Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping: A pipeline for whole-brain structural and activity analyses.
Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping: A pipeline for whole-brain structural and activity analyses.
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斑马鱼脑配准和评估（BREEZE）-映射：全脑结构和活动分析的管道。
DOI：
10.1016/j.xpro.2023.102647
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发表时间：
2023-12-15
期刊：
影响因子：
--
通讯作者：
Hoffman, Ellen J.
中科院分区：
文献类型：
--
作者：
Jin, David S.;Neelakantan, Uma;Lacadie, Cheryl M.;Chen, Tianying;Rooney, Brendan;Liu, Yunqing;Wu, Weimiao;Wang, Zuoheng;Papademetris, Xenophon;Hoffman, Ellen J.
在这里，我们提出了脑注册和评估斑马鱼（BREEZE）映射，一个用户友好的管道，在幼斑马鱼全脑图像的注册和分析。我们描述了与神经发育和神经精神疾病相关的基因突变体的斑马鱼全脑表型的预处理，登记，定量和可视化的步骤。通过利用BioImage Suite Web，最初开发用于处理人脑成像数据的开源软件包，我们为具有一般计算能力的用户提供了一个高度可访问的全脑映射协议。有关本方案使用和执行的完整详细信息，请参见Weinschutz门德斯等人。（2023年）。用于分析斑马鱼幼鱼全脑图像的高通量流水线用于识别多个斑马鱼突变系中可量化的脑表型的工具使用斑马鱼脑图谱量化体积和活动表型用于脑表型3D可视化的用户友好界面出版商注：进行任何实验方案都需要遵守当地机构的实验室安全和伦理指南。在这里，我们提出了脑注册和评估斑马鱼（BREEZE）映射，一个用户友好的管道，在幼斑马鱼全脑图像的注册和分析。我们描述了与神经发育和神经精神疾病相关的基因突变体的斑马鱼全脑表型的预处理，登记，定量和可视化的步骤。通过利用BioImage Suite Web，最初开发用于处理人脑成像数据的开源软件包，我们为具有一般计算能力的用户提供了一个高度可访问的全脑映射协议。
Here, we present Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping, a user-friendly pipeline for the registration and analysis of whole-brain images in larval zebrafish. We describe steps for pre-processing, registration, quantification, and visualization of whole-brain phenotypes in zebrafish mutants of genes associated with neurodevelopmental and neuropsychiatric disorders. By utilizing BioImage Suite Web, an open-source software package originally developed for processing human brain imaging data, we provide a highly accessible whole-brain mapping protocol developed for users with general computational proficiency. For complete details on the use and execution of this protocol, please refer to Weinschutz Mendes et al. (2023). High-throughput pipeline for the analysis of whole-brain images in larval zebrafish Tools for identifying quantifiable brain phenotypes in multiple zebrafish mutant lines Quantification of volume and activity phenotypes using zebrafish brain atlases User-friendly interface for the 3D visualization of brain phenotypes Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. Here, we present Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping, a user-friendly pipeline for the registration and analysis of whole-brain images in larval zebrafish. We describe steps for pre-processing, registration, quantification, and visualization of whole-brain phenotypes in zebrafish mutants of genes associated with neurodevelopmental and neuropsychiatric disorders. By utilizing BioImage Suite Web, an open-source software package originally developed for processing human brain imaging data, we provide a highly accessible whole-brain mapping protocol developed for users with general computational proficiency.
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影响因子：
8.2
作者：
Gerlai, Robert
通讯作者：
Gerlai, Robert
影响因子：
4.8
作者：
Sakai C;Ijaz S;Hoffman EJ
通讯作者：
Hoffman EJ
影响因子：
3.7
作者：
Hwang WY;Fu Y;Reyon D;Maeder ML;Kaini P;Sander JD;Joung JK;Peterson RT;Yeh JR
通讯作者：
Yeh JR
影响因子：
46.9
作者：
通讯作者：
--
影响因子：
8.2
作者：
Shams, Soaleha;Rihel, Jason;Gerlai, Robert
通讯作者：
Gerlai, Robert