贺勇fMRI研究设计和论文写作.ppt

1、研究设计与论文写作贺永北京师范大学认知神经科学与学习国家重点实验室一个“好”的研究原创性/创新性 Originality/Creativity具有重要性 Significance具备可行性 Feasibility可重复性 Reproducibility/Reliability发表后引起关注（正面或者负面）Influence/impact:5-10 years作者、编辑、审稿人、读者科学研究的步骤-作者选题 Selecting and formulating research problem检索文献Surveying literature建立假说Developing hypotheses设计实验

2、Designing experiment采集数据Collecting data处理和分析数据Processing and analyzing data检验假说Testing hypotheses解释结果Interpreting results and generalization of results结论Making conclusion写作 Paper writing审稿及发表(编辑、审稿人、读者)投稿 修改 出版“This study was the first to derive a structural network of the human brain onthe basis of

3、 correlations in cortical grey matter thickness measured usingMRI.”(Bullmore and Sporns,Nat Rev Neurosci 2009)Citation:137(from ISI)Reviewer 1:“This is an interesting well-written and creativelyconceived paper showing for the first time that human brainanatomical connectivity may be topologically or

4、ganizedaccording to small world principles.”Reviewer 2:“This paper deals with an important and verysignificant research area,the characterization of theanatomical network of long-range connections in the humanbrain.This crucial data set is currently lacking and anyprogress towards a more complete an

5、atomical description ofthe human cortex is highly desirable.The paper attempts toaddress this issue by using a novel and potentially interestingapproach towards mapping anatomical pathways andprovides an analysis of the resulting network.”Structural MRI-based Brain Connectome AnalysisMethods(Chen et

6、 al.,Cereb Cortex 2009;Sanabria-Diaz et al.,NeuroImage2010)Normal development(Fan et al.,NeuroImage 2011)Normal aging(Wu et al.,Hum Brain Mapp 2011;Zhu et al.,Neurobiology ofAging 2011;Chen et al.,NeuroImage 2011)Alzheimers disease(He et al.,J Neurosci 2008;Yao et al.,PLoSComputational Biology 2010)

7、Multiple sclerosis(He et al.,Brain 2009)Epilepsy(Raj et al.,NeuroImage 2010;Bernhardt et al.,Cerebral Cortex2011)Schizophrenia(Bassett et al.,J Neurosci 2008)Genetic(Schmitt et al.,Cerebral Cortex 2009)How to form the idea?2003年IPMI2003:reject2003年2 subjects from Dr.Xuchu WengIPMI2003:rejectSmall-wo

8、rld human brain functionalnetworks by resting-state fMRISalvador et al(2005)Cereb Cortex2005.7.20 Meeting with Alan Evans and Keith Worsley 说服你的老板！MontrealLerch et al(2006)NeuroImage2005.09 Question:can we use structural MRI to construct brainnetworks?Hypothesis:human brain structural networks have

9、asmall-world organization.Work hard!Remember:you only have one chance!RegionsRegionsNetwork constructionCortical thicknessmeasurements0.60.40.20-0.2-0.4RegionsCortical parcellation(ANIMAL+INSECT)Cross-correlationmatrixFDRHuman corticalthickness networkBinarized matrix12407Subjects54Cortical thicknes

10、s data matrixHe et al(2007)Cereb CortexMethods Participants/experimental design/MRI(ICBM 152)Imaging processing Statistical analysis 要求：合理性/准确性/新颖性/完整性方法描述必须准确，逻辑清晰关键的方法简要描述其合理性尽量避免任意选择参数，否则要评价参数变化对结果的稳定性充分利用你的data引述公式和采用别人的方法必须给出出处整个部分具有完整性Methods 要求：方法描述必须准确，逻辑清晰The native MR images were first reg

11、istered into stereotaxic space(Talairach and Tournoux 1988)using a 9-parameter linear transformation(Collins et al.1994).Simultaneously,images were corrected fornonuniformity artifacts using the N3 algorithms(Sled et al.1998).Theregistered and corrected images were further segmented into graymatter,

12、white matter,cerebrospinal fluid,and background using anadvanced neural net classifier(Zijdenbos et al.2002).The inner andouter gray matter surfaces were then automatically extracted from eachMR volume using the Constrained Laplacian-based Automated Segmentationwith Proximities(CLASP)algorithm(MacDo

13、nald et al.2000;Kimet al.2005)and cortical thickness was measured in native space usingthe linked distance between 2 surfaces at 40 962 vertices throughoutthe cortex.Methods 要求：方法描述必须准确，逻辑清晰Finally,temporal filtering(0.01 Hzf0.08 Hz)was performed on the timeseries of each voxel to reduce(not avoid!)

14、the effect of low-frequency driftsand highfrequency noise(Biswal et al.,1995;Lowe et al.,1998;Jiang et al.,2004).Methods 要求：方法描述必须准确，逻辑清晰 关键的方法简要描述其合理性The CLASP cortical thickness algorithm has been validated using bothmanual measurements(Kabani et al.2001)and simulation approaches(Lerch and Evans 2

15、005;Lee et al.2006),and recently applied toAlzheimers disease(Lerch et al.2005)and cortical development studies(Shaw et al.2006).Methods 要求：方法描述必须准确，逻辑清晰 关键的方法简要描述其合理性 尽量避免任意选择参数，否则要评价参数变化对结果的稳定性To explore the influence of thresholding on the small-worldattributes,in this study,we applied the maximu

16、m range of correlationthresholds(0 R Rmax,with an incremental interval of 0.01)tothe correlation matrix,and repeated the small-world analysis for everyR value.Methods 要求：方法描述必须准确，逻辑清晰关键的方法简要描述其合理性尽量避免任意选择参数，否则要评价参数变化对结果的稳定性充分利用你的data引述公式和采用别人的方法必须给出出处整个部分具有完整性Results 通常分标题进行 要求：逻辑清晰，主次分明（避免简单重复）注意所投期刊的风格：是否需要简单讨论 合理使用Supplemental MaterialsCorpus callosumShort-distance fibersSuperior longitudinalfasciculusThe most significant 15 cortical thickness correlationsAABC(Corrected P Cpbrain Cp randomLpr