Sunday, March 30, 2008

GeoTrax !

朋友這幾天送了凡凡一個生日禮物,玩具火車,叫做 GeoTrax。

這一組玩具是中央車站,火車可以搖控前進後退。凡凡超愛的,每天都要玩,白天晚上都要玩,都不會膩。

米奇在車站等著米妮的火車進站,一起搭火車去玩。


軌道可以自己排列組合,凡凡還曉得要「發動」火車。


中央車站附有電梯,讓凡凡研究了好一陣子。


還有用沒用上的橋墩做成。讓火車通過的拱「門」。

三月雜感

這個月花在這兒的時間不多,多虧凡凡,幫我灌了不少水。

I.
這陣子心情大致上很不錯,手上幾個新開展的 projects 看起來應該都有不錯的發展,只是時間不夠,總是顧了這個就落了那個。

II.
這一個禮拜主要的空閒時間都花在那本今天到期的 microscopy 上。心裡有個想法已經好一陣子,microscopy 這幾年發展得十分快速,在生物相關,特別是細胞生物學的進展上,扮演了關鍵的角色。網路上有不少資料完整的 microscopy 網站,其中絕大多數都是與顯微鏡公司相關,因此較偏向於特定的技術或產品。

查了一下,似乎並沒有類似的中文網站,就我的瞭解,在台灣生物相關領域裡,microscopy 並沒有受到足夠的重視,若真有需要,這些原文的網站會是短時間想獲得解答的人極吃力的負擔。

美國各大 institutes 這幾年相繼成立了 image center 之類的 core,不知哪時這趨勢會傳到台灣去。我打算慢慢開始寫一些 microscopy 的文章,可能像上課一樣,由淺至深。一開始或許很淺顯,但我的經驗是往往這些根本對後來新近技術的瞭解有絕對的幫助。

我還在想怎麼弄比較好,時間和自己的懶漫天性大概是我這想法最大的敵人。目前打算另外開一個 blog,文章兩邊都貼,但在另一個專門的 blog 裡會有比較細的分類,可以讓想自修或從 google 過去的人慢慢消化。若只想一路看下去,應該兩邊都差不多。

希望這能幫助在台灣有需要的人,也幫助我自己, in many ways.

III.
禮拜六在 Jeremy lab 的 YQ 的車上聊了一下。YQ 說他這次跟 John Blenis 一起去日本開會。John 是 Cell Biology department 的 PI,說他們那邊很多人都等著看 Marc 幫 SysBio 搞了這麼多錢能玩出甚麼名堂。

這幾年 grant climate 真的是不好,許多大頭的 labs 也有斷炊之虞。因此 CellBio 的人對棄他們而去的 Marc 有這麼多錢可以玩很是不爽。糟的是偏偏我們 department 裡好像也交不出甚麼成績,發的 paper 多是 non-sysbio paper,而 Marc 自己 lab 裡搞 sysbio approach 的幾個人進展也一直都不好。

說實話,我們的 department 應該是目前我知道最 interactive 的 department 了。有無盡的機會可以讓不同領域的人交流,空間規劃也極有利於互動。每個訪客都對此有著極深刻的印象。

感覺問題似乎是在心態跟對問題的思考慣性上,一旦定型便難已更改。這是本來學數學或模型的人最常落入的困境。對任何生物現象都能夠用 equations and models 解釋預測的不切實際幻想 (至少在目前),也常給他們帶來麻煩。至於自視高於 experimentists,視實驗只是驗證他偉大理論的工具一類,就更是未認清現實斷無成功可能了,其中尤以搞數學的最有這類毛病。

我認為至少在目前的 sysbio 上,不同領域的合作還有一段路要走。如果硬要選,我覺得生物學家跨數學物理,會比反過來(目前的趨勢)更有成功的可能。多數人都認為生物門檻低,容易從其它領域跨進來。我的看法是所謂的門檻低是因為沒有辦法有效整理規納成一層層循序理解的系統,最後得靠無法形容的 instinct 或 insight 去判斷,這多半是多年經驗累積粹鍊而成,低門檻後面的路可能更難走。

不論是跨進來還是跨出去,是否有辦法在顧好自己 project 之餘,還能花上可觀的時間在短時間內無法提供任何幫助的它領域上,才是最大的問題。我覺得連 PhD student 都太晚了,要就趁早。

Thursday, March 27, 2008

Jellyfish ?

