The history of primary infection of EBV in keratinocytes

2006/10

Molecular and cytogenetic changes involved in the immortalization of nasopharyngeal epithelial cells by telomerase (the link to NCBI)

2008/10/10

根據這一篇, 那送EBV進入NP460h-hTERT不就等同於把EBV關禁閉? 另外Dr.George Miller有篇在J.Virol.Methods(2006)的文章,看起來像是一位MD/PhD的學生做的。他以兩位IM病人血清(富含各種anti-EBV抗體)去分離經NaB處理過的P3HR1(HH514)細胞。分什麼呢?分那些在走lytic cycle和不被NaB活化的HH514。分下來後的細胞再送回去petri-dish養。結果發現走lytic cycle的細胞無一存活、而沒有induce的細胞可以再被養回來,而且induction rate隨著時間增加而增加。很有意思的一篇文章。George大學是學歷史的,非常會寫文章,邏輯性很強而且要言不贅,讀他的paper總覺得能做science真好。

LabLog-柏廷篇

LogID	Title	Initial	Date
AE801	Compare Serum folate concn in OPMD patient and summary MAF in SNPs of folate-mediated one carbon metabolism	PTL	2015/11/9
AE802	Calculate and compare the MAF of rs1801133 and rs1801131 from sample	PTL	2015/11/13
AE803	Calculate and compare the MAF of rs2274976, rs1805087, rs1801394 and rs1979277 from sample	PTL	2015/11/17
AE804		PTL
AE805		PTL

#1由 poting 在 三, 11/11/2015 - 09:14 發表。

修改完畢

老師 我已經修改完畢了

#2由 poting 在 一, 11/09/2015 - 12:06 發表。

AE801 result

•FTEST=0.039 < 0.05      Variance between control and OPMD

•P=0.067 > 0.05               No significant difference  

IRB 問與答 2014年題庫

IRB 問與答 2014年題庫 由 sufang 在 二, 06/09/2015 - 09:09 發表  Oral Cancer   IRB   Oral Cancer

Su-Fang Lin <sflin1@gmail.com> Jun 5 Reply to 張書銘, 陳雅雯, 江士昇, 夏興國 
Dear All,

我PP計畫的IRB審查回來了, 兩個reviewer都有一點問題. 總評皆為「修正後推薦」。想請問大家先前有沒有碰到類似的問題, 其正解為何? 先謝謝大家的幫忙!  之後如果大家不介意的話, 我們是不是把各自的問題集合在一起、弄成一本題庫? 具IRB同仁說 送出去的審委不一樣、同樣的申請件, 碰到的問題都不一樣。  Thanks again!  Su-Fang (ext 35107)   (餘刪, 見下6/8回覆)

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Ya-Wen Chen Jun 5 Reply to me, 張書銘, 江士昇, 夏興國 

以下是我遇到的問題及回答, 素芳的問題與我的問題有相似, 重點是(簡易審查核對表)提及使用合法生物資料庫..
簡易審查核對表我更改成接續前階段研究之後續資料分析(湘如建議).
 

EBV and NGS

由 sufang 在 四, 06/04/2015 - 13:38 發表  Pre-published   EVKV   NGS

3552_2012_12_Whole genome sequencing of the Akata and Mutu Epstein-Barr virus (EBV) strains.pdf

3577_2011_11_Direct sequencing and characterization of a clinical isolate of Epstein-Barr virus from nasopharyngeal carcinoma tissue by using next-generation sequencing technology

3964_2014_02_Integrated mRNA and microRNA transcriptome sequencing characterizes sequence variants and mRNA–microRNA regulatory network in nasopharyngeal carcinoma model systems

2015/05 Methylation Marker Paper from JAMA Oncology

Correlation of Smoking-Associated DNA Methylation Changes in Buccal Cells With DNA Methylation Changes in Epithelial Cancer JAMA Oncol. Published online May 14, 2015. doi:10.1001/jamaoncol.2015.1053

Andrew E. Teschendorff, PhD^1,2; Zhen Yang, PhD²; Andrew Wong, PhD^3; Christodoulos P. Pipinikas, PhD⁴; Yinming Jiao, MSc²; Allison Jones, BSc⁵; Shahzia Anjum, PhD⁵; Rebecca Hardy, PhD³; Helga B. Salvesen, MD⁶; Christina Thirlwell, PhD⁴; Samuel M. Janes, PhD⁷; Diana Kuh, PhD³; Martin Widschwendter, MD⁵

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At a Glance

¶ The purpose of the research was to assess the suitability of buccal cells as an epithelial source of tissue to examine the effects of smoking on the epigenome, and to test whether these effects are also seen in smoke-related epithelial cancers.

¶ Smoking is associated with widespread changes in the DNA methylation landscape of buccal cells.

¶ Some smoking-associated DNA methylation changes are common to buccal and blood tissue, but buccal cells exhibit significantly more changes than blood cells.

¶ Smoking-associated DNA methylation changes in buccal cells correlate with DNA methylation changes in epithelial cancers and do so most strongly in smoke-related epithelial cancer.

