Pub Date : 2013-01-08DOI: 10.3724/SP.J.1206.2012.00136
Xiaojuan Li, Zhenglu Jiang, Yi Wang
{"title":"The Temporal Responses of Neurons in The Primary Visual Cortex to Transient Stimuli*: The Temporal Responses of Neurons in The Primary Visual Cortex to Transient Stimuli*","authors":"Xiaojuan Li, Zhenglu Jiang, Yi Wang","doi":"10.3724/SP.J.1206.2012.00136","DOIUrl":"https://doi.org/10.3724/SP.J.1206.2012.00136","url":null,"abstract":"","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"72466669","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-08DOI: 10.3724/SP.J.1206.2012.00015
Zhaojian Gong, Hongbin Huang, Ke Xu, Fang Liang, L. Xiaoling, W. Xiong, Zhaoyang Zeng, Liu Guiyuan
{"title":"Advances in microRNAs and TP53 Gene Regulatory Network*: Advances in microRNAs and TP53 Gene Regulatory Network*","authors":"Zhaojian Gong, Hongbin Huang, Ke Xu, Fang Liang, L. Xiaoling, W. Xiong, Zhaoyang Zeng, Liu Guiyuan","doi":"10.3724/SP.J.1206.2012.00015","DOIUrl":"https://doi.org/10.3724/SP.J.1206.2012.00015","url":null,"abstract":"","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74661140","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-08DOI: 10.3724/SP.J.1206.2012.00125
M. Gao, Ying Zhang, Dacheng Wang
{"title":"Crystallization and Preliminary Crystallographic Studies of Active TNF-α-Inducing Protein From Helicobacter Pylori *: Crystallization and Preliminary Crystallographic Studies of Active TNF-α-Inducing Protein From Helicobacter Pylori *","authors":"M. Gao, Ying Zhang, Dacheng Wang","doi":"10.3724/SP.J.1206.2012.00125","DOIUrl":"https://doi.org/10.3724/SP.J.1206.2012.00125","url":null,"abstract":"","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75000533","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-08DOI: 10.3724/SP.J.1206.2012.00567
Zeng Chang
{"title":"Science China Life Sciences in 2011: a Retrospect: Science China Life Sciences in 2011: a Retrospect","authors":"Zeng Chang","doi":"10.3724/SP.J.1206.2012.00567","DOIUrl":"https://doi.org/10.3724/SP.J.1206.2012.00567","url":null,"abstract":"","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79462760","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-08DOI: 10.3724/SP.J.1206.2012.00287
Lei Sun, Lin Zhang, Hui Liu
{"title":"Prediction of Long Non-Coding RNAs Based on RNA-Seq*: Prediction of Long Non-Coding RNAs Based on RNA-Seq*","authors":"Lei Sun, Lin Zhang, Hui Liu","doi":"10.3724/SP.J.1206.2012.00287","DOIUrl":"https://doi.org/10.3724/SP.J.1206.2012.00287","url":null,"abstract":"","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"83219716","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-08DOI: 10.3724/SP.J.1206.2012.00510
M. Sheng
{"title":"Translational Medicine: New Power in Modern Medical Development: Translational Medicine: New Power in Modern Medical Development","authors":"M. Sheng","doi":"10.3724/SP.J.1206.2012.00510","DOIUrl":"https://doi.org/10.3724/SP.J.1206.2012.00510","url":null,"abstract":"","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79232280","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-01DOI: 10.3724/sp.j.1206.2012.00544
Kaiqing Xue, C. Luo, Tianhua Yang, Qifu Li, Dong Zhou, D. Yao
The structural connectivity patterns of human brain are the underlying basis of functional connectivity.Abnormal functional connectivity in default mode network(DMN) has been uncovered in electroencephalography(EEG) and functional magnetic resonance imaging(fMRI) studies,which suggests that the abnormality might be related to the cognitive mental impairment and unconsciousness during absence seizures.However,so far,little is known about the structural connectivity in DMN about childhood absence epilepsy(CAE).In the present study,we hypothesize that the structural connectivity in DMN should be disrupted to respond to the altered brain function in CAE.To test the hypothesis,11 patients with CAE and 12 age-and gender-matched healthy controls were recruited.We utilized diffusion tensor imaging tractography to map the anatomical structural connectivity of DMN.The fiber bundles among regions of DMN were built for each subject.Then,mean length,fractional anisotropic(FA),mean diffusivity(MD) and connection strength on fibers linking two brain regions were calculated.Further,these parameters were executed two-sample t-test between CAE group and health control group.Finally,we used Pearson's correlation coefficient to evaluate the relationship between these parameters and epilepsy