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We are analyzing https://link.springer.com/article/10.1007/s00018-025-05665-1.

Title:
Genome-wide profiling and functional characterization of circular RNAs in neural development and injury: insights from a rat model research | Cellular and Molecular Life Sciences
Description:
Circular RNAs (circRNAs) have re-emerged as promising gene regulators in various physiological and pathological conditions. However, the expression patterns of circRNAs in the developing spinal cord of mammals and the comprehensive distribution of circRNAs across different tissues remain poorly understood. In this study, rats were used as the model organism. We conducted a comprehensive analysis of 15 RNA-Seq datasets comprising 217 rat samples and developed a web-based resource, CiRNat, to facilitate access to these data. We identified 15,251 credible circRNAs and validated them through experimental approaches. Notably, we observed two significant time points for circRNA increase during spinal cord development, approximately at embryonic day 14 (E14d) and postnatal week 4 (P4w). Analysis of circRNA expression in various rat tissues revealed higher expression levels in central nervous system tissues compared to peripheral nervous system tissues and other tissues. Furthermore, some highly abundant circRNAs exhibited tissue- and species-specific expression patterns and differed from their cognate linear RNAs, such as those derived from Gigyf2. Integrating polysome profiling and bioinformatic predictions suggested potential functions of certain circRNAs as miRNA sponges and translational templates. Collectively, this study provides the first comprehensive landscape of circRNAs in the developing spinal cord, offering an important resource and new insights for future exploration of functional circRNAs in central nervous system development and related diseases.
Website Age:
28 years and 1 months (reg. 1997-05-29).

Matching Content Categories {๐Ÿ“š}

  • Education
  • Science
  • Technology & Computing

Content Management System {๐Ÿ“}

What CMS is link.springer.com built with?

Custom-built

No common CMS systems were detected on Link.springer.com, and no known web development framework was identified.

Traffic Estimate {๐Ÿ“ˆ}

What is the average monthly size of link.springer.com audience?

๐ŸŒ  Phenomenal Traffic: 5M - 10M visitors per month


Based on our best estimate, this website will receive around 5,000,019 visitors per month in the current month.
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How Does Link.springer.com Make Money? {๐Ÿ’ธ}

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Keywords {๐Ÿ”}

circrnas, pubmed, expression, fig, spinal, article, cord, rat, circular, google, scholar, tissues, rnas, circrna, central, rna, development, cas, loci, datasets, mouse, linear, supplementary, file, showed, developing, analysis, sequencing, number, abundant, injury, abundance, including, yang, cns, total, zhang, bsj, host, cell, wang, chen, brain, rnaseq, system, top, generated, higher, functional, potential,

Topics {โœ’๏ธ}

org/pub/release-109/fasta/rattus_norvegicus/ long-term time-series dataset abnormal lncrna-mirna-mrna network article download pdf ciri-deep enables single-cell gtf-formatted annotation files long-term time-series synapse-related protein-coding genes framed k-mer features quantitative real-time pcr central nervous system analyzing rna-seq datasets cerebral ischemia-reperfusion injury rrna-depleted rna-seq full size image total rna-seq dataset user-friendly web application rnase r-treated transcriptomes fast gapped-read alignment ribosome-depleted rna sequencing targeting circular rna-zranb1 bbs9-dervied circrna ranked included rna-seq datasets mir-125a/b-5p sided unpaired t-test liftover command-line tool paired-end sequencing strategy zpbp-derived circrna ranked hspa1a-regulated gene expression molecular network features back-splicing junction sequences including mir-125b-2-3p high-throughput sequencing data relevant public datasets multiple rere-dervied circrnas rnase r-treated rna single-exon derived circrnas remove low-quality reads coding rna locus species-specific expression patterns injured-regulated circrna analysis raw sequencing data small sample size uncropped electrophoresis image results genome-wide characterization 15 rna-seq datasets 7 rna-seq datasets 22 rna-seq datasets rna-seq datasets dorsal root ganglion

Questions {โ“}

  • Whether this characteristic also present using the dataset of injured spinal cord?

