RNA sequencing confirms similarities between PPI-responsive oesophageal eosinophilia and eosinophilic oesophagitis.
RNA sequencing confirms similarities between PPI-responsive oesophageal eosinophilia and eosinophilic oesophagitis.
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DOI：
10.1111/apt.14825
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发表时间：
2018-07
影响因子：
7.6
通讯作者：
Clayton F
中科院分区：
文献类型：
--
作者：
Peterson KA;Yoshigi M;Hazel MW;Delker DA;Lin E;Krishnamurthy C;Consiglio N;Robson J;Yandell M;Clayton F
虽然目前美国指南区分质子泵通道反应性食管嗜酸性粒细胞增多症（PPI-REE）和嗜酸性粒细胞性食管炎（EoE），但这些实体大致相似。虽然两个微阵列研究表明它们具有相似的转录组，但以前没有进行过更广泛的RNA测序研究。确定RNA测序是否识别区分PPI-REE和EoE的遗传标记。我们回顾性地检查了13例PPI-REE和14例EoE活检组织，匹配组织嗜酸性粒细胞含量，以及14例正常对照。患者和对照组在活检时未接受PPI治疗。我们对福尔马林固定、石蜡包埋的组织进行RNA测序，并通过定量PCR确认差异表达。我们验证了福尔马林固定、石蜡包埋与RNAlater保存组织的使用，并将我们的福尔马林固定、石蜡包埋EoE结果与先前的EoE研究进行了比较。通过RNA测序，在FDR ≤0.01水平上，EoE和PPI-REE组之间没有差异表达的基因。与正常对照组相比，PPI-REE组有1996个基因差异表达，EoE组有1306个基因差异表达。通过不太严格的标准，只有MAPK 8IP 2在PPI-REE和EoE之间差异表达（FDR=0.029，EoE中比PPI-REE中低2.2倍），聚合酶链反应（PCR）的结果相似。KCNJ 2在先前的研究中差异表达，通过RNA测序和实时聚合酶链反应在EoE和PPI-REE组中相似。EoE和PPI-REE具有可比的转录组，证实它们是同一疾病连续体的一部分。
Although current American guidelines distinguish proton pump inhibitor-responsive oesophageal eosinophilia (PPI-REE) from eosinophilic oesophagitis (EoE), these entities are broadly similar. While two microarray studies showed that they have similar transcriptomes, more extensive RNA sequencing studies have not been done previously. To determine whether RNA sequencing identifies genetic markers distinguishing PPI-REE from EoE. We retrospectively examined 13 PPI-REE and 14 EoE biopsies, matched for tissue eosinophil content, and 14 normal controls. Patients and controls were not PPI-treated at the time of biopsy. We did RNA sequencing on formalin-fixed, paraffin-embedded tissue, with differential expression confirmation by quantitative PCR. We validated the use of formalin-fixed, paraffin-embedded versus RNAlater-preserved tissue, and compared our formalin-fixed, paraffin-embedded EoE results to a prior EoE study. By RNA sequencing, no genes were differentially expressed between the EoE and PPI-REE groups at the FDR ≤0.01 level. Compared to normal controls, 1996 genes were differentially expressed in the PPI-REE group and 1306 genes in the EoE group. By less stringent criteria, only MAPK8IP2 was differentially expressed between PPI-REE and EoE (FDR=0.029, 2.2-fold less in EoE than in PPI-REE), with similar results by polymerase chain reaction (PCR). KCNJ2, which was differentially expressed in a prior study, was similar in the EoE and PPI-REE groups by both RNA sequencing and real-time polymerase chain reaction. EoE and PPI-REE have comparable transcriptomes, confirming that they are part of the same disease continuum.
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影响因子：
24.5
作者：
Cheng E;Zhang X;Huo X;Yu C;Zhang Q;Wang DH;Spechler SJ;Souza RF
通讯作者：
Souza RF
影响因子：
24.5
作者：
Molina-Infante J;Bredenoord AJ;Cheng E;Dellon ES;Furuta GT;Gupta SK;Hirano I;Katzka DA;Moawad FJ;Rothenberg ME;Schoepfer A;Spechler SJ;Wen T;Straumann A;Lucendo AJ;PPI-REE Task Force of the European Society of Eosinophilic Oesophagitis (EUREOS)
通讯作者：
PPI-REE Task Force of the European Society of Eosinophilic Oesophagitis (EUREOS)
DOI：
10.1038/ajg.2013.363
发表时间：
2013-12
期刊：
The American journal of gastroenterology
影响因子：
--
作者：
Dellon ES;Speck O;Woodward K;Gebhart JH;Madanick RD;Levinson S;Fritchie KJ;Woosley JT;Shaheen NJ
通讯作者：
Shaheen NJ
影响因子：
7.7
作者：
Wang, Jason;Park, Jason Y.;Cheng, Edaire
通讯作者：
Cheng, Edaire
影响因子：
7.6
作者：
Iwakura, N.;Fujiwara, Y.;Arakawa, T.
通讯作者：
Arakawa, T.