Nested polymerase chain reaction-based HLA class II typing for the unique identification of formalin-fixed and paraffin-embedded tissue

Bateman, A C; Hemmatpour, S; Theaker, J.M.; Howell, W. M.

doi:10.1002/(sici)1096-9896(199702)181:2<228::aid-path727>3.0.co;2-3

Cited by 9 publications

(8 citation statements)

References 24 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…[22][23][24][25] Recently, eg Ota et al 24 showed successful HLA typing in different types of tissue after 24-96 h of formalin fixation, using a PCR-SSOP method for both HLA class I and II typing. This method was also attempted for HLA-typing our samples with no results, which possibly was due to the age of our samples, which may have accumulated more DNA damage.…”

Section: Discussionmentioning

confidence: 99%

“…This method was also attempted for HLA-typing our samples with no results, which possibly was due to the age of our samples, which may have accumulated more DNA damage. Furthermore, in two studies from 1997, Bateman et al, 22,23,25 showed that the PCR-SSP approach could generate HLA typing in formalinfixed paraffin-embedded material. In both studies only HLA class II was determined, and in the first only skin tissue was used with conventional PCR-SSP, whereas in the second a variety of tissues were used, but only totally five samples were run with a nested PCR-SSP.…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

A novel approach for HLA-A typing in formalin-fixed paraffin-embedded-derived DNA

et al. 2014

View full text Add to dashboard Cite

The aim of this study was to establish a novel approach for human leukocyte antigen (HLA)-typing from formalin-fixed paraffin-embedded-derived DNA. HLAs can be a prognostic factor in cancer and have an extensive polymorphism. This polymorphism is predominantly restricted to exons, which encode the peptidebinding domain of the protein. Formalin-fixed paraffin-embedded material is routinely collected in the clinic and therefore a great source of DNA for genetic analyses. However, its low quality due to fragmentation and nucleotide changes has often created obstacles in designing genetic assays. In this study, we amplified the most polymorphic exons of the HLA-A gene, exons 2, 3, and 4, in 16 formalin-fixed paraffin-embedded samples 410 years old. These tissue samples belonged to patients already HLA-typed by peripheral blood samples at the routine laboratory. Acquired amplification products were used for sequencing, which provided enough information to establish an HLA allele. The same method was applied to DNA extracted from peripheral blood from a healthy volunteer with known HLA type. Of the samples, 14/16 (88%) were successfully typed, in one sample only one of the alleles could be determined, and in one sample no allele could be determined. The amplification of the most polymorphic exons of HLA-A was a successful alternative when DNA quality prevented positive results with previously described methods. The method is usable when an HLA type is needed but the patients are deceased and/or no whole blood samples can be collected. It has thus potential to be used in several fields such as the clinic, research, and forensic science.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

A novel approach for HLA-A typing in formalin-fixed paraffin-embedded-derived DNA

et al. 2014

View full text Add to dashboard Cite

show abstract

“…This method has been developed and previously described by our laboratory 2. The second exons within HLA-DRB1, 3, 4, and 5 genes were amplified in the first round PCR and 10 μl of reaction product was run on a 2% agarose gel to estimate DNA yield.…”

Section: Methodsmentioning

confidence: 99%

“…We have assessed the utility of two previously described polymerase chain reaction (PCR) based human leucocyte antigen (HLA) class II genotyping methods1 2 for the investigation of ten potentially mislabelled or contaminated gastrointestinal biopsy cases. Both methods were developed within our laboratory (Histocompatibility and Immunogenetics, Southampton) and were initially derived from routine tissue typing techniques used for bone marrow and solid organ transplantation programmes and disease association studies 3…”

mentioning

confidence: 99%

Polymerase chain reaction based human leucocyte antigen genotyping for the investigation of suspected gastrointestinal biopsy contamination