Schema {๐Ÿ—บ๏ธ}

WebPage:
      mainEntity:
         headline:Genome-wide profiling and functional characterization of circular RNAs in neural development and injury: insights from a rat model research
         description:Circular RNAs (circRNAs) have re-emerged as promising gene regulators in various physiological and pathological conditions. However, the expression patterns of circRNAs in the developing spinal cord of mammals and the comprehensive distribution of circRNAs across different tissues remain poorly understood. In this study, rats were used as the model organism. We conducted a comprehensive analysis of 15 RNA-Seq datasets comprising 217 rat samples and developed a web-based resource, CiRNat, to facilitate access to these data. We identified 15,251 credible circRNAs and validated them through experimental approaches. Notably, we observed two significant time points for circRNA increase during spinal cord development, approximately at embryonic day 14 (E14d) and postnatal week 4 (P4w). Analysis of circRNA expression in various rat tissues revealed higher expression levels in central nervous system tissues compared to peripheral nervous system tissues and other tissues. Furthermore, some highly abundant circRNAs exhibited tissue- and species-specific expression patterns and differed from their cognate linear RNAs, such as those derived from Gigyf2. Integrating polysome profiling and bioinformatic predictions suggested potential functions of certain circRNAs as miRNA sponges and translational templates. Collectively, this study provides the first comprehensive landscape of circRNAs in the developing spinal cord, offering an important resource and new insights for future exploration of functional circRNAs in central nervous system development and related diseases.
         datePublished:2025-04-01T00:00:00Z
         dateModified:2025-04-01T00:00:00Z
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            CircRNA
            Neurogenesis
            Tissue-specific expression
            Gene regulation
            Nervous system
            Translational potential
            Cell Biology
            Biomedicine
            general
            Life Sciences
            Biochemistry
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                     address:
                        name:Department of Neurosurgery, Peopleโ€™s Hospital of Deyang City, Sichuan Clinical Research Center for Neurological Diseases, Deyang, China
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                     name:Nantong University
                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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                     address:
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               affiliation:
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                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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               name:Zhifeng Chen
               affiliation:
                     name:Nantong University
                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                        type:PostalAddress
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               name:Xiaoli Huang
               affiliation:
                     name:The Second Affiliated Hospital of Nantong University, Nantong University
                     address:
                        name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
                        type:PostalAddress
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               type:Person
               name:Guicai Li
               affiliation:
                     name:Nantong University
                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                        type:PostalAddress
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               name:Bin Yu
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                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                        type:PostalAddress
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               name:Jianhua Shi
               affiliation:
                     name:The Second Affiliated Hospital of Nantong University, Nantong University
                     address:
                        name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
                        type:PostalAddress
                     type:Organization
               type:Person
               name:Xiaosong Gu
               affiliation:
                     name:Nantong University
                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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                     address:
                        name:Department of Spine Surgery, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
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                     address:
                        name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                        type:PostalAddress
                     type:Organization
                     name:The Second Affiliated Hospital of Nantong University, Nantong University
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                        name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
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ScholarlyArticle:
      headline:Genome-wide profiling and functional characterization of circular RNAs in neural development and injury: insights from a rat model research
      description:Circular RNAs (circRNAs) have re-emerged as promising gene regulators in various physiological and pathological conditions. However, the expression patterns of circRNAs in the developing spinal cord of mammals and the comprehensive distribution of circRNAs across different tissues remain poorly understood. In this study, rats were used as the model organism. We conducted a comprehensive analysis of 15 RNA-Seq datasets comprising 217 rat samples and developed a web-based resource, CiRNat, to facilitate access to these data. We identified 15,251 credible circRNAs and validated them through experimental approaches. Notably, we observed two significant time points for circRNA increase during spinal cord development, approximately at embryonic day 14 (E14d) and postnatal week 4 (P4w). Analysis of circRNA expression in various rat tissues revealed higher expression levels in central nervous system tissues compared to peripheral nervous system tissues and other tissues. Furthermore, some highly abundant circRNAs exhibited tissue- and species-specific expression patterns and differed from their cognate linear RNAs, such as those derived from Gigyf2. Integrating polysome profiling and bioinformatic predictions suggested potential functions of certain circRNAs as miRNA sponges and translational templates. Collectively, this study provides the first comprehensive landscape of circRNAs in the developing spinal cord, offering an important resource and new insights for future exploration of functional circRNAs in central nervous system development and related diseases.
      datePublished:2025-04-01T00:00:00Z
      dateModified:2025-04-01T00:00:00Z
      pageStart:1
      pageEnd:20
      license:http://creativecommons.org/licenses/by-nc-nd/4.0/
      sameAs:https://doi.org/10.1007/s00018-025-05665-1
      keywords:
