l******t
发帖数: 55733 | 1 maven的依赖是递推的，你可以用depenency:tree来看是那个依赖引进来的
m2e可以替代eclipse:eclipse。
repo的位置可以在pom就设定。
sbt用的是ivy。还是mvn就是artifact写法不同。
immediately |
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w**z
发帖数: 8232 | 2 是啊，我们develop 是在mac上，intelij 直接deploy 到jetty 上。 完事了，jenkins
build artifact， deploy 到server 上
。 |
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w**z
发帖数: 8232 | 3 pom.xml 指定dependency， 至于从哪里下载这些dependency artifact， settings.
xml defines the repository location. You can also define it in pom.xml which
is less desirable IMO |
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a*********a
发帖数: 3656 | 4 可悲的就在于此。Apple毁掉里一代人的audio品味，Netflix嘛。。。。。。
没有好的回放设备，Netflix的数据，BR上的数据都无法高质量的回放。
你可以去学习一下数字图像，视频处理，luma upscaling, chroma upscaling有些啥算
法，都是啥复杂度。deinterlace有些啥算法，都是啥复杂度，去posterize有些啥算法
。MPEG2， MPEG4都是有损压缩，解压的软件或硬件，对回放的质量（和原始无损数据
的差别）有直接影响。你说的smart tv，不少连proper deinterlace都做不到。这些都
是单机，24fps的，41ms得送一贞，60fps的17ms得送一贞。解码，渲染算不过来的就
drop frame，dropped frame多了就有judder或tearing。能上什么算法，得看有多大处
理能力以及系统本身的overhead。算法弱了，锐度就不够，或者有artifact。手机屏上
都无所谓，60，70“以上的显示设备，区别就明显了。
我从来都没有否认4k的source data可以比1080的source data效... 阅读全帖 |
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f********x
发帖数: 99 | 5 The world beyond batch: Streaming 101: A high-level tour of modern data-
processing concept
http://radar.oreilly.com/2015/08/the-world-beyond-batch-streami
by Tyler Akidau August 5, 2015
Editor’s note: This is the first post in a two-part series about the
evolution of data processing, with a focus on streaming systems, unbounded
data sets, and the future of big data.
Streaming data processing is a big deal in big data these days, and for good
reasons. Amongst them:
Businesses crave ever more tim... 阅读全帖 |
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r****t
发帖数: 10904 | 6 animate 一些 plot 的话经过视频压缩会有 artifacts 吧.
用很多 plots 做 media 文件也挺麻烦的，要改点啥都要重来一遍。
latex insert 做好的 media文件跟 insert figure 一样，也就是一行，习惯了。不过 ppt 能插入 pdf 动画么？ |
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s**********i
发帖数: 711 | 7
define clarity please.
unless the image is vector, enlarge means you will
see more artifacts. |
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s*l
发帖数: 10 | 8 recently saw an episode on discovery channel about archaeology findings in
Malta, sort of lost confidence on carbon dating methodology, both in the sense
of sample collecting and human interpretation. given am ancient
(pre-history)artifact (building, tools), how it can be accurately dated? for
one case, how scientists dated pyramids? use human remain, ropes, woods? |
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s*****t
发帖数: 1994 | 9 The Voyagers' Message in a Bottle
Credit: Voyager Project, JPL, NASA
Explanation: Launched twenty-five years ago, NASA's Voyager 1 and 2 spacecraft are now
over 10 billion kilometers from the Sun. Still operational, the Voyagers are being tracked
and commanded through the Deep Space Network. Having traveled beyond the outer
planets, these remarkable spacecraft are only the third and fourth human built artifacts to
escape our solar system, following in the footsteps of Pioneer |
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l*****0
发帖数: 299 | 10 Contrast limited adaptive histogram equalization有什么缺点吗？ 处理后的图像
局部都很清晰，听说CLANE也会有limitation和artifacts. 不知哪位高人知道CLAHE不
适用的例子？ |
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l*****0
发帖数: 299 | 11 Thanks a lot for your reply!
Could you provide an image for each case you mentioned (especially over-
enhancement of noise)?
I did see the "halo" artifacts sometimes but never noticed over-enhancement
of noise.
