspecified (UniProt). | |
| Isoform / epitope | No annotated isoforms; epitope location unspecified (UniProt). |
The catalog antibody protocol uses EDTA pH 8.0 retrieval (datasheet A01168-1). The published IHC methods below cover breast tissue, oral lesions, and bone marrow smears (PMC7904344; PMC10093190; PMC8808998).
| Sample | Paraffin-embedded human lymphadenoma tissue; fixative not specified (datasheet A01168-1) |
| Fixation | Image fixative and duration unreported (datasheet A01168-1); 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 A01168-1); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A01168-1) |
| Primary antibody | Rabbit anti-VDAC1, 2-5 μg/ml (datasheet A01168-1) |
| Primary incubation | Overnight at 4 °C (datasheet A01168-1) |
| Detection | HRP-conjugated secondary, DAB chromogen (datasheet A01168-1) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | VDAC1-positive staining in purkinje cells - cytoplasm/membrane of cerebellum (HPA tissue IHC: High). HPA tissue profile: Ubiquitous cytoplasmic expression. No signal in the no-primary control. |
VDAC1 localises mainly to the mitochondrial outer membrane, with cell membrane localisation also reported; its 19 transmembrane segments support a membrane-associated interpretation (UniProt P21796 topology and subcellular location). In paraffin-section IHC, expect broadly distributed cytoplasmic staining, including strong staining in selected cell populations (HPA: ubiquitous cytoplasmic expression; High in lung macrophages and kidney collecting ducts). HPA rates the tissue IHC pattern Supported, with medium consistency between antibody staining and RNA expression (HPA: tissue IHC reliability).
| Cytoplasmic staining across many cells, strongest in lung macrophages or kidney collecting ducts. | This fits the reported broad distribution and High staining in those populations (HPA: ubiquitous cytoplasmic expression; High in lung macrophages and kidney collecting ducts). At light-microscope resolution, cytoplasmic chromogen does not identify individual mitochondrial membranes, so judge the overall compartment and cell distribution. |
| Strong nuclear staining dominates while expected cytoplasmic staining is weak or absent. | Treat this as a suspect compartment pattern: the reported tissue pattern is cytoplasmic, and UniProt places VDAC1 at mitochondrial outer and cell membranes (HPA: ubiquitous cytoplasmic expression; UniProt P21796 subcellular location). Review the matched negative control and detection background before assigning biological meaning. |
| An unannotated cell population stains more strongly than nearby annotated High cells. | A reversed local pattern can suggest cross-reactivity or endogenous detection activity; it is not proof of either. Compare cells within the same section and inspect controls (HPA: High in lung macrophages, liver cholangiocytes and kidney collecting ducts). HPA describes ubiquitous expression, so staining outside named High populations is not automatically false (HPA: tissue IHC profile). |
| Chromogen spreads across extracellular areas or obscures cell boundaries. | Diffuse background makes compartment and cell-type calls unreliable. The supported reference is cellular, chiefly cytoplasmic staining (HPA: ubiquitous cytoplasmic expression). Check whether the negative control shows similar deposits, then reassess blocking, washes, detection exposure and counterstain as general IHC workflow checks. |
| A section containing an annotated High cell population has no detectable staining. | This is an inconclusive assay result before it is evidence of absent VDAC1. Check that the expected cells are present and identifiable, then review the antibody and detection controls (HPA: High in the listed cell populations; tissue IHC reliability Supported). HPA supplies no target-specific fixation-sensitivity claim. |
| Compartment and optical resolution | VDAC1 has 19 annotated transmembrane segments and is assigned primarily to the mitochondrial outer membrane, with cell membrane localisation also reported (UniProt P21796 topology and subcellular location). Routine chromogenic IHC supports a cellular distribution call, not direct identification of a mitochondrial membrane. |
| Choice of tissue reference | HPA reports High staining in several distinct populations, including Purkinje cells, cholangiocytes, macrophages and collecting ducts (HPA: tissue IHC). Thyroid glandular cells and adipocytes are Low, not negative controls (HPA: Low in those cells; negative list empty). Use identified High cells when assessing sensitivity. |
| Strength of antibody evidence | HPA lists 3 antibodies with IHC status Supported: HPA030780, CAB005885 and CAB072343 (HPA: antibody validation). The tissue-level Supported rating means medium consistency with RNA expression; it does not establish that every new stain or unexpected compartment is specific (HPA: tissue IHC reliability). |