         CircRNA
         Neurogenesis
         Tissue-specific expression
         Gene regulation
         Nervous system
         Translational potential
         Cell Biology
         Biomedicine
         general
         Life Sciences
         Biochemistry
      image:
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      publisher:
         name:Springer International Publishing
         logo:
            url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
            type:ImageObject
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      author:
            name:Jian Yang
            url:http://orcid.org/0000-0001-6318-8854
            affiliation:
                  name:Sichuan Clinical Research Center for Neurological Diseases
                  address:
                     name:Department of Neurosurgery, Peopleโ€™s Hospital of Deyang City, Sichuan Clinical Research Center for Neurological Diseases, Deyang, China
                     type:PostalAddress
                  type:Organization
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Nana Jin
            affiliation:
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
                  name:The Second Affiliated Hospital of Nantong University, Nantong University
                  address:
                     name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Shuqiang Zhang
            affiliation:
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
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            name:Ya Tan
            affiliation:
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Zhifeng Chen
            affiliation:
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Xiaoli Huang
            affiliation:
                  name:The Second Affiliated Hospital of Nantong University, Nantong University
                  address:
                     name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Guicai Li
            affiliation:
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Bin Yu
            affiliation:
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Jianhua Shi
            affiliation:
                  name:The Second Affiliated Hospital of Nantong University, Nantong University
                  address:
                     name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Xiaosong Gu
            affiliation:
                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            email:[email protected]
            type:Person
            name:Zhiming Cui
            affiliation:
                  name:The Second Affiliated Hospital of Nantong University, Nantong University
                  address:
                     name:Department of Spine Surgery, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
            email:[email protected]
            type:Person
            name:Lian Xu
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                  name:Nantong University
                  address:
                     name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
                     type:PostalAddress
                  type:Organization
                  name:The Second Affiliated Hospital of Nantong University, Nantong University
                  address:
                     name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
                     type:PostalAddress
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         name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
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      name:Nantong University
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         name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
         type:PostalAddress
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         name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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            name:Sichuan Clinical Research Center for Neurological Diseases
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               name:Department of Neurosurgery, Peopleโ€™s Hospital of Deyang City, Sichuan Clinical Research Center for Neurological Diseases, Deyang, China
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            name:Nantong University
            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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            name:The Second Affiliated Hospital of Nantong University, Nantong University
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            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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            name:Nantong University
            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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            type:Organization
      name:Xiaoli Huang
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            name:The Second Affiliated Hospital of Nantong University, Nantong University
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            name:Nantong University
            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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            name:Nantong University
            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
               type:PostalAddress
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      name:Jianhua Shi
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            name:The Second Affiliated Hospital of Nantong University, Nantong University
            address:
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      affiliation:
            name:Nantong University
            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
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      name:Zhiming Cui
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            name:The Second Affiliated Hospital of Nantong University, Nantong University
            address:
               name:Department of Spine Surgery, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
               type:PostalAddress
            type:Organization
      email:[email protected]
      name:Lian Xu
      affiliation:
            name:Nantong University
            address:
               name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
               type:PostalAddress
            type:Organization
            name:The Second Affiliated Hospital of Nantong University, Nantong University
            address:
               name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
               type:PostalAddress
            type:Organization
      email:[email protected]
PostalAddress:
      name:Department of Neurosurgery, Peopleโ€™s Hospital of Deyang City, Sichuan Clinical Research Center for Neurological Diseases, Deyang, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Department of Spine Surgery, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China
      name:Key Laboratory of Neuroregeneration of Jiangsu and Ministry of Education, Co-Innovation Center of Neuroregeneration, NMPA Key Laboratory for Research and Evaluation of Tissue Engineering Technology Products, Nantong University, Nantong, China
      name:Institute for Translational Neuroscience, The Second Affiliated Hospital of Nantong University, Nantong University, Nantong, China

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