Failure Case Library

Real lab failures, root causes, and fixes — curated and bilingually annotated by our team.

All Techniques (9) Nucleic Acid Quantification (9) Lipid Transfection (8) End-point PCR Primers (9) Cell Culture (Contamination) (7) PCR (Sigma Guide) (12) Flow Cytometry (Controls) (8) PCR / qPCR Plastics (9) PCR (Invitrogen Guide) (8) Cell Culture (Precipitates) (6) Cell Culture (Cell Death) (8) ELISA (Sigma Guide) (6) PCR / RT-PCR Amplification Problems (5) Flow Cytometry (Paraformaldehyde Fixation) (14) Flow Cytometry (Sample Considerations) (14) ELISA (R&D Guide) (10) Western Blot Immunodetection (19) Flow Cytometry (CST Guide) (8) Immunohistochemistry (CST Guide) (14) Immunoprecipitation (CST Guide) (14) ChIP (CST Guide) (8) ELISA Development (9) Western Blot (Sigma Protocol) (8) IP-Western Blot (6) Western Blot (CST Guide) (8) Flow Cytometry (Fixation Buffers) (7) Flow Cytometry (Isotype Controls) (7) Flow Cytometry (Fixation & Permeabilization) (9) Flow Cytometry (Fc Blocking) (7) Flow Cytometry (Compensation) (7) Flow Cytometry (Autofluorescence) (7) Flow Cytometry (Troubleshooting) (8) Tissue Imaging (Autofluorescence) (9) ELISPOT (8) Immunoprecipitation (Protein Obstruction) (1) Immunoprecipitation (No Protein Detected) (5) Immunoprecipitation (High Background) (8) Immunoprecipitation (High Antibody Elution) (1) Immunohistochemistry (No Staining) (9) Immunohistochemistry (High Background) (9) ChIP (PCR Amplification Problems) (4) ChIP (Low Signal) (8) ChIP (Low Resolution with High Background) (6) ChIP (High Background) (1) Western Blot (Blue Background) (1) Western Blot (Unusual Gel Band Appearance) (3) Western Blot (Unexpected Multiple Bands) (7) Western Blot (Misshapen / Uneven Bands) (5) Western Blot (Bands at Wrong MW) (5) Western Blot (Detection Problems) (7) Western Blot (Weak / No Signal) (6) ELISA (Standard Curve Fit Problems) (6) ELISA (Inconsistent Results / High CV) (6) ELISA (High Background) (8) ELISA (Signal Problems) (11) ELISA (Competitive) (18) Cell-free DNA Extraction (8) Bacterial rRNA Depletion (4) RNA Depletion for RNA-seq (7) LAMP (Loop-mediated Isothermal Amplification) (7) HMW DNA Extraction (Monarch) (7) NGS Library Preparation (NEBNext Ultra II) (7) RNA Cleanup (4) DNA Cleanup & Plasmid Purification (7) PCR (Polymerase Chain Reaction) (26) Restriction Enzyme Digest (13) Western Blot (9) Immunohistochemistry (IHC) (6) Colony Formation Assay (10) Transwell Migration / Invasion Assay (5) qPCR (RT-qPCR) (5) Transfection (8) Plasmid Construction (1) Sanger Sequencing (2) Plasmid Mini-prep (1) Plasmid Construction (Double Digest) (1) Protein Extraction (4) Transfection (Co-transfection) (1) Transfection (siRNA Knockdown) (1) CCK-8 Cell Viability Assay (5) Wound Healing Assay (5)
Immunohistochemistry (High Background) severe

High Background from Insufficient Non-Specific Blocking

Diffuse background staining observed throughout tissue sections in IHC experiments, indicating inadequate blocking of non-specific antibody binding sites.

💡 4 causes ✓ 4 fixes
Immunohistochemistry (High Background) critical

False-Positive Signal from Endogenous Enzyme Activity

High background signal observed when using enzyme-conjugated antibodies (HRP or AP), caused by endogenous alkaline phosphatase or peroxidase activity in tissue generating false-positive results.

💡 4 causes ✓ 4 fixes
Immunohistochemistry (High Background) severe

Over-Amplified Signal with Biotin-Based Detection Systems

Excessive background staining when using amplification techniques or biotin-based detection, either from high signal amplification or endogenous biotin binding to streptavidin/avidin.

💡 4 causes ✓ 4 fixes
Immunohistochemistry (High Background) critical

Mouse-on-Mouse Cross-Reactivity in Tissue Staining

High background when using mouse primary antibodies on mouse tissue, caused by secondary antibody binding to endogenous mouse immunoglobulins and Fc receptors rather than only the primary antibody.

💡 4 causes ✓ 4 fixes
Immunohistochemistry (High Background) severe

High Background from Excessive Antibody Concentrations

Elevated background staining throughout tissue sections due to excessively high concentrations of primary or secondary antibodies leading to non-specific binding.

💡 4 causes ✓ 5 fixes
Immunohistochemistry (High Background) moderate

Non-Specific Binding from Elevated Incubation Temperature

Increased background staining when primary antibody incubation is performed at room temperature, as higher temperatures promote non-specific antibody-tissue interactions.

💡 4 causes ✓ 4 fixes
Immunohistochemistry (High Background) moderate

Edge Artifacts from Tissue Section Drying

Higher background staining concentrated at the edges of tissue sections compared to the center, indicating tissue dehydration during the staining procedure.

💡 4 causes ✓ 5 fixes
Immunohistochemistry (High Background) severe

Autofluorescence from Formaldehyde-Based Fixatives

High fluorescent background signal when using formaldehyde-based fixatives (formalin/PFA) with fluorescent detection, particularly at green wavelengths where these fixatives naturally fluoresce.

💡 4 causes ✓ 4 fixes
Immunohistochemistry (High Background) severe

Residual Reagent Background from Inadequate Washing

Elevated background signal caused by residual fixative or unbound antibodies remaining on tissue sections between procedural steps, producing false-positive staining.

💡 5 causes ✓ 5 fixes