Thanks. |
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l*****0
发帖数: 299 | 12 Thanks a lot for your reply!
Could you provide an image for each case you mentioned (especially over-
enhancement of noise)?
I did see the "halo" artifacts sometimes but never noticed over-enhancement
of noise.
Thanks. |
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r**r
发帖数: 171 | 13 If I am wrong, correct me.
For Q5, if they use CSF extract( a kind of Xenopus extract, which should be
natually mitotic extract, once you add Calcium, a good CSF extract will start
to cycle.), they can avoid the possible artifact. The problem is in their
paper they use all human proteins(separase, securin and cohesin.) If they use
CSF extract, the proteins they can analyze for MS are Xenopus proteins. What I
don't understand is why they use human proteins.
For Q6,
Nagao K, Yanagida M.
Regulating |
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m*t
发帖数: 1 | 14 Let me make a bold guess just for fun. :)))
Assume that the band you have seen after 2Ab is the correct band instead of a
crossreactivity artifact, I guess what was happening is that you 1Ab has a
very weak interaction against the fusion protein. The Ab can be easily washed
off in the subsequent washing steps, however, when you added destain solution,
the methanol fixes the 1Ab on the blot so that it woon't be totally washed.
Therefore the 2Ab can detect the 1Ab on the membrane, and that's also |
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w*******2
发帖数: 2199 | 15 It's not a fair word.
there is NO solid evidence that she manipulated her cell paper.
But her nature paper about the role of a miRNA in cancer metastasis
may be an artifact that does not happen in cancer patients. |
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h********n
发帖数: 4079 | 16 yes miR-10b.
I have not read that paper yet, so I don't comment on that paper.
But with 4 years of research in miR in cancer and with 2 papers published (
sorry, not CNS), I deeply feel that miR field has so much trash. The
profiling is very mature and easy to run, however, most of the functional
experiments in most of papers are based on artifact and even error. The miR
-mRNA interaction is so complex and unclear yet, and the miR target
validation experiments in most paper are bullshit.
I am |
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p*****m
发帖数: 7030 | 17 我劝你最好整理整理思路再来吵架 当时质疑mlg paper的时候 其他的ABA recepto
r paper都还没出来 质疑者唯一能说的就是Chen JG lab的rebuttal letter 就事论
事的说 Chen JG无非是说他们重复了但是没重复出来 那我说至少有人内部消息重复
得出来有何问题？后来ABA receptor的paper成堆出来 才涉及到大家用的assay是不
是有artifact的问题 这个和结果能不能重复是一回事么？
BTW 我连马力耕的面都没亲眼见过 说话更加谈不上 我也不知道你这个所谓帮熟算是个
哪门子意思 有人话不会说 非要说些不三不四的风话 是不是这样才能安慰你desperate
的心灵？lol |
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p******i
发帖数: 1092 | 18 如果把一段promoter放到pGL vector里
那么：
1) 需要confirm表达的mRNA的5'end吗？ 如何confirm?
有点担心原来认为的promoter的转录起始位点可能会变化
如果再clone一个SV40enhancer进去：
2) SV40enhancer会不会改变原来的转录起始位点？
比如说我的本意是比较 promoter 和promoter + SV40E，但是实际上读出的是
promoter 和 promoter' + SV40E
多谢各位啦 |
|
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s******y
发帖数: 28562 | 20 Sometimes the IP can be artifact of over-expression, if not, then it is
possible that your protein A has many domains that can all bind to B. This
is possible. For example, talin has more than 11 vinculin binding domains.
