Bass BP, Engel KB, Greytak SR, Moore HM (2014) A review of preanalytical factors affecting molecular, protein, and morphological analysis of formalin-fixed, paraffin-embedded (FFPE) tissue: how well do you know your FFPE specimen? Arch Pathol Lab Med 138(11):1520–1530. https://doi.org/10.5858/arpa.2013-0691-RA

Article  PubMed  Google Scholar 

Berrino E, Annaratone L, Miglio U, Maldi E, Piccinelli C, Peano E, Balmativola D, Cassoni P, Pisacane A, Sarotto I, Venesio T, Sapino A, Marchio C (2020) Cold formalin fixation guarantees DNA integrity in formalin fixed paraffin embedded tissues: premises for a better quality of diagnostic and experimental pathology with a specific impact on breast cancer. Front Oncol 10:173. https://doi.org/10.3389/fonc.2020.00173

Article  PubMed  PubMed Central  Google Scholar 

Bettoni F, Koyama FC, de Avelar CP, Galante PAF, Camargo AA, Asprino PF (2017) A straightforward assay to evaluate DNA integrity and optimize next-generation sequencing for clinical diagnosis in oncology. Exp Mol Pathol 103(3):294–299. https://doi.org/10.1016/j.yexmp.2017.11.011

Article  CAS  PubMed  Google Scholar 

Bragoni A, Gambella A, Pigozzi S, Grigolini M, Fiocca R, Mastracci L, Grillo F (2017) Quality control in diagnostic immunohistochemistry: integrated on-slide positive controls. Histochem Cell Biol 148(5):569–573. https://doi.org/10.1007/s00418-017-1596-y

Article  CAS  PubMed  Google Scholar 

Bussolati G, Annaratone L, Medico E, D’Armento G, Sapino A (2011) Formalin fixation at low temperature better preserves nucleic acid integrity. PLoS ONE 6(6):e21043. https://doi.org/10.1371/journal.pone.0021043

Article  CAS  PubMed  PubMed Central  Google Scholar 

Cappello F, Angerilli V, Munari G, Ceccon C, Sabbadin M, Pagni F, Fusco N, Malapelle U, Fassan M (2022) FFPE-based NGS approaches into clinical practice: the limits of glory from a pathologist viewpoint. J Pers Med. https://doi.org/10.3390/jpm12050750

Article  PubMed  PubMed Central  Google Scholar 

Carlin L, Paudice M, Ingaliso M, Pigozzi S, Trevisan L, Sciallero S, Pastorino A, Piol N, Grillo F, Mastracci L (2023) Synchronous and metachronous primary colorectal cancers with concordant and discordant mismatch repair status. Hum Pathol 141:54–63. https://doi.org/10.1016/j.humpath.2023.09.003

Article  CAS  PubMed  Google Scholar 

Chafin D, Theiss A, Roberts E, Borlee G, Otter M, Baird GS (2013) Rapid two-temperature formalin fixation. PLoS ONE 8(1):e54138. https://doi.org/10.1371/journal.pone.0054138

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chung JY, Braunschweig T, Hewitt SM (2006) Optimization of recovery of RNA from formalin-fixed, paraffin-embedded tissue. Diagn Mol Pathol 15(4):229–236. https://doi.org/10.1097/01.pdm.0000213468.91139.2d

Article  CAS  PubMed  Google Scholar 

Dang Q, Zuo L, Hu X, Zhou Z, Chen S, Liu S, Ba Y, Zuo A, Xu H, Weng S, Zhang Y, Luo P, Cheng Q, Liu Z, Han X (2024) Molecular subtypes of colorectal cancer in the era of precision oncotherapy: current inspirations and future challenges. Cancer Med 13(14):e70041. https://doi.org/10.1002/cam4.70041

Article  CAS  PubMed  PubMed Central  Google Scholar 

De Rosa CM, Ozzello L, Greene GL, Habif DV (1987) Immunostaining of estrogen receptor in paraffin sections of breast carcinomas using monoclonal antibody D75P3 gamma: effects of fixation. Am J Surg Pathol 11(12):943–950. https://doi.org/10.1097/00000478-198712000-00004

Article  PubMed  Google Scholar 

Didelot A, Kotsopoulos SK, Lupo A, Pekin D, Li X, Atochin I, Srinivasan P, Zhong Q, Olson J, Link DR, Laurent-Puig P, Blons H, Hutchison JB, Taly V (2013) Multiplex picoliter-droplet digital PCR for quantitative assessment of DNA integrity in clinical samples. Clin Chem 59(5):815–823. https://doi.org/10.1373/clinchem.2012.193409

Article  CAS  PubMed  Google Scholar 

Do H, Dobrovic A (2015) Sequence artifacts in DNA from formalin-fixed tissues: causes and strategies for minimization. Clin Chem 61(1):64–71. https://doi.org/10.1373/clinchem.2014.223040

Article  CAS  PubMed  Google Scholar 

Feldman MY (1973) Reactions of nucleic acids and nucleoproteins with formaldehyde. Prog Nucleic Acid Res Mol Biol 13:1–49. https://doi.org/10.1016/s0079-6603(08)60099-9