Bateman

Turner

Theaker

et al. 1999

Gut

View full text Add to dashboard Cite

Background-Mislabelling or contamination of surgical specimens may lead to diagnostic inaccuracy, particularly within gastrointestinal pathology when multiple small mucosal biopsy specimens are commonly taken, and where a tiny fragment of foreign tissue may be indistinguishable from true biopsy material using histological assessment alone. Conclusions-PCR based HLA class II genotyping is a valuable tool for investigating potential contamination or mislabelling within gastrointestinal biopsy specimens and this report has confirmed contamination in seven of ten cases studied. Aims-To

show abstract

“…Due to this exuberant HLA polymorphism and its central role in the immune response, characterisation of this polymorphism within the HLA genes and encoded molecules is of critical importance in the clinical laboratory in both bone marrow and solid organ transplant patient-donor matching and in HLA-disease association studies (Bidwell & Navarrete, 2000). In our laboratory, characterisation of HLA polymorphism has also provided a tool for determination of individual identity during the investigation of potentiallycontaminated or mislabelled surgical biopsy specimens (Bateman et al 1994(Bateman et al , 1996(Bateman et al , 1997.…”

Section: Human Leucocyte Antigen Molecules and Gene Polymorphismsmentioning

confidence: 99%

Symposium on ’Nutrition in the post-genomic era’ Plenary session 4: Genetic variation and diet-related disease

Howell¹,

Calder²,

Grimble

2002

Proc. Nutr. Soc.

Self Cite

View full text Add to dashboard Cite

Re´sume´Parmi les ge`nes dont les produits jouent un rle critique dans la re´gulation de la re´ponse immune, on trouve les familles de ge`nes de l'antige`ne leucocyte humain (ALH) et de la cytokine. Les ge`nes ALH sont les plus polymorphes du ge´nome humain, et ce polymorphisme entraine des diffe´rences fonctionnelles des mole´cules ALH exprime´es, qui se traduit par des diffe´rences individuelles dans la manie`re dont des peptides antige´niques se pre´sentent aux cellules T. De plus, un nombre conside´rable de polymorphismes des ge`nes associe´s a la cytokine ont e´te´ identifie´s, la plupart d'entre eux se produisent au niveau du promoteur de ces ge`nes, ce que dans de nombreux cas se traduit par l'expression diffe´rentielle in vitro de leurs respectifs produits ge´ne´tiques pro- ou anti-inflammatoire. Des polymorphismes ALH particuliers aboutirent a` des associations bien de´finies avec un grand nombre de maladies immunologiquement medie´es, parmi lesquelles quelques-unes avec des facteurs de risque die´te´tique. Par exemple, des individus de ge´notype HLA-DQA1*0501, DQB1*0201 ont un risque deux cent fois plus grand de de´velopper une intole´rance au gluten alimentaire (maladie ce´liaque), et des facteurs additionnels en relation avec l'ALH peuvent influencer le de´veloppement d'un lymphome maligne dans une maladie ce´liaque existante. De mme, des alle`les HLA-DRB1 qui partage une se´quence motive commune constituent le premier facteur de risque ge´ne´tique de l'arthrite rhumatode. L'influence de polymorphismes associe´s a une expression de cytokine diffe´rentiel sur la susceptibilite´ aux maladies pre´sent dans ce moment un grand inte´rt. La plupart de l'attention a e´tait centre´ les associations avec la susceptibilite´ de maladies medie´es immunologiquement be´nignes, parmi eux un grand nombre de maladies de l'intestin. Toutefois, un travail re´cent dans notre laboratoire indique que les polymorphismes de la cytokine peuvent influencer la susceptibilite´ a` certains cancers (ainsi que son pronostic), entre eux le me´lanome de peau maligne et des tumeurs solides qui peuvent tre affecte´s par l'alimentation, comme le cancer de prostate (collaboration avec le CRC/BPG e´tude familial du cancer de prostate Royaume-Uni). De plus, des travails pre´liminaires sugge`rent que la modulation par l'alimentation des niveaux d'expression de certaines cytokines dans des sujets humains peut tre de´pendent du ge´notype.

show abstract

Nested polymerase chain reaction-based HLA class II typing for the unique identification of formalin-fixed and paraffin-embedded tissue

Cited by 9 publications

References 24 publications

A novel approach for HLA-A typing in formalin-fixed paraffin-embedded-derived DNA

A novel approach for HLA-A typing in formalin-fixed paraffin-embedded-derived DNA

Polymerase chain reaction based human leucocyte antigen genotyping for the investigation of suspected gastrointestinal biopsy contamination

Symposium on ’Nutrition in the post-genomic era’ Plenary session 4: Genetic variation and diet-related disease

Contact Info

Product

Resources

About