B
suggestions |
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A******y
发帖数: 2041 | 21 Well, you do know removal of media is to help lysis and remove potential
problems. In theory, you can run the RT-PCR without removal of media, using
DNAase, and the stop solution...you just have to be careful about artifacts
. What's a little BSA going to affect your RT-PCR if you are running it in
cell lysates already? |
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p*****r
发帖数: 64 | 22 既要不太影响细胞数，又不能完全吸走medium，我只能留下～8ulmedium，多加一些了
lysis bf，看看结果如何了。
using
artifacts
in |
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g********i
发帖数: 207 | 23 我们自己做，但是现在已经改做chip-seq了，因为chip-chip有很多artifact |
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h**********y
发帖数: 18 | 24 我做过一个实验，不是MAPK，用的是MAP2K，
发现在in vitro kinase的条件下，MAP2K自己就可以autophosphorylation，我猜想
MAPK应该也会是类似的情况，毕竟体外的实验总是有一些artifact。另外，看早期的
MAPK的paper，他们的in vitro kinase assay是不需要加入MAP2K的。当然加入MAP2K之
后，对MAPK底物的磷酸化会强很多。
另外，你在你的kinase里面有没有加入DTT？我们发现某些kinase因为某些特定位置的
aa，对DTT是敏感的。而ERK在相应的位置恰好存在一个这样的aa |
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b******s
发帖数: 1089 | 25 Thanks! Good explaination and I found it is similar to many other EM experts
' opinion. Actually HPF also causes artifacts and it won't be able to fix
well large samples.
My work is to find out what pathways the protein use to be secreted. One of
tools I am using now is to use immunoEM to localize proteins to sub-cellular
structures. I know the combination of multiple evidence would be important
to convince people. I will try to homogenize tissues and do the western. But
according to my PI, west... 阅读全帖 |
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n********k
发帖数: 2818 | 26 meaning whether the in vitro insight you gather will hold true in vivo...and
how robust the in vitro system could be...if it is very robust and highly
representative, and have the potentials to offer novel insights, then it is
very much valuable, otherwise it is hard to say...Taking cancer field as an
example, tons of the in vitro insights from earlier days turn out to be
misleading or in vitro artifacts... |
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n********k
发帖数: 2818 | 27 meaning whether the in vitro insight you gather will hold true in vivo...and
how robust the in vitro system could be...if it is very robust and highly
representative, and have the potentials to offer novel insights, then it is
very much valuable, otherwise it is hard to say...Taking cancer field as an
example, tons of the in vitro insights from earlier days turn out to be
misleading or in vitro artifacts... |
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C**********P
发帖数: 1004 | 28 激酶A在整个细胞周期中都位于位置B，无论是抗体染色还是GFP signal在位置C都没有
任何信号。但有人发现Phospho激酶A可以定位于位置C，并且在有些情况下特异性的定
位于C，而在B完全没有定位。大家觉得这可能是啥原因，简单的artifact还是存在什么
regulation在里面？ |
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y******8
发帖数: 1764 | 29 If you can measure the complex formation in real-time, then very easy.
If not, too many artifacts could compromise your conclusion. |
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b**********8
发帖数: 349 | 30 多谢楼上各位的建议，rescue的实验我们确实还没做过。今天又想向大家反应点新情况
，如下：
当初shRNA敲除A的时候，B基因在mRNA和protein水平都有显著下调。如前文所述，包括
B基因启动子的报告基因实验，组蛋白乙酰化和甲基化修饰，DNA甲基化等都是阴性结果
。后来实在没办法了，和别的组里的人讨论了下，觉得是否有可能A通过维持B基因转录
产物的稳定性，于是我又做了这个实验，转染A基因的siRNA后，等待48小时，再向
medium中加入Actinomycin D,每隔4小时收集细胞提取RNA,分别收集0,4,8,12小时，每
次3个wells，然后做realtime RT-PCR，结果在两个细胞株中发现siRNA组细胞中B基因
mRNA降解的比siCONTROL更快，但是在另外两个细胞株里没有观察到这种分别。现在又
出现几个问题：
1）观察到分别得那两个细胞株里，48小时候（即加药的第0小时），A基因的knockdown
效率只有50%。而在另外两个没有分别的细胞株里，48小时的沉默效率却有80%，老板觉
得即使mRNA降解实验阳性，很有可能是artifact，认为我的数据... 阅读全帖 |
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b*****l
