Esophageal Adenocarcinoma Methods and Protocols

216 Gene Implications in esophageal adenocarcinoma Ref. TLR4 Toll-like receptor 4 (TLR4) is mutated in 6% of esophageal adenocar ...

217 nocarcinoma as compared to Barrett esophagus [ 8 ] while SMAD4 mutation was only observed in esophageal adenocarcinoma and n ...

218 disease-causing genetic variant identification [ 28 ], and examina- tion of targeted genomic regions with large sample sizes ...

219 DNase-free filtered tips (10, 20, 200 and 1000 μL). Electrophoresis gel tank system and agarose gel caster with well comb. ...

220 Thermal cycler. Microcentrifuge machine. Gel imager/transilluminator. Gel cutter. Gel cleanup kit. Dry bath. Nanospectropho ...

221 Non-template control must be used in all assays to ensure that there is no cross contamination (see Note 7). Top up with DN ...

222 With the help of a gel cutter, slice out the band with the approximately desired band size and transfer it into a micro- ce ...

223 Load sample onto genetic analyzer. Select the capillary length, number of capillaries, and polymer type according to the in ...

224 Fig. 4 Example of a single nucleotide mutation found through Sanger sequencing. In the tumor sequence, a change from a C to ...

225 4 Notes PCR hood should be exposed to ultraviolet light for 25 min prior to using it. Master reaction mixture is all the re ...

226 Amplicons that are less than 500 bp can be run with a shorter extension time (for example 2 min). dNTPs, salts, and unincor ...

227 mous cell carcinomas and esophageal adenocar- cinomas reveals similarities and differences. Oncologist 20(10):1132–1139. htt ...

228 Lee SH, Zhou S, Zhou T, Hong G (2016) Sanger sequencing for BRCA1 c.68_69del, BRCA1 c.5266dup and BRCA2 c.5946del mutation ...

229 of the esophagus and of the gastric cardia. Am J Pathol 158(1):33–40. https://doi. org/10.1016/s0002-9440(10)63941-7 Onwueg ...

231 Alfred K. Lam (ed.), Esophageal Adenocarcinoma: Methods and Protocols, Methods in Molecular Biology, vol. 1756, https://doi. ...

232 Sequencing of the whole human genome or determination of the complete DNA sequence of an organism’s genome at a single time ...

233 genes in this cancer [ 8 ]. In addition, it comes with considerably less price than whole-genome sequencing [ 10 ]. Agrawal ...

234 in esophageal adenocarcinoma making this technology a possibil- ity for clinical use and provides patient-specific informati ...

235 Ion AmpliSeq™ Adapters. Platinum™ PCR Super Mix High Fidelity. Library Amplification Primer Mix. Low TE. Barcode Adapters Ki ...

236 Ion Chip™ Minifuge. Tank of compressed nitrogen. Glass bottle (1 L). NaOH (10 M). 96-Well Thermal Cycler. Fluorometer (Qubit ...