Chromosome 11-centric human proteome analysis of human brain hippocampus tissue

Kyung Hoon Kwon, Jin Young Kim, Se Young Kim, Hye Kyeong Min, Hyoung Joo Lee, In Jung Ji, Taewook Kang, Gun Wook Park, Hyun Joo An, Bonghee Lee, Rivka Ravid, Isidro Ferrer, Chun Kee Chung, Young-Ki Paik, William S. Hancock, Young Mok Park, Jong Shin Yoo

Research output: Contribution to journalArticle

18 Citations (Scopus)

Abstract

Human chromosome 11 is the third gene-rich chromosome having 1304 protein-coding genes. According to the GeneCards, this chromosome contains 240 genes related to diseases, as it is well known as a disease-rich chromosome. Although there are many protein-coding genes, the proteomic identification ratio is rather low. As a model study, human hippocampal tissues from patients suffering from Alzheimer's disease and epilepsy were prepared to evaluate the gene-centric statistics related to the gene expression and disorders of chromosome 11. A total of 8828 protein coding genes from brain tissues were extensively off-gel fractionated and profiled by a high resolution mass spectrometer with collision induced dissociation and electron transfer dissociation. Five-hundred twenty-three of the proteins from brain tissues were determined to belong to chromosome 11, representing 37% of the proteins reported in the Global Proteome Machine Database. We extracted gene clusters from a specific biological process or molecular function in gene ontology, among which the olfactory receptor genes showed the largest cluster on chromosome 11. Analysis of the proteome data set from the hippocampus provides a significant network associated with genes and proteins and leads to new insights into the biological and genetic mechanisms of chromosome 11-specific diseases such as Alzheimer's disease.

Original languageEnglish
Pages (from-to)97-105
Number of pages9
JournalJournal of Proteome Research
Volume12
Issue number1
DOIs
Publication statusPublished - 2013 Jan 4

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Chromosomes, Human, Pair 11
Proteome
Chromosomes
Hippocampus
Brain
Genes
Tissue
Dissociative Disorders
Proteins
Alzheimer Disease
Odorant Receptors
Biological Phenomena
Gene Ontology
Human Chromosomes
Multigene Family
Proteomics
Epilepsy
Gels
Mass spectrometers
Databases

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Chemistry(all)

Cite this

Kwon, K. H., Kim, J. Y., Kim, S. Y., Min, H. K., Lee, H. J., Ji, I. J., ... Yoo, J. S. (2013). Chromosome 11-centric human proteome analysis of human brain hippocampus tissue. Journal of Proteome Research, 12(1), 97-105. https://doi.org/10.1021/pr3008368
Kwon, Kyung Hoon ; Kim, Jin Young ; Kim, Se Young ; Min, Hye Kyeong ; Lee, Hyoung Joo ; Ji, In Jung ; Kang, Taewook ; Park, Gun Wook ; An, Hyun Joo ; Lee, Bonghee ; Ravid, Rivka ; Ferrer, Isidro ; Chung, Chun Kee ; Paik, Young-Ki ; Hancock, William S. ; Park, Young Mok ; Yoo, Jong Shin. / Chromosome 11-centric human proteome analysis of human brain hippocampus tissue. In: Journal of Proteome Research. 2013 ; Vol. 12, No. 1. pp. 97-105.
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abstract = "Human chromosome 11 is the third gene-rich chromosome having 1304 protein-coding genes. According to the GeneCards, this chromosome contains 240 genes related to diseases, as it is well known as a disease-rich chromosome. Although there are many protein-coding genes, the proteomic identification ratio is rather low. As a model study, human hippocampal tissues from patients suffering from Alzheimer's disease and epilepsy were prepared to evaluate the gene-centric statistics related to the gene expression and disorders of chromosome 11. A total of 8828 protein coding genes from brain tissues were extensively off-gel fractionated and profiled by a high resolution mass spectrometer with collision induced dissociation and electron transfer dissociation. Five-hundred twenty-three of the proteins from brain tissues were determined to belong to chromosome 11, representing 37{\%} of the proteins reported in the Global Proteome Machine Database. We extracted gene clusters from a specific biological process or molecular function in gene ontology, among which the olfactory receptor genes showed the largest cluster on chromosome 11. Analysis of the proteome data set from the hippocampus provides a significant network associated with genes and proteins and leads to new insights into the biological and genetic mechanisms of chromosome 11-specific diseases such as Alzheimer's disease.",
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Kwon, KH, Kim, JY, Kim, SY, Min, HK, Lee, HJ, Ji, IJ, Kang, T, Park, GW, An, HJ, Lee, B, Ravid, R, Ferrer, I, Chung, CK, Paik, Y-K, Hancock, WS, Park, YM & Yoo, JS 2013, 'Chromosome 11-centric human proteome analysis of human brain hippocampus tissue', Journal of Proteome Research, vol. 12, no. 1, pp. 97-105. https://doi.org/10.1021/pr3008368

Chromosome 11-centric human proteome analysis of human brain hippocampus tissue. / Kwon, Kyung Hoon; Kim, Jin Young; Kim, Se Young; Min, Hye Kyeong; Lee, Hyoung Joo; Ji, In Jung; Kang, Taewook; Park, Gun Wook; An, Hyun Joo; Lee, Bonghee; Ravid, Rivka; Ferrer, Isidro; Chung, Chun Kee; Paik, Young-Ki; Hancock, William S.; Park, Young Mok; Yoo, Jong Shin.

In: Journal of Proteome Research, Vol. 12, No. 1, 04.01.2013, p. 97-105.

Research output: Contribution to journalArticle

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T1 - Chromosome 11-centric human proteome analysis of human brain hippocampus tissue

AU - Kwon, Kyung Hoon

AU - Kim, Jin Young

AU - Kim, Se Young

AU - Min, Hye Kyeong

AU - Lee, Hyoung Joo

AU - Ji, In Jung

AU - Kang, Taewook

AU - Park, Gun Wook

AU - An, Hyun Joo

AU - Lee, Bonghee

AU - Ravid, Rivka

AU - Ferrer, Isidro

AU - Chung, Chun Kee

AU - Paik, Young-Ki

AU - Hancock, William S.

AU - Park, Young Mok

AU - Yoo, Jong Shin

PY - 2013/1/4

Y1 - 2013/1/4

N2 - Human chromosome 11 is the third gene-rich chromosome having 1304 protein-coding genes. According to the GeneCards, this chromosome contains 240 genes related to diseases, as it is well known as a disease-rich chromosome. Although there are many protein-coding genes, the proteomic identification ratio is rather low. As a model study, human hippocampal tissues from patients suffering from Alzheimer's disease and epilepsy were prepared to evaluate the gene-centric statistics related to the gene expression and disorders of chromosome 11. A total of 8828 protein coding genes from brain tissues were extensively off-gel fractionated and profiled by a high resolution mass spectrometer with collision induced dissociation and electron transfer dissociation. Five-hundred twenty-three of the proteins from brain tissues were determined to belong to chromosome 11, representing 37% of the proteins reported in the Global Proteome Machine Database. We extracted gene clusters from a specific biological process or molecular function in gene ontology, among which the olfactory receptor genes showed the largest cluster on chromosome 11. Analysis of the proteome data set from the hippocampus provides a significant network associated with genes and proteins and leads to new insights into the biological and genetic mechanisms of chromosome 11-specific diseases such as Alzheimer's disease.

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