发帖数: 9499 | 31 正如大家说的，重点肯定还是 rescue 了，而且也不难做，有这折腾的时间说不定早就
做出来了。
不过我好奇哈：shRNA 是你师姐做的，但是你重复过没有？
另外，老板说 artifacts 不是说怀疑你 modify data。 |
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w***e
发帖数: 269 | 32 It is because the emission wavelength of a fluorophore is very much
influenced by the polarity of the micro-environment. A polar medium makes
the emission "red-shifted", meaning longer wavelength, whereas a non-polar
medium makes the emission blue shifted. Tryptophan is a hydrophobic amino
acid. In a folded protein, it is usually buried within the interior of the
protein (hydrophobic core) so that it is in a relatively non-polar
environment. In a completely unfolded protein, Tryptophan is expos... 阅读全帖 |
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w****i
发帖数: 388 | 33 结构是很重要， 但是结构有时候也会biased by the conditions， 并不是总是“真”的。拿到的结构是长晶体的condition造成的artifact的例子并不少见。
而且很多时候晶体结构是用来帮助explain or support other biological data. Without other relevant biological information and data, 晶体结构by itself也就是个beautiful figure. |
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c********r
发帖数: 189 | 34 问一个关于蛋白polymerization的问题，一般来说transcription factor polymerization是不是只有两种情况：translation的时候cotranslational dimerizition；或者binding DNA的时候继续polymerize来稳定与DNA的相互作用。
在用overexpression研究这个问题的时候，有没有可能观察到的polymerization是overexpression的artifact呢？ |
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b******e
发帖数: 3348 | 35 一个人一天吃几克盐，正常，让他一次半斤，结果齁死了。得出结论，吃盐让人死亡。
polymerization是不是只有两种情况：translation的时候cotranslational
dimerizition；或者binding DNA的时候继续polymerize来稳定与DNA的相互作用。
overexpression的artifact呢？ |
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f****y
发帖数: 104 | 36 你这readout太广泛了.不象信号通路里面的readout,就看几个蛋白磷酸化,不用去管细
胞的死活.我感觉你这个最有可能的就是,overexpression这个蛋白导致细胞毒性,神经
受损,所以导致行为异常,是一种artifact.确定一个基因功能的最好方法是loss of
function分析. |
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s******y
发帖数: 28562 | 37 For the first question, transient transfection and expression requires cell
cycle and cell replication.
The KD of your protein A or, the toxic effect of the siRNA, may affect the
cell status, therefore lead to irregular transfection efficiency.
Luciferase reporter is less likely to affect transfection efficiency.
Therefore your second method is probably better. However this is a potential
problem with the second method: are you sure you can KD protein A by such a
short treatment? Also, your luci... 阅读全帖 |
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c********b
发帖数: 363 | 38 Well, I can share some more of my experience with you.
1, Check out the anneal temperature. If no band here, but your positive
control showed no problem for RT, then I would suspect that PCR failed in
your RACE. You can try touch-down PCR or use 2-step PCR (68 degree for
annealing and extension.
2, Increase your PCR cycles. If the annealing temperature is not perfect,
increasing cycle numbers will help. I normally used 36-40 cycles for 2-step
PCR, in some difficult cases. Also, I tried many diff... 阅读全帖 |
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s******y
发帖数: 220 | 39 snoopy所见略同，
目的就是看新杂进去的那个基因能不能救heart failure的小鼠啊，
现在貌似是有戏。
不过那genetic background 乱七八糟的，老板也很concern，看到新老鼠活着他担心是
杂交的artifact，后来新背景下的病鼠挂了，才好点。
不过他也不懂老鼠。。。 |
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D*a
发帖数: 6830 | 40 你们这个领域如果大家都是杂的，你也就无所谓了。不过如果你的课题贯穿好几代的话
，既然无论如何要breeding，那么还是纯化一下背景比较好。
你既然已经有背景问题，control就更要用littermate的了。否则你更说不清楚是不是
artifact。 |
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g******u
发帖数: 66 | 41 最近被一个问题困扰着:
用某种通道蛋白的抗体(通过Western blot和immunohistochemistry) 来研究此蛋白在
一个组织中的表达情况.在大批量的实验前,先做了个预实验测试了下此抗体的特异性.
很奇怪的是,Western blot和immunohistochemistry 都显示在此蛋白完全敲除的动物组
织中还是有弱的阳性表达(和wild-type相比是很弱,但还是能看到非常弱的条带或者染
色).
难道是一抗或者二抗的浓度过大?还是封闭的不够?