Someone told me she likes this image, because "amazing how it looks like a Jellyfish! It's really great."



What do you think???

This is a monopolar Hela cells proceeding cytokinesis, where Aurora-B (red) relocates beyond microtubule (green) to the space between microtubules and the cortex.

Wednesday, March 26, 2008

Care Most When Losing It

People sadid you care things most when you are gonna lose it. It's always true to me, although this case is not a big deal.

A long time ago I decided not to waste any chance and time being here. Thus I borrow books from libraries frequently. The problem is, I don't really have time to read them all.



I borrowed this book from Cabot library about 4 months ago and didn't find a chance to read it. Two days ago I got a recall message said it was reserved by someone so I have to return the book within one week. Thus finally I started to read it.

I like microscopy; that is why I borrowed it. After spending two days reading it, I think it is a pretty good book. Too bad that I have to finish it in a hurry. If anyone (especially biologists) also interested in microscopy or like to know something about it. This book could be a very good starting point for it.

Saturday, March 22, 2008

大樹樹與小樹樹

走著走著到了 New Yard,凡凡看到裡面大大小小的樹,很高興地跑去樹旁拍著直說「大樹樹,大樹樹!」,過了一會兒轉頭一看原來自己拍的是棵小樹,立刻改口說「小樹樹,小樹樹!」。弄得連凡凡自己都笑了出來。

不知何故,凡凡會講月亮,但都把太陽叫作「亮亮」。



見到松鼠,便立刻興奮地去追逐松鼠了。

去玩玩



因為新英格蘭這幾天又下雪,凡凡已經三天沒有出去玩了,悶在家裡久了,禮拜六天氣不錯,便直嚷著要「去玩玩」!



帶著凡凡到了 Science Center 前的噴水池,天氣還沒回暖,所以沒有水,只剩下一堆石頭和一群遊客與小朋友在石頭上跳過來跳過去。

凡凡看到了也想學著跳,爬到石頭上奮力一蹬,還是落在腳下的石頭邊,沒法跳到另一塊石頭上去。



Friday, March 21, 2008

The Italian Man Who went to Malta

It's Friday again. Let's have some fun for this glorious day before the sweet weekend.

Many of you probably heard and saw this before. I have this in MP3 file. Someone makes it a clip on YouTube which makes it even funnier.

Thursday, March 20, 2008

My Small Conclusion

Recently I have been actively requesting reagents (constructs/antibodies/stable cell lines) for my researches. Here is my little conclusion based on my experinece so far.

1. It is easier to get reagents from your friends than non-friends.

2. It is easier to get reagents from people outside your field than inside.

3. It is easier to get reagents from well-established labs than junior labs.

4. It is easier to get reagents from famous PIs than infamous ones.

5. It is easier to get reagents from big-names than no-names.

6. It is easier to get reagents from Westerns (America, Europe) than Easterns (Asia, Austrlia)

7. It is easier to get reagents from females than males.

Add more if something new hits me.

Tom's Diner

Talking about Suzanne Vega, one of my favorite song from her - Tom's Diner. The lyrics are cool~~

First heard it when I was a junior high student. Suzanne Vega was one of my favorite female singers. I really like this one, and her other songs such as "Luka".



Live version


Suzanne Vega - Tom's Diner

I am sitting in the morning at the diner on the corner \ I am waiting at the counter for the man to pour the coffee \ And he fills it only halfway and before I even argue, he is looking out the window at somebody coming in

"It is always nice to see you" says the man behind the counter to the woman who has come in she is shaking her umbrella \ And I look the other way as they are kissing their hellos \ I'm pretending nt to see them instead I pour the milk

I open up the paper there's a story of an actor who had died while he was drinking \ It was no one I had heard of \ And I'm turning to the horoscope and looking for the funnies \ When I'm feeling someone watching me and so I raise my head

There's a woman on the outside looking inside \ Does she see me? \ No she does not really see me cause she sees her own reflection \ And I'm trying not to notice that she's hitching up her skirt \ And while she's straightening her stockings her hair has gotten wet

Oh, this rain it will continue through the morning as I'm listening to the bells of the cathedral \ I am thinking of your voice...

