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Volumn 100, Issue , 2014, Pages 60-67

The Human Proteome Organization Chromosome 6 Consortium: Integrating chromosome-centric and biology/disease driven strategies

Author keywords

Chromosome 6; Human Proteome Project; Proteomics

Indexed keywords

PROTEOME; HLA ANTIGEN; HLA DQ ANTIGEN; LIGAND; MEMBRANE PROTEIN; TRANSCRIPTION FACTOR;

EID: 84897055735     PISSN: 18743919     EISSN: 18767737     Source Type: Journal    
DOI: 10.1016/j.jprot.2013.08.001     Document Type: Review
Times cited : (9)

References (54)
  • 3
    • 77957910119 scopus 로고    scopus 로고
    • Dementia revealed: novel chromosome 6 locus for late-onset Alzheimer disease provides genetic evidence for folate-pathway abnormalities
    • Naj A.C., Beecham G.W., Martin E.R., Gallins P.J., Powell E.H., Konidari I., et al. Dementia revealed: novel chromosome 6 locus for late-onset Alzheimer disease provides genetic evidence for folate-pathway abnormalities. PLoS Genet 2010, 6:e1001130. 10.1371/journal.pgen.1001130.
    • (2010) PLoS Genet , vol.6
    • Naj, A.C.1    Beecham, G.W.2    Martin, E.R.3    Gallins, P.J.4    Powell, E.H.5    Konidari, I.6
  • 5
    • 73349125417 scopus 로고    scopus 로고
    • Somatic mutations of the Parkinson's disease-associated gene PARK2 in glioblastoma and other human malignancies
    • Veeriah S., Taylor B.S., Meng S., Fang F., Yilmaz E., Vivanco I., et al. Somatic mutations of the Parkinson's disease-associated gene PARK2 in glioblastoma and other human malignancies. Nat Genet 2010, 42:77-82.
    • (2010) Nat Genet , vol.42 , pp. 77-82
    • Veeriah, S.1    Taylor, B.S.2    Meng, S.3    Fang, F.4    Yilmaz, E.5    Vivanco, I.6
  • 9
    • 84897074364 scopus 로고    scopus 로고
    • AARDA, NCAPG, American Autoimmune Related Disease Association (AARDA) and the National Coalition of Autoimmune Patient Groups (NCAPG)
    • AARDA, NCAPG The cost burden of autoimmune disease: the latest front in the war on healthcare spending 2000, American Autoimmune Related Disease Association (AARDA) and the National Coalition of Autoimmune Patient Groups (NCAPG).
    • (2000) The cost burden of autoimmune disease: the latest front in the war on healthcare spending
  • 11
    • 36348969388 scopus 로고    scopus 로고
    • The 6p subtelomere deletion syndrome
    • DeScipio C. The 6p subtelomere deletion syndrome. Am J Med Genet C Semin Med Genet 2007, 145C:377-382.
    • (2007) Am J Med Genet C Semin Med Genet , vol.145 C , pp. 377-382
    • DeScipio, C.1
  • 12
    • 78649433731 scopus 로고    scopus 로고
    • Canadian Diabetes Association, Canadian Diabetes Association
    • Canadian Diabetes Association The prevalence and costs of diabetes 2009, Canadian Diabetes Association.
    • (2009) The prevalence and costs of diabetes
  • 13
    • 57849084401 scopus 로고    scopus 로고
    • Prevalence of multiple sclerosis in Canada: a systematic review
    • Poppe A.Y., Wolfson C., Zhu B. Prevalence of multiple sclerosis in Canada: a systematic review. Can J Neurol Sci 2008, 35:593-601.
    • (2008) Can J Neurol Sci , vol.35 , pp. 593-601
    • Poppe, A.Y.1    Wolfson, C.2    Zhu, B.3
  • 16
    • 0029928783 scopus 로고    scopus 로고
    • Greatly raised vascular endothelial growth factor (VEGF) in POEMS syndrome
    • Watanabe O., Arimura K., Kitajima I., Osame M., Maruyama I. Greatly raised vascular endothelial growth factor (VEGF) in POEMS syndrome. Lancet 1996, 347:702.
    • (1996) Lancet , vol.347 , pp. 702
