swirl(marray)
swirl()所属R语言包：marray
Gene expression data from Swirl zebrafish cDNA microarray experiment
从旋流斑马鱼基因芯片实验的基因表达数据
译者：生物统计家园网 机器人LoveR
描述----------Description----------
The swirlRaw dataset consists of an object swirl of class marrayRaw, which represents pre-normalization intensity data for a batch of cDNA microarrays.
swirlRaw集包括对象swirl类marrayRaw，它代表了一批基因芯片标准化前的强度数据。
This experiment was carried out using zebrafish as a model organism to study early development in vertebrates. Swirl is a point mutant in the BMP2 gene that affects the dorsal/ventral body axis. Ventral fates such as blood are reduced, whereas dorsal structures such as somites and notochord are expanded. A goal of the Swirl experiment is to identify genes with altered expression in the swirl mutant compared to wild-type zebrafish. Two sets of dye-swap experiments were performed, for a total of four replicate hybridizations. For each of these hybridizations, target cDNA from the swirl mutant was labeled using one of the Cy3 or Cy5 dyes and the target cDNA wild-type mutant was labeled using the other dye. Target cDNA was hybridized to microarrays containing 8,448 cDNA probes, including 768 controls spots (e.g. negative, positive, and normalization controls spots). Microarrays were printed using 4 \times 4 print-tips and are thus partitioned into a 4 \times 4 grid matrix. Each grid consists of a 22\times 24 spot matrix that was printed with a single print-tip. Here, spot row and plate coordinates should coincide, as each row of spots corresponds to probe sequences from the same 384 well-plate.<br>
这个实验进行了利用斑马鱼作为模式生物研究早期脊椎动物发展。漩涡是影响背/腹体轴BMP2的基因突变点。腹侧命运，如血液减少，而背结构，如体节和脊索扩大。一个漩涡实验的目标是识别改变漩涡突变的表达相比，野生型斑马鱼的基因。两套染料交换实验进行，共有4个重复杂交。对于每一个这些杂交，基因突变标记使用Cy3或Cy5染料和使用其他染料标记的靶基因野生型的突变漩涡目标。目标基因杂交微阵列包含8448 cDNA探针，其中包括768控制点（如阴性，阳性，和规范化控制点）。芯片被印制使用4 \times 4打印提示，从而4 \times 4网格矩阵分区。每个网格由22\times 24点矩阵与一个单一的打印头打印。在这里，当场行和板坐标应一致，如斑点的每一行对应探测从384井板的序列。参考
Each of the four hybridizations produced a pair of 16-bit images, which were processed using the image analysis software package Spot. Raw images of the Cy3 and Cy5 fluorescence intensities for all fourhybridizations are available at http://fgl.lsa.berkeley.edu/Swirl/index.html.the dataset includes four output files swirl.1.spot, swirl.2.spot, swirl.3.spot, and swirl.4.spot from the Spot package. Each of these files contains 8,448 rows and 30 columns; rows correspond to spots and columns to different statistics from the Spot image analysis output. The file fish.gal is a gal file generated by the GenePix program; it contains information on individual probe sequences, such as gene names, spot ID, spot coordinates. Hybridization information for the mutant and wild-type target samples is stored in SwirlSample.txt.
每四个杂交产生了对16位图像处理，其中使用的图像分析软件包Spot。 Cy3和Cy5为所有fourhybridizations荧光强度的RAW图像是在http://fgl.lsa.berkeley.edu/Swirl/index.html.the集的包括四个输出文件swirl.1.spot，swirl.2.spot swirl.3.spot，swirl.4.spotSpot包。这些文件包含8448行和30列;行对应点和列Spot图像分析输出不同的统计。该文件fish.gal是一个女孩GenePix程序产生的文件，它包含对单个探针序列的信息，如基因名称，当场ID，点坐标。杂交的突变体和野生型的目标样本的信息被储存在SwirlSample.txt。
用法----------Usage----------
data(swirl)
源----------Source----------
These data were provided by Katrin Wuennenberg-Stapleton from the Ngai Lab at UC Berkeley. The swirl embryos for this experiment were provided by David Kimelman and David
这些数据提供由卡特琳Wuennenberg芮艺在加州大学伯克利分校的实验室。这个实验的漩涡胚胎提供大卫Kimelman和大卫
转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。
注：
注1：为了方便大家学习，本文档为生物统计家园网机器人LoveR翻译而成，仅供个人R语言学习参考使用，生物统计家园保留版权。
注2：由于是机器人自动翻译，难免有不准确之处，使用时仔细对照中、英文内容进行反复理解，可以帮助R语言的学习。
注3：如遇到不准确之处，请在本贴的后面进行回帖，我们会逐渐进行修订。
|
发表于 2012-2-26 00:22:27