duration(year).Both CAE and healthy control groups showed similar structural connectivity patterns in DMN.Among these fiber bundles,three were identified in all subjects,with one linking posterior cingulate cortex/precuneus to medial prefrontal cortex,and another two linking posterior cingulate cortex/precuneus to bilateral medial temporal lobes.Furthermore,the significantly decreased FA and connection strength,and increased MD in fiber bundles linking posterior cingulated cortex/precuneus to medial prefrontal cortex,were found in patients compared with the cases in healthy controls(P 0.05,Bonferroni corrected).Predominantly,the FA values in fiber bundles linking posterior cingulated cortex/precuneus to medial prefrontal cortex were negatively correlated with the epilepsy duration(P=0.006).These findings might reflect the structural basis of the altered functional connectivity in DMN about absence epilepsy.Given that functional connectivity abnormality in our previous work,it is implied that the abnormal fiber connectivity from posterior cingulated cortex/precuneus to medial prefrontal cortex plays an important role in absence epilepsy.This may open up new avenues to understand the pathophysiological mechanisms of absence epilepsy.
{"title":"Disrupted Structural Connectivity of Default Mode Network in Childhood Absence Epilepsy","authors":"Kaiqing Xue, C. Luo, Tianhua Yang, Qifu Li, Dong Zhou, D. Yao","doi":"10.3724/sp.j.1206.2012.00544","DOIUrl":"https://doi.org/10.3724/sp.j.1206.2012.00544","url":null,"abstract":"The structural connectivity patterns of human brain are the underlying basis of functional connectivity.Abnormal functional connectivity in default mode network(DMN) has been uncovered in electroencephalography(EEG) and functional magnetic resonance imaging(fMRI) studies,which suggests that the abnormality might be related to the cognitive mental impairment and unconsciousness during absence seizures.However,so far,little is known about the structural connectivity in DMN about childhood absence epilepsy(CAE).In the present study,we hypothesize that the structural connectivity in DMN should be disrupted to respond to the altered brain function in CAE.To test the hypothesis,11 patients with CAE and 12 age-and gender-matched healthy controls were recruited.We utilized diffusion tensor imaging tractography to map the anatomical structural connectivity of DMN.The fiber bundles among regions of DMN were built for each subject.Then,mean length,fractional anisotropic(FA),mean diffusivity(MD) and connection strength on fibers linking two brain regions were calculated.Further,these parameters were executed two-sample t-test between CAE group and health control group.Finally,we used Pearson's correlation coefficient to evaluate the relationship between these parameters and epilepsy duration(year).Both CAE and healthy control groups showed similar structural connectivity patterns in DMN.Among these fiber bundles,three were identified in all subjects,with one linking posterior cingulate cortex/precuneus to medial prefrontal cortex,and another two linking posterior cingulate cortex/precuneus to bilateral medial temporal lobes.Furthermore,the significantly decreased FA and connection strength,and increased MD in fiber bundles linking posterior cingulated cortex/precuneus to medial prefrontal cortex,were found in patients compared with the cases in healthy controls(P 0.05,Bonferroni corrected).Predominantly,the FA values in fiber bundles linking posterior cingulated cortex/precuneus to medial prefrontal cortex were negatively correlated with the epilepsy duration(P=0.006).These findings might reflect the structural basis of the altered functional connectivity in DMN about absence epilepsy.Given that functional connectivity abnormality in our previous work,it is implied that the abnormal fiber connectivity from posterior cingulated cortex/precuneus to medial prefrontal cortex plays an important role in absence epilepsy.This may open up new avenues to understand the pathophysiological mechanisms of absence epilepsy.","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85383244","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-01DOI: 10.3724/sp.j.1206.2012.00171
X. Heng