    • Watanabe, O.1    Arimura, K.2    Kitajima, I.3    Osame, M.4    Maruyama, I.5
  • 17
    • 0033555432 scopus 로고    scopus 로고
    • Detailed deletion mapping of the long arm of chromosome 6 in adult T-cell leukemia
    • Hatta Y., Yamada Y., Tomonaga M., Miyoshi I., Said J.W., Koeffler H.P. Detailed deletion mapping of the long arm of chromosome 6 in adult T-cell leukemia. Blood 1999, 93:613-616.
    • (1999) Blood , vol.93 , pp. 613-616
    • Hatta, Y.1    Yamada, Y.2    Tomonaga, M.3    Miyoshi, I.4    Said, J.W.5    Koeffler, H.P.6
  • 18
    • 0038207949 scopus 로고    scopus 로고
    • Evidence for whole chromosome 6 loss and duplication of the remaining chromosome in acute lymphoblastic leukemia
    • McEvoy C.R., Morley A.A., Firgaira F.A. Evidence for whole chromosome 6 loss and duplication of the remaining chromosome in acute lymphoblastic leukemia. Genes Chromosomes Cancer 2003, 37:321-325.
    • (2003) Genes Chromosomes Cancer , vol.37 , pp. 321-325
    • McEvoy, C.R.1    Morley, A.A.2    Firgaira, F.A.3
  • 19
    • 33744494284 scopus 로고    scopus 로고
    • Genomic gain at 6p21: a new cryptic molecular rearrangement in secondary myelodysplastic syndrome and acute myeloid leukemia
    • La Starza R., Aventin A., Matteucci C., Crescenzi B., Romoli S., Testoni N., et al. Genomic gain at 6p21: a new cryptic molecular rearrangement in secondary myelodysplastic syndrome and acute myeloid leukemia. Leukemia 2006, 20:958-964.
    • (2006) Leukemia , vol.20 , pp. 958-964
    • La Starza, R.1    Aventin, A.2    Matteucci, C.3    Crescenzi, B.4    Romoli, S.5    Testoni, N.6
  • 20
    • 84855379048 scopus 로고    scopus 로고
    • Copy number variation at 6q13 functions as a long-range regulator and is associated with pancreatic cancer risk
    • Huang L., Yu D., Wu C., Zhai K., Jiang G., Cao G., et al. Copy number variation at 6q13 functions as a long-range regulator and is associated with pancreatic cancer risk. Carcinogenesis 2012, 33:94-100.
    • (2012) Carcinogenesis , vol.33 , pp. 94-100
    • Huang, L.1    Yu, D.2    Wu, C.3    Zhai, K.4    Jiang, G.5    Cao, G.6
  • 21
    • 84862910604 scopus 로고    scopus 로고
    • A genome-wide meta-analysis of nodular sclerosing Hodgkin lymphoma identifies risk loci at 6p21.32
    • Cozen W., Li D., Best T., Van Den Berg D.J., Gourraud P.A., Cortessis V.K., et al. A genome-wide meta-analysis of nodular sclerosing Hodgkin lymphoma identifies risk loci at 6p21.32. Blood 2012, 119:469-475.
    • (2012) Blood , vol.119 , pp. 469-475
    • Cozen, W.1    Li, D.2    Best, T.3    Van Den Berg, D.J.4    Gourraud, P.A.5    Cortessis, V.K.6
  • 23
    • 80155148301 scopus 로고    scopus 로고
    • The Eph-receptor A7 is a soluble tumor suppressor for follicular lymphoma
    • Oricchio E., Nanjangud G., Wolfe A.L., Schatz J.H., Mavrakis K.J., Jiang M., et al. The Eph-receptor A7 is a soluble tumor suppressor for follicular lymphoma. Cell 2011, 147:554-564.
    • (2011) Cell , vol.147 , pp. 554-564
    • Oricchio, E.1    Nanjangud, G.2    Wolfe, A.L.3    Schatz, J.H.4    Mavrakis, K.J.5    Jiang, M.6
  • 24
    • 0032526056 scopus 로고    scopus 로고
    • Frequent loss of heterozygosity on the long arm of chromosome 6: identification of two distinct regions of deletion in childhood acute lymphoblastic leukemia
    • Takeuchi S., Koike M., Seriu T., Bartram C.R., Schrappe M., Reiter A., et al. Frequent loss of heterozygosity on the long arm of chromosome 6: identification of two distinct regions of deletion in childhood acute lymphoblastic leukemia. Cancer Res 1998, 58:2618-2623.