And of the midnight picnic once upon a time before the rain began... \ I finish up my coffee \ It's time to catch the train

Tuesday, March 18, 2008

How Lucky We Are

I visit iTune on Monday regularly to download free songs. But usually I won't really listen them immediately. This is a song I downloaded probably months ago but have no chance to listen until this afternoon.

I like this one "How Lucky We Are". Meiko reminds me about Suzanne Vega.



Meiko - How Lucky We Are lyrics

One day we'll get outta this shitty apartment \ One day is all it takes for things to turn around now \ All I know is I got you and you got me, babe

And when that morning comes \ I'll make coffee and you'll read the paper \ We'll talk about our plans \ And I'll keep saying how lucky we are

One day we'll get in the car and drive anywhere we wanna go \ And then we'll stay in a five star, mini-bar, luxury hotel room \ Cuz all I know is I got you and you got me, babe

And when that morning comes \ I'll make coffee and you'll read the paper \ We'll talk about our plans \ And I'll keep saying how lucky we are

How lucky we are, oh oh oh \ How lucky we are, are, are...

One day we'll turn on the tv and we won't see nothing 'bout war \ And when that morning comes \ I'll make coffee and you'll read the paper \ We'll talk about our plans \ And I'll keep saying how lucky we are

How lucky, how lucky we are \ Oh how lucky, how lucky, how lucky we are

--
Live on a Radio show

Sunday, March 16, 2008

滑滑梯

冬天過後的公園大概實在是無趣,凡凡只好自己想新點子玩。

先把沙子裝滿卡車,再用力拖著卡車一起溜下滑梯。




亂紅飛過鞦韆去

下午帶著凡凡去圖書館拿預約的 DVD,經過小公園便帶著凡凡進去玩一陣子。


經過一個冬天,公園裡許多狀況比較差的玩具都被收掉了,少了很多。凡凡東晃西晃大概是覺得找不到東西玩,竟然指著從小到大都不敢玩的鞦韆說他想玩。抱了上去後果然沒有問題,不吵不鬧,輕輕晃一下也 ok,不過要是再晃大力一點,凡凡就不行了。

Friday, March 14, 2008

The Newton of Biology Is Coming to Town


Finally it is the theory lunch given by Franziska!

However, the title is a bit disappointing, too cliche. We expected it would be "equations cure cancer", or something like that.

After all, she gave a good talk. Both Dan and I like it. It was surprisingly not many difficult maths in her study. Everything is simple and first order equation, which makes me wonder what her role is in this project. My feeling is so far she is not fitting well in the bio-field, as an outsider.

The basic idea of her work is the evolution of cancer cells to cancer drug (Gleevec). She mentioned the pattern of decresing and recurring cancer cell numbers, and then tried to explain it by equations.

Anyway, these are not important. The point it she is cute~ Better than the picture I showed here before (but still not even close to Jessica Alba!)



“Dynamics of chronic myeloid leukemia”

Franziska Michor
Computational Biology Center
Memorial Sloan-Kettering Cancer Center

Abstract
CML represents the first human cancer in which molecularly targeted therapy leads to a dramatic clinical response. Imatinib mesylate (Gleevec, STI571) is a potent inhibitor of the BCR-ABL fusion oncogene that drives the leukemia, and induces remission in all stages of the disease. Although CML represents one of the most well studied cancers, several critical questions remain. (i) CML is associated with the BCR-ABL oncogene, but the total number of mutations necessary to initiate the disease is unknown. Is the BCR-ABL oncogene sufficient to cause chronic phase CML? (ii) In most patients imatinib fails to eliminate residual disease, which has been shown to be part of the stem cell compartment. What is the response of leukemic stem cells to imatinib therapy? (iii) A substantial fraction of patients evolves point mutations in the ABL kinase domain leading to treatment failure. What are the dynamics of resistance? (iv) Disease progression has been reported to correlate with an expansion of leukemic stem cells or progenitors. In which cellular compartment do mutations arise that drive progression to blast crisis? (v) The second-generation ABL kinase inhibitors dasatinib and nilotinib are entering clinical trials. What is the dynamics of treatment response to those drugs? In this talk, I will discuss theoretical and experimental approaches to answer these questions.