Article  CAS  PubMed  Google Scholar 

Gambella A, Porro L, Pigozzi S, Fiocca R, Grillo F, Mastracci L (2017) Section detachment in immunohistochemistry: causes, troubleshooting, and problem-solving. Histochem Cell Biol 148(1):95–101. https://doi.org/10.1007/s00418-017-1558-4

Article  CAS  PubMed  Google Scholar 

Gambella A, Scabini S, Zoppoli G, De Silvestri A, Pigozzi S, Paudice M, Campora M, Fiocca R, Grillo F, Mastracci L (2022) HLA-G as a prognostic marker in stage II/III colorectal cancer: not quite there yet. Histochem Cell Biol 158(6):535–543. https://doi.org/10.1007/s00418-022-02141-w

Article  CAS  PubMed  PubMed Central  Google Scholar 

Grillo F, Ali M, Paudice M, Pigozzi S, Anselmi G, Scabini S, Sciallero S, Piol N, Mastracci L (2023a) Impact of formalin fixation on mismatch repair protein evaluation by immunohistochemistry. Virchows Arch 483(5):677–685. https://doi.org/10.1007/s00428-023-03661-z

Article  CAS  PubMed  PubMed Central  Google Scholar 

Grillo F, Paudice M, Gambella A, Bozzano S, Sciallero S, Puccini A, Lastraioli S, Dono M, Parente P, Vanoli A, Angerilli V, Fassan M, Mastracci L (2023b) Evaluating mismatch repair deficiency in colorectal cancer biopsy specimens. Histochem Cell Biol 160(2):113–125. https://doi.org/10.1007/s00418-023-02202-8

Article  CAS  PubMed  PubMed Central  Google Scholar 

Grillo F, Angerilli V, Parente P, Vanoli A, Luchini C, Sciallero S, Puccini A, Bergamo F, Lonardi S, Valeri N, Mastracci L, Fassan M (2024a) Prevalence and type of MMR expression heterogeneity in colorectal adenocarcinoma: therapeutic implications and reporting. Virchows Arch 485(1):131–135. https://doi.org/10.1007/s00428-023-03726-z

Article  CAS  PubMed  Google Scholar 

Grillo F, Paudice M, Pigozzi S, Dono M, Lastraioli S, Lugaresi M, Bozzano S, Tognoni C, Ali M, Sciallero S, Puccini A, Fassan M, Mastracci L (2024b) BRAF(V600E) immunohistochemistry can reliably substitute BRAF molecular testing in the Lynch syndrome screening algorithm in colorectal cancer. Histopathology 84(5):877–887. https://doi.org/10.1111/his.15133

Article  PubMed  Google Scholar 

Guyard A, Boyez A, Pujals A, Robe C, Tran Van Nhieu J, Allory Y, Moroch J, Georges O, Fournet JC, Zafrani ES, Leroy K (2017) DNA degrades during storage in formalin-fixed and paraffin-embedded tissue blocks. Virchows Arch 471(4):491–500. https://doi.org/10.1007/s00428-017-2213-0

Article  CAS  PubMed  Google Scholar 

Hedegaard J, Thorsen K, Lund MK, Hein AM, Hamilton-Dutoit SJ, Vang S, Nordentoft I, Birkenkamp-Demtroder K, Kruhoffer M, Hager H, Knudsen B, Andersen CL, Sorensen KD, Pedersen JS, Orntoft TF, Dyrskjot L (2014) Next-generation sequencing of RNA and DNA isolated from paired fresh-frozen and formalin-fixed paraffin-embedded samples of human cancer and normal tissue. PLoS ONE 9(5):e98187. https://doi.org/10.1371/journal.pone.0098187

Article  CAS  PubMed  PubMed Central  Google Scholar 

Karapetis CS, Khambata-Ford S, Jonker DJ, O’Callaghan CJ, Tu D, Tebbutt NC, Simes RJ, Chalchal H, Shapiro JD, Robitaille S, Price TJ, Shepherd L, Au HJ, Langer C, Moore MJ, Zalcberg JR (2008) K-ras mutations and benefit from cetuximab in advanced colorectal cancer. N Engl J Med 359(17):1757–1765. https://doi.org/10.1056/NEJMoa0804385

Article  CAS  PubMed  Google Scholar 

Kennedy-Darling J, Smith LM (2014) Measuring the formaldehyde protein-DNA cross-link reversal rate. Anal Chem 86(12):5678–5681. https://doi.org/10.1021/ac501354y

Article  CAS  PubMed  PubMed Central  Google Scholar 

Lamy A, Blanchard F, Le Pessot F, Sesboue R, Di Fiore F, Bossut J, Fiant E, Frebourg T, Sabourin JC (2011) Metastatic colorectal cancer KRAS genotyping in routine practice: results and pitfalls. Mod Pathol 24(8):1090–1100. https://doi.org/10.1038/modpathol.2011.60

Article  CAS  PubMed  Google Scholar 

Lerch ML, Kenerson HL, Chafin D, Westerhoff M, Theiss A, Otter M, Yeung RS, Baird GS (2020) Effe