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Standard Protocol for Chromogenic IHC - Paraffin Sections

Important: Some proteins have special requirements for good detection. Please refer to the remarks sections for IHC-P on the respective data sheet.

Tissue preparation

For the preparation of paraffin embedded tissues for immunohistochemistry, please refer to our tissue preparation protocols.

Materials and reagents needed:

  • Food Steamer (e.g. Braun Multigourmet; alternatively: microwave, waterbath, pressure cooker)*
  • Staining containers with slide holders (e.g. Tissue-Tek)
  • Blocking buffer: Protein Block Serum Free (Agilent cat. no. X0909)
  • Antibody incubation buffer: Antibody diluent (Agilent cat. no. S2022)
  • Biotinylated secondary antibody
  • ABC HRP Kit: standard (Vectorlabs cat. no. PK-4000)
  • ImmPACT DAB: (Vectorlabs cat. no. SK-4105)
  • PBS: Phosphate buffered saline, (pH 7.4)
  • TBST: 20 mM Tris (pH 7.6), 150 mM NaCl, 0.05% Tween 20
  • Antigen Retrieval buffer: 10 mM citrate, 0.05% Tween 20, pH 6.0 or 10 mM Tris, 1 mM EDTA, 0.05% Tween 20, pH 9.0. Please check IHC-P remarks on the respective data sheet.
  • Xylene, 100% ethanol, 90% ethanol, 80% ethanol and 70% ethanol, 2-propanol
  • Optional: Hematoxylin Solution (Mayer's, Modified) or other nuclear counterstain
  • Optional: Avidin/Biotin Blocking Kit (Vectorlabs cat. no. SP-2001)
  • Non-aqueous mounting medium

Deparaffinization and rehydration

Deparaffinize and hydrate tissue sections

  1. Xylene                   2 x 5 min
  2. 100% EtOH             2 x 2 min
  3. 90% EtOH               1 x 2 min
  4. 80% EtOH               1 x 2 min
  5. 70% EtOH               2 x 2 min
  6. Deionized Water     1 x 20 sec
  7. PBS                        1 x 2 min

Keep the slides in PBS until ready to perform the Antigen Retrieval. Do not allow the slides to dry out.

Antigen Retrieval (using a Food steamer)*

  1. Heat the steamer with a suitable staining container filled with Antigen Retrieval buffer to ~97°C.
  2. Transfer the sections into the staining box, wait until the temperature reaches 97°C.
  3. Incubate the sections in the steamer for 30 min.
  4. Remove the staining container from the steamer and allow the slides to cool down for 20 min (target end temperature ~60°C).


  1. Wash slides in PBS, 3 x 1 min.
  2. Incubate the sections with 3% hydrogen peroxide in PBS (freshly prepared!) for 5 min to block endogenous peroxidase activity.
  3. Wash slides in PBS, 2 x 1 min.
  4. Wash slides in TBST, 1 x 2 min.
  5. Optional: Some antibodies require an additional antigen retrieval step with formic acid. Please check IHC-P remarks on the respective data- or factsheet. If formic acid treatment is required, incubate slides for 3 min in 88% formic acid. Wash slides in TBST, 3 x 1 min.
  6. Optional: Perform Avidin-Biotin-Block according to manufacturer’s instructions.
    Note: Certain tissues (e.g. liver, kidney) contain high levels of endogenous biotin. The Avidin-Biotin blocking step is recommended when using the ABC system for these tissues. If the background problem persists, consider trying a polymer-based detection system instead of biotinylated secondary antibody/ABC system.
  7. Block in Blocking buffer for 10 min.

Antibody incubation

  1. Drain slides (do not rinse).
  2. Apply primary antibody diluted in Antibody incubation buffer and incubate in a humidified chamber for 1 h at room temperature.
  3. Wash slides in TBST, 3 x 2 min.
  4. Apply secondary antibody diluted in Antibody incubation buffer for 30 min at room temperature.
  5. In the meantime prepare the ABC-reagent: 5 ml PBS + 1 drop A + 1 drop B and incubate for 30 min.
  6. Apply the ABC reagent for 30 min at room temperature.
  7. Wash slides in TBST, 3 x 2 min.

Chromogenic detection with DAB

  1. Apply the DAB substrate for 1 - 10 min.
    Note: Observe the staining with a microscope! Development times may differ depending upon the level of antigen.
  2. Stop the DAB reaction with deionized water.

Counterstain (optional)

  1. Follow the manufacturer’s instructions for counterstaining and bluing.
  2. Wash slides in deionized water for 1 min.

Dehydration and mounting

  1. 70% EtOH               2 x 10 sec
  2. 80% EtOH               1 x 10 sec
  3. 90% EtOH               1 x 10 sec
  4. 2-Propanol             3 x 1 min
  5. Xylene                   3 x 2 min

Mount slides in a suitable organic mounting medium and add coverslip.


*For an alternative Antigen Retrieval protocol using a waterbath check protocol-ihc-paraffin-fluorescent.

Note: The SYSY standard protocol generates good staining results in the SYSY labs and may be used as suggestion. However, to achieve the highest specific signal and lowest non-specific background signal, the best antigen retrieval condition, antibody concentration, incubation temperature and incubation time must be determined individually.