    • (1998) Cancer Res , vol.58 , pp. 2618-2623
    • Takeuchi, S.1    Koike, M.2    Seriu, T.3    Bartram, C.R.4    Schrappe, M.5    Reiter, A.6
  • 25
    • 0032845683 scopus 로고    scopus 로고
    • Incidence and clinical significance of 6q deletions in B cell chronic lymphocytic leukemia
    • Stilgenbauer S., Bullinger L., Benner A., Wildenberger K., Bentz M., Dohner K., et al. Incidence and clinical significance of 6q deletions in B cell chronic lymphocytic leukemia. Leukemia 1999, 13:1331-1334.
    • (1999) Leukemia , vol.13 , pp. 1331-1334
    • Stilgenbauer, S.1    Bullinger, L.2    Benner, A.3    Wildenberger, K.4    Bentz, M.5    Dohner, K.6
  • 26
    • 33748493390 scopus 로고    scopus 로고
    • Array comparative genomic hybridization reveals a very high frequency of deletions of the long arm of chromosome 6 in testicular lymphoma
    • Bosga-Bouwer A.G., Kok K., Booman M., Boven L., van der Vlies P., van den Berg A., et al. Array comparative genomic hybridization reveals a very high frequency of deletions of the long arm of chromosome 6 in testicular lymphoma. Genes Chromosomes Cancer 2006, 45:976-981.
    • (2006) Genes Chromosomes Cancer , vol.45 , pp. 976-981
    • Bosga-Bouwer, A.G.1    Kok, K.2    Booman, M.3    Boven, L.4    van der Vlies, P.5    van den Berg, A.6
  • 27
    • 67650564834 scopus 로고    scopus 로고
    • Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma
    • Addona T.A., Abbatiello S.E., Schilling B., Skates S.J., Mani D.R., Bunk D.M., et al. Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nat Biotechnol 2009, 27:633-641.
    • (2009) Nat Biotechnol , vol.27 , pp. 633-641
    • Addona, T.A.1    Abbatiello, S.E.2    Schilling, B.3    Skates, S.J.4    Mani, D.R.5    Bunk, D.M.6
  • 28
    • 71049187147 scopus 로고    scopus 로고
    • Quantification of cardiovascular biomarkers in patient plasma by targeted mass spectrometry and stable isotope dilution
    • Keshishian H., Addona T., Burgess M., Mani D.R., Shi X., Kuhn E., et al. Quantification of cardiovascular biomarkers in patient plasma by targeted mass spectrometry and stable isotope dilution. Mol Cell Proteomics 2009, 8:2339-2349.
    • (2009) Mol Cell Proteomics , vol.8 , pp. 2339-2349
    • Keshishian, H.1    Addona, T.2    Burgess, M.3    Mani, D.R.4    Shi, X.5    Kuhn, E.6
  • 29
    • 53049096977 scopus 로고    scopus 로고
    • Multiple reaction monitoring of mTRAQ-labeled peptides enables absolute quantification of endogenous levels of a potential cancer marker in cancerous and normal endometrial tissues
    • DeSouza L.V., Taylor A.M., Li W., Minkoff M.S., Romaschin A.D., Colgan T.J., et al. Multiple reaction monitoring of mTRAQ-labeled peptides enables absolute quantification of endogenous levels of a potential cancer marker in cancerous and normal endometrial tissues. J Proteome Res 2008, 7:3525-3534.
    • (2008) J Proteome Res , vol.7 , pp. 3525-3534
    • DeSouza, L.V.1    Taylor, A.M.2    Li, W.3    Minkoff, M.S.4    Romaschin, A.D.5    Colgan, T.J.6
  • 30
    • 71049137289 scopus 로고    scopus 로고
    • Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma
    • Kuzyk M.A., Smith D., Yang J., Cross T.J., Jackson A.M., Hardie D.B., et al. Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma. Mol Cell Proteomics 2009, 8:1860-1877.
    • (2009) Mol Cell Proteomics , vol.8 , pp. 1860-1877
    • Kuzyk, M.A.1    Smith, D.2    Yang, J.3    Cross, T.J.4    Jackson, A.M.5    Hardie, D.B.6