Multivesicular body(MVB) is a dynamic subcellular organelle formed by invagination of the limiting membrane of late endosome.MVB is an essential transport and sorting station for membranes and proteins in eukaryotic organisms.MVB pathway is intimately involved in various processes,including signal transduction,cytokinesis,gene silencing,autophagy,protein quality control and virus budding.The biogenesis of MVB requires more than 20 vacuolar protein sorting(Vps) proteins.Many of them can assemble into four distinct complexes ESCRT 0,Ⅰ,Ⅱ,Ⅲ(endosomal sorting complexs required for transport) on the endosomal membrane.ESCRTs and Vps4 are considered to be the most important components in MVB pathway.ESCRT 0 together with clathrin can form microdomain on endosomal membrane where they cluster ubiquitinated cargo proteins.ESCRTⅠ and Ⅱ can induce the budding of intraluminal vesicles(ILVs),prompt the formation process and sort protein cargoes into ILVs.ESCRTⅢ can constrict,cleave the bud neck and finish the membrane abscission,the last stage of MVB formation.Vps4 can disassemble ESCRT complexes and recycle them.Ubiquitinated cargo proteins and ubiquitination can also regulate the localization and function of ESCRTs.Together,these recent discoveries demonstrate that the sequential and co-ordinated actions of ubiquitinated cargo proteins,ESCRTs and Vps4 are the major driving force for the biogenesis of MVB and protein sorting process.In this review,we focus on the protein-protein interaction and mainly discuss the assembly mechanism,interaction and function of ESCRT complexes and Vps4 high-order oligomers,as well as the regulation of ESCRTs by ubiquitinated proteins and ubiquitination.We also suggest prospective studies based on these discussions.
{"title":"Biogenesis of Multivesicular Body and Protein Sorting: No One of ESCRT,Vps4 and Ubiquitination Can Be Missed","authors":"X. Heng","doi":"10.3724/sp.j.1206.2012.00171","DOIUrl":"https://doi.org/10.3724/sp.j.1206.2012.00171","url":null,"abstract":"Multivesicular body(MVB) is a dynamic subcellular organelle formed by invagination of the limiting membrane of late endosome.MVB is an essential transport and sorting station for membranes and proteins in eukaryotic organisms.MVB pathway is intimately involved in various processes,including signal transduction,cytokinesis,gene silencing,autophagy,protein quality control and virus budding.The biogenesis of MVB requires more than 20 vacuolar protein sorting(Vps) proteins.Many of them can assemble into four distinct complexes ESCRT 0,Ⅰ,Ⅱ,Ⅲ(endosomal sorting complexs required for transport) on the endosomal membrane.ESCRTs and Vps4 are considered to be the most important components in MVB pathway.ESCRT 0 together with clathrin can form microdomain on endosomal membrane where they cluster ubiquitinated cargo proteins.ESCRTⅠ and Ⅱ can induce the budding of intraluminal vesicles(ILVs),prompt the formation process and sort protein cargoes into ILVs.ESCRTⅢ can constrict,cleave the bud neck and finish the membrane abscission,the last stage of MVB formation.Vps4 can disassemble ESCRT complexes and recycle them.Ubiquitinated cargo proteins and ubiquitination can also regulate the localization and function of ESCRTs.Together,these recent discoveries demonstrate that the sequential and co-ordinated actions of ubiquitinated cargo proteins,ESCRTs and Vps4 are the major driving force for the biogenesis of MVB and protein sorting process.In this review,we focus on the protein-protein interaction and mainly discuss the assembly mechanism,interaction and function of ESCRT complexes and Vps4 high-order oligomers,as well as the regulation of ESCRTs by ubiquitinated proteins and ubiquitination.We also suggest prospective studies based on these discussions.","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"87419338","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-01DOI: 10.3724/sp.j.1206.2012.00477
Xie Xiao
To solve the shortage of blood sources has become an urgent need in the current medical.One of the important solutions is functional production of erythrocytes in vitro using stem/progenitor cells.But enucleation remains one of the critical rate-limiting steps.Even though reticulocytes could be produced in vitro,the low efficiency should be concerned.To uncover the molecular mechanism of erythroblast enucleation will facilitate ex vivo production of functional erythrocytes.This review summarizes three prevalent enucleation mechanisms,including apoptosis,asymmetric cytokinesis and vesicle trafficking,discusses proteins and microRNAs playing important role in the process,and evaluates the prospects for ex vivo production of red blood cells.
