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- Table of Contents
Plan ATP6V1C1 IHC in paraffin sections around the general cytoplasmic tissue pattern (HPA tissue IHC). Compare high staining in esophageal squamous cells and parathyroid or stomach glandular cells with undetected staining in adipocytes or skeletal myocytes (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Cytoplasmic staining (HPA tissue IHC); vesicle-associated protein (UniProt) | |
| Staining pattern | General cytoplasmic staining in glandular and squamous cells (HPA tissue IHC) | |
| Antigen retrieval | EDTA pH 8.0 HIER, heat-mediated (datasheet A10380-1) | |
| Positive control | Esophagus+4 more · see all | |
| Negative control | Adipose tissue+4 more · see all |
| Fixation | Keep fixation consistent across sections (standard IHC practice; not target-specific); optimize empirically. | |
| Caveat | IHC staining has medium concordance with RNA expression (HPA tissue IHC) | |
| Regulation | Ubiquitous expression; no induction specified (UniProt) | |
| Isoform / epitope | No annotated isoforms; chain 2–382; no transmembrane segment (UniProt) |
The catalog antibody has an IHC-P protocol (datasheet A10380-1); the published ATP6V1C1 IHC methods below provide additional tissue examples (PMC8806199; PMC3805834; PMC2773039).
| Sample | Paraffin-embedded human liver cancer tissue; fixative not specified (datasheet A10380-1) |
| Fixation | Image fixative and duration unreported (datasheet A10380-1); 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 A10380-1); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% goat serum (datasheet A10380-1) |
| Primary antibody | Rabbit anti-ATP6V1C1, 1:50 recommended; image 2 μg/ml (datasheet A10380-1) |
| Primary incubation | Overnight at 4 °C (datasheet A10380-1) |
| Detection | HRP-conjugated secondary, DAB chromogen (datasheet A10380-1) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | ATP6V1C1-positive staining in squamous epithelial cells of esophagus (HPA tissue IHC: High). HPA tissue profile: General cytoplasmic expression. No signal in the no-primary control. |
ATP6V1C1 is a V-ATPase V1 subunit associated with cytoplasmic vesicle membranes and has no transmembrane segment (UniProt P21283). In tissue IHC, expect mainly cytoplasmic staining, especially in esophageal squamous epithelial cells and parathyroid or stomach glandular cells (HPA: general cytoplasmic expression; High in these cells). HPA rates its tissue staining Approved, with medium consistency between antibody staining and RNA expression (HPA: tissue IHC reliability).
| Cytoplasmic staining in esophageal squamous epithelium or parathyroid or stomach glandular cells. | This matches the reported IHC pattern and its strongest listed cell populations (HPA: general cytoplasmic expression; High in these cells). Judge the signal within the relevant cells, since a tissue section also contains other cell types (general IHC practice). |
| Predominantly nuclear staining with little cytoplasmic signal in a tissue IHC section. | Treat this as a possible IHC artefact or assay-specific pattern and check controls before calling it positive (HPA: general cytoplasmic tissue IHC). HPA separately reports approved nucleoplasmic staining in ICC-IF, so nuclear fluorescence in cultured cells requires interpretation in that assay (HPA: subcellular ICC-IF). |
| Strong staining in adipocytes or skeletal myocytes while expected positive cells are weak. | Consider cross-reactivity or endogenous chromogenic detection activity (general IHC practice). HPA reports ATP6V1C1 as Not detected in adipocytes in adipose tissue and breast, and in skeletal myocytes; those observations are useful comparisons, not universal proof of absence (HPA: tissue IHC). |
| Uniform color across cells, stroma, and empty areas, with no clear cellular pattern. | Diffuse background can obscure the reported cytoplasmic distribution (HPA: tissue IHC). Assess a matched negative detection control and the distribution of precipitate; inadequate blocking, washing, or endogenous enzyme control can produce background in chromogenic IHC (general IHC practice). |
| No convincing staining in esophageal squamous epithelium, parathyroid glandular cells, or stomach glandular cells. | These are High-staining examples in HPA, so a blank result raises an assay-performance question (HPA: tissue IHC). Check the control section, tissue preservation, antibody incubation, retrieval conditions, and detection reagents before interpreting the sample as negative (general IHC practice). |
| Tissue and cell context | HPA reports Low tissue RNA specificity and a general cytoplasmic protein profile, yet individual cell populations range from High to Not detected (HPA: tissue IHC). Compare like cell types within sections; a negative adipocyte result cannot serve as a whole-tissue negative control (HPA: adipocytes Not detected). |
| Assay-specific localisation | Tissue IHC is described as generally cytoplasmic, while approved ICC-IF localisation is mainly nucleoplasmic with additional cytosol signal (HPA: tissue IHC; HPA: subcellular ICC-IF). Can ICC-IF show nuclear signal? Yes, in its own assay; use its separate guide for experimental conditions (HPA: subcellular ICC-IF). |
