Failure Case Library

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

All Techniques (8) 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)
Cell Culture (Cell Death) severe

Cell Death from CO₂/pH Imbalance in Bicarbonate Buffer

Cells show progressive death over 24-48 hours with media color shift (phenol red turning yellow or purple). Cells exhibit membrane damage and eventual lysis despite sterile conditions.

💡 5 causes ✓ 5 fixes
Cell Culture (Cell Death) moderate

Photooxidative Cell Death from Fluorescent Light Exposure

Cells cultured near fluorescent lights or windows show increased death rates, membrane blebbing, and oxidative stress markers. HEPES-buffered media particularly affected.

💡 4 causes ✓ 5 fixes
Cell Culture (Cell Death) moderate

Contact Inhibition and Nutrient Depletion Cell Death

Cultures exceeding 80-100% confluence show central necrosis, detachment of cell sheets, and debris accumulation. Media becomes acidic (yellow) and depleted.

💡 4 causes ✓ 5 fixes
Cell Culture (Cell Death) severe

Cell Death from Poor Quality or Toxic Reagents

Sudden cell death occurs immediately after introducing new lot of media, serum, trypsin, or buffer. Previously healthy cultures show rapid necrosis or apoptosis within 12-24 hours.

💡 5 causes ✓ 6 fixes
Cell Culture (Cell Death) critical

Cell Death from Bacterial or Fungal Contamination

Media becomes rapidly turbid with visible particles or cloudiness. Cells show signs of toxicity, detachment, and death. Microscopy reveals motile bacteria or fungal filaments. Note: mycoplasma rarely causes acute cell death.

💡 4 causes ✓ 6 fixes
Cell Culture (Cell Death) critical

Cell Death Due to Incubator Temperature Instability

Previously healthy cultures show sudden widespread cell death with membrane blebbing, crenation, and cellular debris. Cell death occurs within hours of incubation.

💡 4 causes ✓ 5 fixes
Cell Culture (Cell Death) moderate

Replicative Senescence After Excessive Passaging

Primary or finite cell lines show progressive slowing of growth, enlarged flattened morphology, failure to reach confluence, and increased spontaneous death after many passages.

💡 4 causes ✓ 5 fixes
Cell Culture (Cell Death) critical

No/Few Viable Cells After Thawing Cryopreserved Stock

Upon thawing cryopreserved cell stocks, researchers observe minimal or no viable cells via trypan blue exclusion or hemocytometer counting. Cells appear non-adherent, crenated, or lysed.

💡 5 causes ✓ 5 fixes