Thursday, March 13, 2008

Love Your Paper Less

The manuscript you submitted to the journal should be your favorite version - the way to tell the story, the point you wanna make, etc.

However, usually not everyone agrees with you and has their own thought on how the paper should be written.

Then, it comes to a point of decision. Every change you made, it takes one step away from your favorite storyline, and makes you love your paper a bit less.

Words on the street spread really fast. Now we know the identities of two reviewers. Kind of lucky to have a very friendly and helpful one in it.

Sunday, March 9, 2008

約翰哈佛像

學校裡 old yard 的銅像總是觀光客聚集拍照留念的熱門景點,每個到訪的人大概都會去合照一下。

這是第一年還住在 Fenway Park 的時候,冰天雪地到 Cambridge campus 上課隨手拍的。

凡凡在校園旁邊住了快兩年了,連一張合照的相片都沒有,為了補上帶凡凡到了 old yard,只是凡凡實在是不夠高,只好拉到遠遠的地方,合拍入鏡意思一下。


凡凡甚麼也不懂,看到 old yard 一直跑來跑去。




丟球

禮拜天帶凡凡出去玩,風很大,但凡凡堅持要帶著球出去玩。

凡凡現在球也丟得很不錯了,只是風大,一丟上去球就被吹到後面一去不回頭。











Friday, March 7, 2008

Non-Robust Systems

This Friday's theory lunch was about using mathematics to quantify the robustness. Basically, the definition of robustness can be considered as a function of input and output.

After back to the lab, we talked about examples in real lives which are robust and non-robust. Just like biology which is very robust, almost every artificial system needs to be robust to functioning well. Thus it is quite easy to find robust systems around us, but probably not for opposed ones.

I thought about one example - the paper peer-reviewing process actually is a very non-robust system. It's pretty unpredictable. Even for the same manuscript (input) sending to the same journal twice, it is not guaranteed the decisions (output) will be always the same. And even worse, this system is very easy to be interfered by outside perturbations. Say, some powerful PIs directly write or call editors arguing the reviews or decisions.

I think it could be one of the best examples in real lives for non-robust systems .

Wednesday, March 5, 2008

中文托福

這幾天我把讓 search engine 搜尋的功能關閉了,這樣子 Marc 的 video 就不會出現在 google 這些搜尋引擎的結果裡。剛剛去後台把功能重新開啟的時候,發現原來 blogger 新提供了翻譯功能,不過選擇很少,也沒有中文。

這功能讓我想到了一個有關中文托福老笑話,可能很多人都看過聽過了。有些題目有點無聊,有幾題還蠻好笑的。

這裡面的笑點,有親身考過托福的人最能體會,感覺就像是托福考題一樣。

--
你知道中文托福考嗎?
教育部在 4月14日決定 2年內建置首套中文能力測驗制度。
也就是說教部要開辦中文托福考了!
教育部應該要來參考一下這幾題中文能力測驗,
同時舉辦一個全民中文托福考題徵選,
考死那些外國人!

讓外國人也體會一下我們在準備托福時的痛苦。

第一題

男:我給你看李小姐的照片,她的外型很不錯。
女:看你的大頭啦!
從這個女人的談話,我們可以得到什麼結論?

甲、她是腦神經外科醫生。
乙、她比較喜歡那個男人的頭。
丙、她覺得不耐煩且沒有興趣。
丁、這女人在吃醋。

第二題

女:你去臺東玩,覺得如何?
男:臺東好不熱鬧,我玩的好不快樂。
這男人是什麼意思?

甲、臺東人多擁擠,我玩的好不快樂。
乙、臺東很冷清,他很快樂。
丙、臺東很繁榮,他在那很愜意。
丁、臺東很荒涼,他很落漠。

第三題

女:好久不見,你還沒死啊?
男:「恁北」好得很!
這男人在說什麼?

