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Research: Transcriptomic landscape of transposable elements reveals LTR7-PLAAT4 as a potential oncogene and therapeutic target in pancreatic adenocarcinoma
- Meilong Shi,
- Chuanqi Teng,
- Shan Zhang,
- Xiaobo He,
- Lingyun Xu,
- Fengxian Han,
- Rongqi Wen,
- Ganjun Yu,
- Jingwen Liu,
- Yang Feng,
- Yanfeng Wu,
- Yan Ren,
- Gang Jin,
- and Jing Li
Genome Res. February 2026 36: 275-290; Published in Advance January 8, 2026, doi:10.1101/gr.280528.125
...remain underexplored. One study stratified pancreatic ductal adenocarcinoma into two distinct subgroups based on specific DNA elements, such as transposable elements (TEs), although it was limited by the use of labor-intensive FACS sorting with small sample sizes (Espinet et al. 2021). TEs exhibit...
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Research: Whole-exome sequencing of human pancreatic cancers and characterization of genomic instability caused by MLH1 haploinsufficiency and complete deficiency
- Linghua Wang,
- Shuichi Tsutsumi,
- Tokuichi Kawaguchi,
- Koichi Nagasaki,
- Kenji Tatsuno,
- Shogo Yamamoto,
- Fei Sang,
- Kohtaro Sonoda,
- Minoru Sugawara,
- Akio Saiura,
- Seiko Hirono,
- Hiroki Yamaue,
- Yoshio Miki,
- Minoru Isomura,
- Yasushi Totoki,
- Genta Nagae,
- Takayuki Isagawa,
- Hiroki Ueda,
- Satsuki Murayama-Hosokawa,
- Tatsuhiro Shibata,
- Hiromi Sakamoto,
- Yae Kanai,
- Atsushi Kaneda,
- Tetsuo Noda,
- and Hiroyuki Aburatani
Genome Res. February 2012 22: 208-219; Published in Advance December 7, 2011, doi:10.1101/gr.123109.111
...pancreatic ductal adenocarcinoma (PDAC)–derived cell lines. This study identified 1517 somatic mutations and validated 934 of them by mRNA-seq. We notably found a significant correlation between MLH1 allelic loss and the increased rate of somatic indel mutations, and we further confirmed this finding...
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Research: L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis
- Stephanie N. Schauer,
- Patricia E. Carreira,
- Ruchi Shukla,
- Daniel J. Gerhardt,
- Patricia Gerdes,
- Francisco J. Sanchez-Luque,
- Paola Nicoli,
- Michaela Kindlova,
- Serena Ghisletti,
- Alexandre Dos Santos,
- Delphine Rapoud,
- Didier Samuel,
- Jamila Faivre,
- Adam D. Ewing,
- Sandra R. Richardson,
- and Geoffrey J. Faulkner
Genome Res. May 2018 28: 639-653; Published in Advance April 11, 2018, doi:10.1101/gr.226993.117
...and polyadenylation signals and can interfere with RNA polymerase processivity, particularly when oriented in sense relative to the interrupted gene (Perepelitsa-Belancio and Deininger 2003; Han et al. 2004; Belancio et al. 2008). Furthermore, L1 insertions are occasionally associated with deletions...
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Method: RNA sequencing of Sleeping Beauty transposon-induced tumors detects transposon-RNA fusions in forward genetic cancer screens
- Nuri A. Temiz,
- Branden S. Moriarity,
- Natalie K. Wolf,
- Jesse D. Riordan,
- Adam J. Dupuy,
- David A. Largaespada,
- and Aaron L. Sarver
Genome Res. January 2016 26: 119-129; Published in Advance November 9, 2015, doi:10.1101/gr.188649.114
.... The deubiquitinase USP9X suppresses pancreatic ductal adenocarcinoma. Nature 486: 266–270. Quinlan AR, Hall IM. 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26: 841–842. R Core Team. 2012. R: a language and environment for statistical computing. R Foundation...

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