注: 1. 此抗体已经有几篇发表的文章显示是特异性的
2. 基因敲除的动物应该没有问题
3. 弱的阳性表达应该不是来自自发荧光或者artifact
非常感谢您的建议和分析!!! |
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n******7
发帖数: 12463 | 42 事情是这样，我们用RT-PCR克隆了一些gene的transcript （CDS only），然后丢给454
测了，然后把其中的一些克隆又拿去做了Y2H。我发现有好几个基因都有个特别的
transcript克隆出来。它们的特点是：
1. 超级短。往往gene有七八个exon，这个transcript就在取了第一个和最后一个exon
的各一部分了事。一共也就200个nt左右
2. READS coverage很低。我们平均的coverage在60X+，这几个小东西也就1-2X，因为
也很短，也就是说，就一两条reads支持。很奇怪，因为我们是用clone测序，所以这个
跟表达量也没关系。后续的Sanger data也确认了这些短序列
3. 不是canonical splicing site。把这些序列align的genome的话，都是覆盖最5'和
最3'端的，之间是一个巨大的gap。如果gap是spliced intron的话，对应的splicing
site不是GU..AG。
4. interaction partner往往很多。比如有个transcript，有15个partner筛出... 阅读全帖 |
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i*****g
发帖数: 11893 | 43 你看一下对应的氨基酸序列
一般这些序列偏酸性，artifact of Y2H
transcripts是指mRNA而来
你的5+3 从哪来？ 是Y2H自己生成的？ |
|
L*******e
发帖数: 2153 | 44 For a long time starvation/calories restriction has been considered as one
prominent way to slow down aging or increase longevity. : )
Increasing expression of sirtuin proteins has been indicated to extend
lifespan on models such as C. Elegans and Drosophila melanogaster.
However, lately there are some controversies on the effects of sir2 gene on
longevity . Some people question the genetic back-crossing artifacts on
those transgentic models maybe the direct cause of sirtuin's protective
effec... 阅读全帖 |
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n********k
发帖数: 2818 | 45 all we do in the lab or even in the wild:) is conditional or in another somewhat frightening word--artifact, so I don't see why you cannot do that
as long as the data is scientifically comprehensive and sound...For example, the gene could be
involved in stress response...or it works with modifier etc etc...after all
robustness and redundancy rule in biology systems...but they only rule
conditionally too... |
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F*Q
发帖数: 3259 | 46 Besides the resolution issue, is it guaranteed that no artifacts in
immunolabeling in live cell imaging? |
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y****6
发帖数: 196 | 47 A nice article that might help to explain your weird microscopic data.
Immunolabeling artifacts and the need for live-cell imaging
Ulrike Schnell,
Freark Dijk,
Klaas A Sjollema
& Ben N G Giepmans
Affiliations
Corresponding author
Nature Methods 9,152–158(2012)doi:10.1038/nmeth.1855Published online 30
January 2012 |
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u*********1
发帖数: 2518 | 48 啥杂志？
CNS，还是nature genetics还是genome research？
我觉得问题是，CNV detecting的算法都基于不同的algorithm，没有一种algorithm是
完美的，最后的结果都相互冲突，一堆artifact
妒恨 |
|
i*****g
发帖数: 11893 | 49 楼主做事不是很准确
这年头讲究的是 making story（功能）
你做到 (B) 用遗传互补的方式也确证了突变中的点突和包括细胞死亡在内的多种表型
之间的直接因果关系。
这一步后，就赶紧考虑功能问题
mechanism是精细研究，要是没有story，根本价值很小，投不出去
又： GFP fusion sometimes get artifact |
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b******s
发帖数: 1089 | 50 我不是专家。我也是一边做一边学。而且我不是做动物的，对于whole brain的大小没
概念。但是印象中PFA penetration的速率好像是1小时1mm左右，你自己可以估计一下
。我想多半还是太大，应该需要slice，并且需要4度overnight。小sample 2hr足够fix
的不必overnight，overfix也不好。但是好像很多人都是丢进fixative过夜。所以应该
区别也不大。但是最好是4度，否则cellular extraction和其他artifacts会比较严重
。sample stress在化学固定过程中或多或少，不可避免。除非高压冷冻迅速fix
sample。在电镜下会看的比较明显。plasma membrane会很wavy，一些organelle形态异
常，甚至aggregate。
别。 |
|