甲、女人的爸爸身體健康。
乙、他的脾氣很好。
丙、他過的不錯。
丁、女人的爸爸過得很好。

第四題

男:你想要看那一台啦?
女:你們家有第四台嗎?
從這個女人的談話,我們可以得到什麼結論?

甲、她希望她家有第四台電視機。
乙、她想看四號頻道。
丙、她想看有線電視。
丁、她想看鎖碼台。

第五題

女:這次的遠東區少棒賽結果如何?
男:結果中華大勝南韓,中華又大敗日本。

這場比賽的結果到底誰是冠軍?

甲、中華。
乙、日本。
丙、南韓。
丁、三隊戰績相同,必須加賽才能分出勝負。

第六題

女:你不喜歡跟我去逛街?
男:對啊!妳現在才知道。

甲、他不喜歡逛街。
乙、他喜歡逛街。
丙、他覺得她早知道。
丁、他自己也不知道。

第七題

女:你跟她見面之後如何?
男:她放我鴿子啦!
由上面這段對話,我們可以得到什麼結論?

甲、他們都很喜歡鳥類。
乙、他們一起去放生。
丙、他覺得她是個不錯的女孩。
丁、他們根本就沒見面。

第八題

男:我們工廠最近連續三個晚上加班趕工!好累喔!
女:你的工作實在太辛苦了!
請問這名男子的工作狀況?

甲、日以繼夜。
乙、夜以繼日。
丙、日夜顛倒。
丁、日積月累。
戊、夜不閉戶。

第九題

女:我們公司上下班都很正常,不會辛苦啦!
男:那我就放心了!
請問這名女子的工作狀況?

甲、朝三暮四。
乙、朝九晚五。
丙、朝令夕改。
丁、三令五申。
戊、日上三竿。

第十題

陳先生:這次比賽我一定會贏你!
吳先生:是喔!最好是這樣啦!
請解釋吳先生的意思。

甲、為陳先生祝福。
乙、替陳先生打氣。
丙、有本事再說。
丁、覺得陳先生贏是最好的結果。

第十一題

男:嗨!我來了!
女:都快一點了ㄟ!
請問女孩說這句話的心情?

甲、高興;男孩早到了。
乙、著急;叫男孩快一點。
丙、興奮;男孩和女孩都快了一點。
丁、生氣;男孩沒有準時到。

第十二題

男:怎麼了?
女:討厭死了!一天到晚都找不到你的人!
這女孩說的話,代表了什麼意思呢?

甲、女孩已經找了男孩一整天。
乙、女孩覺得男孩很難找。
丙、有一天晚上女孩找不到男孩的朋友。
丁、白天和晚上都找不到男孩的朋友。


第十三題

女:你說啊!你到底去了哪裡?
男:我什麼都不會說。
這男孩說的話,是什麼意思?

甲、男孩不會說答案。
乙、男孩不能說答案。
丙、男孩不願說答案。
丁、男孩不應說答案。

第十四題

男:小姐,請問這件衣服怎麼賣?
女:三百,算你八折就好了!

男:二百啦!

女:你二百五啊!
請問最後這件衣服到底多少錢?

甲、六十元。
乙、二百元。
丙、二百四十元。
丁、二百五十元。

第十五題

試想下列問題小姐應該如何回答最正確?

老闆:小姐,請問妳叫什麼?
甲、我叫蔡翠秋,你呢?
乙、你耳朵有問題啊?我沒有叫啊!
丙、來一盤豆干、一碗陽春麵。
丁、我叫天天不應,叫地地不靈。

第十六題

女:哇塞!老闆,你們的臭豆腐好臭喔!
請問老闆應該如何回答最正確?

甲、那妳不要吃啊!
乙、謝謝!大家都這樣說!
丙、對不起,我馬上幫妳換一盤。
丁、不會啊!這很新鮮 !


第十七題

收機鈴響聲。

男:喔!賣卡啊啦!
以下敘述何者不正確?

甲、男子叫對方不要催了。
乙、對方連續打過一次以上的電話給男子。
丙、男子的電話 SIM卡賣掉了。
丁、男子的電話收訊正常。

第十八題

陳先生、吳先生、張先生、趙先生在一起打麻將。

陳:二筒,碰!
吳:可惡!二筒又被你碰掉了!
張:別氣別氣,來片波卡洋芋片啦!