2016/105年待辦事項

2016/105年待辦事項

由 sufang 在 三, 05/27/2015 - 08:45 發表 Pre-published Gene Fusion HOK Lin Lab Oral Cancer

Paper Submission

宛樺: DDR1 overexpression in OSCC 

嬿如: EBV Rta mediated DNA methylation in the host genome

 

FGFR Gene Fusion related (玉蓮、奕宏)

1. FGFR2 gene fusion in cholangiocarcinoma (Post 連結)

2. FGFR3 gene fusion in oral cancer (Post 連結)

 

Carcinogen induced epigenetic transformation in human oral keratinocytes (嬿如、英潔)

1. Molas analysis of RNA-Seq data (Post 連結)

2. MTHFR SNPs and epigenetic transformation

3. Develop methylation markers for head and neck patients

 

Mutational landscape of cholangiocarcinoma (Post 連結)

 

Mutational landscape of OSPCC and Oral Cancer (Post 連結)

 

Grant Proposal and Report

1. 104-CAPP05

    月報 x 12 (in progress)

    期中報告 (done by 佩瑩)

    期末報告

2. 105-CAPP  執行與考核點設定

3. 106-CAPP  計畫書撰寫

4. MOHW 衛福部OPMD計畫

    實驗進行 (記得送OSCC DNA給Jeffrey Lab. 一併測試MTHFR)

5. 105-MOST 科技部計畫 (11月中 call for proposal)

6. 105-MOST PPG (LOI submitted)

Reading Notes

Wiki  Biological action (2015/05/17)

In many Asian cultures, the areca nut is chewed along with betel leaf to obtain a stimulating effect. Arecoline is the primary active ingredient responsible for the central nervous system effects of the areca nut. Arecoline has been compared to nicotine; however, nicotine acts primarily on the nicotinic acetylcholine receptor. Arecoline is known to be a partial agonist of muscarinic acetylcholine M1, M2, M3 receptors and M4 which is believed to be the primary cause of its parasympathetic effects (such as pupillary constriction, bronchial constriction, etc.).

LD50: 100 mg/kg, administered subcutaneously in mouse.

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2015/05/25

pdf 4377 2014-Feb New nucleophilic mechanisms of ROS-dependent epigenetic modifications: comparison of aging and cancer

Igor Afanas'ev Vitamine Research Institute, Moscow, Russia, Poetom Portugal

ROS-induced DNA Methylation in Cancer 共舉12例

2015-05-05 Journal Club

各位老師學長學姊大家好:

我是下周二要在journal club報告的學生-Yi-Hong

題目:

Massive parallel sequencing uncovers actionable ​FGFR2–​PPHLN1 fusion and ​ARAF mutations in intrahepatic cholangiocarcinoma

本文文章

supplementary information

RBBS

RBBS
由 sufang 在 三, 04/01/2015 - 09:00 發表 Pre-published RBBS

須細讀, 台大擬用此法screen HNSCC patients.

Start: 04/01/2015

2015-04-21 Journal Club Paper

大家好: 這篇是我下周要報的paper

感謝!

OSCC Cell Line STR information 20150312 更新版

OSCC Cell Line STR information 20150312 更新版
由 sufang 在 一, 03/30/2015 - 08:45 發表 Oral Cancer OSCC Cell Line STR analysis

Dear all,

更新oral cancer相關細胞株之STR資訊
共有16個細胞株, 其中DOK, FaDu, HOK, HSC-3, KB, OEC-M1, SCC-15, SCC-9, Tu-183(共9株)有送件STR的資訊(詳如附件)
須請大家注意的資訊如下:
1. HSC-3, 於Dr.郭靜娟's lab的新HSC-3為真, 請非此來源者把舊的細胞扔了吧! (p.s Dr. 李岳倫於2014年7月及9月分別定的STR結果同新HSC-3, 推測亦為可用細胞株)
2. KB, 於Dr.郭靜娟's lab定STR結果為HeLa細胞, ATCC/JCRB資料庫也證明KB為HeLa. 請勿使用此細胞株!
3. SCC-15, Dr.李岳倫's lab 於2014年9月及10月分別定的STR結果皆與SAS細胞株相符(90.9% match), 使用此細胞株請小心!
4. Tu-183, 於Dr.江士昇's lab於2014年12月所定STR結果未比對到現今資料庫中任何細胞株, 推測可能為可用細胞株. 但Dr. 江提供資訊:expression pattern與預期不同, 大家使用此細胞株請小心!

以上,
如有問題或錯誤的地方, 敬請不吝指正! 謝謝!

敬祝 研究順利

嬿如 敬上

原檔按我下載 (2015_0320_cell_lines_str_information20150312ding_gao.xlsx)

大家講過的Paper大全

2015/03/24 陳貞佩

Monensin inhibits epidermal growth factor receptor trafficking and activation: synergistic cytotoxicity in combination with EGFR inhibitors

2015/03/10 楊韻涵 

NRF2-driven miR-125B1 and miR-29B1 transcriptional regulation controls a novel anti-apoptotic miRNA regulatory network for AML survival

2015/02/10 王思涵

Exosomes mediate stromal mobilization of autocrine Wnt-PCP signaling in breast cancer cell migration 

2015/01/06 小嬿

RFTS-deleted DNMT1 enhances tumorigenicity with focal hypermethylation and global hypomethylation