| Antibody validation | HPA023943 is Approved for IHC, whereas HPA057297 is Approved for ICC-IF; the listed approvals apply to their respective assays (HPA: antibody validation). Tissue IHC reliability is Approved with medium staining–RNA consistency, so corroborate unexpected patterns with controls (HPA: tissue IHC reliability). |
| Protein location and processing | ATP6V1C1 is a peripheral V1-complex subunit associated with vesicle membranes, without a transmembrane segment or annotated glycosylation sites (UniProt P21283: function, subcellular location, topology, glycosylation). These annotations support cytoplasmic interpretation but do not predict antigen retrieval or fixation sensitivity (UniProt P21283; HPA: tissue IHC). |
| Chromogenic detection | Endogenous enzyme activity or nonspecific detection can resemble cell staining, especially when color lacks the expected cytoplasmic distribution (general IHC practice; HPA: tissue IHC pattern). Control the detection system and interpret signal against matched control sections (general IHC practice). |
| Situation | Likely cause | Next action |
|---|---|---|
| A High-staining reference tissue is blank. | The expected cells may be absent from the section, or an IHC step may have failed (HPA: High in specified cell populations; general IHC practice). | Confirm the relevant cells on the counterstain, then review the IHC-validated antibody, retrieval, incubation, and detection controls (HPA: HPA023943 IHC Approved; general IHC practice). |
| Only nuclei stain in chromogenic tissue IHC. | This diverges from the general cytoplasmic tissue profile; nuclear ICC-IF localisation is a separate HPA observation (HPA: tissue IHC; HPA: subcellular ICC-IF). | Check negative detection controls and compare a known positive tissue section before assigning the nuclear IHC signal to ATP6V1C1 (general IHC practice; HPA: High-staining tissues). |
| Adipocytes or skeletal myocytes show prominent color. | These cell types were Not detected in the HPA tissue observations; cross-reactivity or endogenous detection activity is possible (HPA: tissue IHC; general IHC practice). | Compare a matched negative detection control and the expected positive cell pattern; investigate persistent cell-specific signal with an independent antibody where available (general IHC practice; HPA: High-staining cells). |
| The entire section has a weak, diffuse haze. | Background from insufficient blocking, washing, or detection controls can hide cell boundaries (general IHC practice). | Review blocking and washes, check endogenous enzyme controls for the detection system, and score only interpretable cellular staining (general IHC practice). |
| Positive and negative tissues both appear equally stained. | The assay may lack useful contrast, or the comparison may mix cell populations with different reported levels (general IHC practice; HPA: tissue IHC). | Compare the specified High cells with the specified Not detected cells under matched staining conditions; inspect negative detection controls before changing the interpretation (HPA: tissue IHC; general IHC practice). |
| A negative result follows a change in fixation or retrieval. | No target-specific fixation sensitivity or retrieval requirement is established by the supplied HPA and UniProt evidence (HPA: tissue IHC; UniProt P21283). | Compare matched positive control sections processed with the old and new conditions; treat any difference as an assay finding rather than a known ATP6V1C1 property (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 |
|---|---|---|---|---|
| Esophagus | Squamous epithelial cells | High | Protein (IHC) | HPA → |
| Parathyroid gland | Glandular cells | High | Protein (IHC) | HPA → |
| Stomach | Glandular cells | High | Protein (IHC) | HPA → |
| Adrenal gland | Glandular cells | Medium | Protein (IHC) | HPA → |
| Appendix | Glandular cells | Medium | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Adipose tissue | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Bone marrow | Hematopoietic cells | Not detected | Protein (IHC) | HPA → |
| Breast | Adipocytes | Not detected | Protein (IHC) | HPA → |
| Cervix | Glandular cells | Not detected | Protein (IHC) | HPA → |
| Liver | Cholangiocytes | Not detected | Protein (IHC) | HPA → |
Troubleshoot ATP6V1C1 staining in paraffin-section chromogenic IHC by checking retrieval, cellular pattern, controls and scoring before interpreting differences between samples.
A10380-1 has IHC images from paraffin-embedded human liver and liver cancer sections (catalog image captions); its listed reactivity is Human, Mouse and Rat (catalog: reactivity).
A10380-1 has IHC images from paraffin-embedded human liver and liver cancer sections (catalog image captions). Its listed applications are IHC, ELISA and WB, and its listed reactivity is Human, Mouse and Rat (catalog: applications and reactivity).
Which to pick: For tissue IHC, choose A10380-1: its IHC images use paraffin-embedded human liver sections, EDTA retrieval at pH 8.0 and DAB detection (A10380-1 image captions); the fixative is unreported (A10380-1 image captions). For IF/ICC, A10380-1 has no listed IF/ICC application or IF image (catalog: applications and IF images). For cross-species work, A10380-1 lists Mouse and Rat reactivity, but the supplied IHC images show human tissue only (catalog: reactivity; A10380-1 image captions).