| IF/ICC evidence boundary | The supplied HPA subcellular record has no main ICC-IF location and no cell lines with ICC-IF images (HPA: subcellular record). UniProt localisation can guide an IF interpretation, but this record cannot independently validate an IF pattern (UniProt P21796 subcellular location; HPA: subcellular record). |
| Situation | Likely cause | Next action |
|---|---|---|
| No chromogenic signal in a section with identifiable annotated High cells. | The run may have failed at antibody incubation or detection; the slide alone cannot establish target absence (HPA: High in the annotated cells). | Confirm the expected cells are present, inspect the run controls, and review the IHC-validated antibody's stated IHC-P conditions and detection steps. Record the retrieval conditions used; no VDAC1-specific retrieval effect is established here. |
| Strong nuclear signal with little cytoplasmic staining. | The dominant compartment conflicts with the reported cytoplasmic tissue pattern and membrane localisation (HPA: tissue IHC profile; UniProt P21796 subcellular location). | Compare with a negative control, check counterstain and chromogen separation, and repeat with an IHC-validated antibody if the nuclear pattern persists (HPA: IHC Supported antibodies). |
| An unexpected cell population is the main positive area. | Cross-reactivity or endogenous detection activity is possible, but HPA's ubiquitous profile also permits staining beyond its named High examples (HPA: tissue IHC profile). | Identify the cells morphologically, compare annotated High cells in the same section, and inspect a matched negative detection control before interpreting the distribution. |
| Diffuse staining or deposits appear outside cells. | Background can obscure the reported cellular, cytoplasmic pattern (HPA: ubiquitous cytoplasmic expression). The supplied sources do not identify a VDAC1-specific cause. | Compare the negative control, then review blocking, washes, detection exposure and chromogen development as general IHC steps. Reassess localisation only when cell boundaries are clear. |
| A Low HPA population shows faint staining. | Low is a reported staining level, not an absence call (HPA: Low in thyroid glandular cells and adipocytes; negative list empty). | Avoid scoring it as a failed negative control. Compare its intensity with an identified High population and use a separate negative detection control to evaluate background. |
| Q: Can an IF/ICC image confirm the same VDAC1 pattern? | The supplied HPA ICC-IF record provides neither a main location nor cell lines with ICC-IF images (HPA: subcellular record). | A: Use the mitochondrial outer membrane and reported cell membrane localisation as interpretation context (UniProt P21796 subcellular location). Treat IF/ICC validation as unresolved by this evidence; follow its separate guide for assay design. |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Supported — 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 |
|---|---|---|---|---|
| Cerebellum | Purkinje cells - cytoplasm/membrane | High | Protein (IHC) | HPA → |
| Gallbladder | Glandular cells | High | Protein (IHC) | HPA → |
| Kidney | Collecting ducts | High | Protein (IHC) | HPA → |
| Liver | Cholangiocytes | High | Protein (IHC) | HPA → |
| Lung | Macrophages | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| None in HPA: VDAC1 is detected in all 45 scored tissues. Use a no-primary (secondary-only) and an isotype control instead. | ||||
Troubleshoot VDAC1 staining in paraffin sections using the catalog antibody’s tissue IHC example, expected localisation, and cell specific expression patterns.
The catalog includes anti-VDAC1 antibodies with IHC images from human, mouse and rat tissues (catalog IHC captions), plus IF images from HeLa cells and paraffin sections (catalog IF captions).
A01168-1 has IHC images from human lymphadenoma, breast cancer, colorectal adenocarcinoma and liver cancer (A01168-1 IHC captions); M01168 from human liver and stomach cancer and mouse and rat heart (M01168 IHC captions); PA1780 from human liver, lung, ovarian and urothelial cancers (PA1780 IHC captions). PB9455 has IHC images from human intestinal cancer and mouse and rat cardiac muscle (PB9455 IHC captions); M01168-1 has stained human tonsil and human, mouse and rat kidney images (M01168-1 IHC captions).
Which to pick: For paraffin-section chromogenic IHC, start with A01168-1: its caption documents EDTA retrieval at pH 8.0, 2 μg/ml primary antibody and DAB detection in human lymphadenoma; the fixative is unreported (A01168-1 IHC caption). For IF/ICC, A01168-1 has a 5 μg/ml HeLa-cell IF example and IF images from paraffin sections of human intestinal cancer and mouse and rat cardiac muscle (A01168-1 IF captions). For cross-species tissue IHC, M01168 is a rabbit monoclonal with paraffin-section IHC images from human liver cancer and mouse and rat heart; its captions do not report the fixative (M01168 catalog clone and IHC captions).