{"title":"The Mechanism of Erythrocytes Enucleation","authors":"Xie Xiao","doi":"10.3724/sp.j.1206.2012.00477","DOIUrl":"https://doi.org/10.3724/sp.j.1206.2012.00477","url":null,"abstract":"To solve the shortage of blood sources has become an urgent need in the current medical.One of the important solutions is functional production of erythrocytes in vitro using stem/progenitor cells.But enucleation remains one of the critical rate-limiting steps.Even though reticulocytes could be produced in vitro,the low efficiency should be concerned.To uncover the molecular mechanism of erythroblast enucleation will facilitate ex vivo production of functional erythrocytes.This review summarizes three prevalent enucleation mechanisms,including apoptosis,asymmetric cytokinesis and vesicle trafficking,discusses proteins and microRNAs playing important role in the process,and evaluates the prospects for ex vivo production of red blood cells.","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"81381933","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2013-01-01DOI: 10.3724/sp.j.1206.2012.00410
Jia Xiao
Current pathway enrichment method is mainly based on the gene that are differentially expressed,and no enrichment method considers pathway variability(variance).We observed that in the phenotype of disease,some pathways have a significant increase or decrease in variability describing appropriate statistics.Therefore,in this article,we hypothesize that the variation of single pathway is significantly different between two phenotypes.We designed fourteen types of statistics coupled with their test methods to analyze pathways variation and the pathways enrichment significance between two phenotypes,and we compared the results with those obtained by document retrieval.At the same time,the results of five different data preprocessing methods on data were investigated.The results show that RMA is stable in the five gene expression data preprocessing methods.The pathway variation is different between the two phenotypes.According to the literature research results,the permutation test coupled with the variance of Euclidean distance of each gene(the eleventh method) can identify significant pathways more efficiently than GSEA.In conclusion,pathway enrichment analysis strategy based on the pathway variation is feasible,which could be a theoretical guideline for enrichment analysis and a new biological insights of study in human diseases.
{"title":"A Method of Pathway Enrichment Analysis Based Gene Expression Variability","authors":"Jia Xiao","doi":"10.3724/sp.j.1206.2012.00410","DOIUrl":"https://doi.org/10.3724/sp.j.1206.2012.00410","url":null,"abstract":"Current pathway enrichment method is mainly based on the gene that are differentially expressed,and no enrichment method considers pathway variability(variance).We observed that in the phenotype of disease,some pathways have a significant increase or decrease in variability describing appropriate statistics.Therefore,in this article,we hypothesize that the variation of single pathway is significantly different between two phenotypes.We designed fourteen types of statistics coupled with their test methods to analyze pathways variation and the pathways enrichment significance between two phenotypes,and we compared the results with those obtained by document retrieval.At the same time,the results of five different data preprocessing methods on data were investigated.The results show that RMA is stable in the five gene expression data preprocessing methods.The pathway variation is different between the two phenotypes.According to the literature research results,the permutation test coupled with the variance of Euclidean distance of each gene(the eleventh method) can identify significant pathways more efficiently than GSEA.In conclusion,pathway enrichment analysis strategy based on the pathway variation is feasible,which could be a theoretical guideline for enrichment analysis and a new biological insights of study in human diseases.","PeriodicalId":20655,"journal":{"name":"生物化学与生物物理进展","volume":null,"pages":null},"PeriodicalIF":0.3,"publicationDate":"2013-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77418251","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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