王:我吃!

請問王先生吃了什麼?

甲、二筒。
乙、波卡洋芋片。
丙、上家打出來的牌。
丁、沒吃東西。

第十九題

續上題。

陳:換誰啦!
吳:換我啦!
張:換你就快打啊!每次都是你最慢!

吳:賽給你啦!

請問吳先生做了什麼?

甲、回罵張先生。
乙、打了一張西風。
丙、拉了一坨屎給張先生。
丁、呼了張先生一巴掌。

第二十題

弟弟:我回來了!爸媽呢?
姊姊:在麻將桌上。
根據姊姊的回答,以下敘述何者有誤?

甲、爸爸媽媽在打麻將。
乙、爸爸媽媽坐在椅子上。
丙、爸爸媽媽身旁一定有其他人。
丁、爸爸媽媽在麻將桌上。

Tuesday, March 4, 2008

Dilemma for Requests

When I was in Taiwan, I always thought things are different when you are in a big famous lab asking reagents from others. People would reply you rapidly and generously send you antibodies, plasmids, or cell lines you want.

But, now I am in a big famous lab (as least I think so .. :) ), and things seems to be not any better. Recently I wrote emails to 4 labs asking their GFP constructs of microtubule plus end proteins, to reveal the dark region in the midzone where antibodies cannot penetrate. None of these labs replys.

Initially I was thinking probably there was something wrong in my writing or wording. So I asked Aaron. Aaron said it happens all the time, especially to our lab. Sometime people are busy thus ignored the requests. But most of the time, people in the similar field are just not willing to share their reagents to a lab in top institutes, worry about being out-competited for potential conflicts.

Usually we can easily got reagents from friends, which we have plenty in our fields. But once outside the circle, things become difficult, probabaly more difficult than others, unfortunately.

Seems eventually I have to clone it by myself... sigh...

Monday, March 3, 2008

白裡透紅


小孩子的皮膚真的很好很嫩,凡凡出來跑這麼一下,雙頰馬上就紅了起來,白裡透紅的小白臉。


Sunday, March 2, 2008

打雪仗

中東研究中心的另外一面因為不是向著陽光,所以草坪上還積著雪。


跑到這一面,跟凡凡打起了雪球大戰。凡凡在挨了幾顆雪球後,總算是丟的比較像樣子,至少能夠把雪球往人的方向丟去。

連爬帶滾

冬春之際,新英格蘭的天氣就是下雨降雪出太陽這樣交替輪流著,禮拜六下了大雪,禮拜天就出大太陽了。趁著陽光把凡凡帶出去活動一下。

學校的校園每年不斷向外擴展,在靠近我們住的地方的這一側,去年又有大批民房被學校買了起來,改建了批應該是政府學院地下的地區研究中心。新建的房子都很漂亮,規劃得也很好,凡凡也常來玩。


中東研究中心旁有個向陽的斜坡,昨天的雪在這一面已經全部融光了,露出草皮剛好可以讓凡凡活動。就讓凡凡爬爬這斜坡,不過大概是風太強,走沒兩步就連爬帶滾地滾下去。


多試幾次抓到要領,就好多了,上去之後更好玩地就是從斜坡衝下來,凡凡特愛這個。


衝下來瞬間特寫一

衝下來瞬間特寫二

最後不曉得是累了還是想做日光浴,找到地方就躺了下去,還知道要喬一下位置讓自己舒服一點。

Saturday, March 1, 2008

Free Space on the Internet

Months ago, Ting asked me if I know any free internet space for data storage and/or paper sharing. I said Gmail, but we both agreed it is inconvenient.

I just found a website called eSnips which could be very useful for us. eSnips provides 5GB free space. You could upload and share anything, as long as not over 100MB per file.

Yeah, I know 5GB is not that big...

My microscopy image files so far are over 700GB already, and even FanFan's pictures are about 23GB. However, it is a free 5GB, why not? Or anyone knows other better places?

I have not tried it yet, but plan to do so soon.