  • 31
    • 8844233567 scopus 로고    scopus 로고
    • Mass spectrometric quantitation of peptides and proteins using Stable Isotope Standards and Capture by Anti-Peptide Antibodies (SISCAPA)
    • Anderson N.L., Anderson N.G., Haines L.R., Hardie D.B., Olafson R.W., Pearson T.W. Mass spectrometric quantitation of peptides and proteins using Stable Isotope Standards and Capture by Anti-Peptide Antibodies (SISCAPA). J Proteome Res 2004, 3:235-244.
    • (2004) J Proteome Res , vol.3 , pp. 235-244
    • Anderson, N.L.1    Anderson, N.G.2    Haines, L.R.3    Hardie, D.B.4    Olafson, R.W.5    Pearson, T.W.6
  • 32
    • 77956878144 scopus 로고    scopus 로고
    • Towards the development of an immuno MALDI (iMALDI) mass spectrometry assay for the diagnosis of hypertension
    • Reid J.D., Holmes D.T., Mason D.R., Shah B., Borchers C.H. Towards the development of an immuno MALDI (iMALDI) mass spectrometry assay for the diagnosis of hypertension. J Am Soc Mass Spectrom 2010, 21:1680-1686.
    • (2010) J Am Soc Mass Spectrom , vol.21 , pp. 1680-1686
    • Reid, J.D.1    Holmes, D.T.2    Mason, D.R.3    Shah, B.4    Borchers, C.H.5
  • 33
    • 70450106216 scopus 로고    scopus 로고
    • Improved prediction of protein side-chain conformations with SCWRL4
    • Krivov G.G., Shapovalov M.V., Dunbrack J., Roland L. Improved prediction of protein side-chain conformations with SCWRL4. Proteins 2009, 77:778-795.
    • (2009) Proteins , vol.77 , pp. 778-795
    • Krivov, G.G.1    Shapovalov, M.V.2    Dunbrack, J.3    Roland, L.4
  • 34
    • 77953955973 scopus 로고    scopus 로고
    • A fast protein-ligand docking algorithm based on hydrogen bond matching and surface shape complementarity
    • Luo W, Pei J, Zhu Y. A fast protein-ligand docking algorithm based on hydrogen bond matching and surface shape complementarity. J Mol Model 16: 903-913.
    • J Mol Model , vol.16 , pp. 903-913
    • Luo, W.1    Pei, J.2    Zhu, Y.3
  • 35
    • 0034521981 scopus 로고    scopus 로고
    • Calculating structures and free energies of complex molecules: combining molecular mechanics and continuum models
    • Kollman P.A., Massova I., Reyes C., Kuhn B., Huo S., Chong L., et al. Calculating structures and free energies of complex molecules: combining molecular mechanics and continuum models. Acc Chem Res 2000, 33:889-897.
    • (2000) Acc Chem Res , vol.33 , pp. 889-897
    • Kollman, P.A.1    Massova, I.2    Reyes, C.3    Kuhn, B.4    Huo, S.5    Chong, L.6
  • 37
    • 38449121521 scopus 로고    scopus 로고
    • Pillars article: characterization of peptides bound to the class I MHC molecule HLA-A2.1 by mass spectrometry. Science 1992. 255: 1261-1263
    • Hunt D.F., Henderson R.A., Shabanowitz J., Sakaguchi K., Michel H., Sevilir N., et al. Pillars article: characterization of peptides bound to the class I MHC molecule HLA-A2.1 by mass spectrometry. Science 1992. 255: 1261-1263. J Immunol 2007, 179:2669-2671.
    • (2007) J Immunol , vol.179 , pp. 2669-2671
    • Hunt, D.F.1    Henderson, R.A.2    Shabanowitz, J.3    Sakaguchi, K.4    Michel, H.5    Sevilir, N.6
  • 41
    • 79953179678 scopus 로고    scopus 로고
    • Immunization with live and dead Chlamydia muridarum induces different levels of protective immunity in a murine genital tract model: correlation with MHC class II peptide presentation and multifunctional Th1 cells
    • Yu H., Karunakaran K.P., Kelly I., Shen C., Jiang X., Foster L.J., et al. Immunization with live and dead Chlamydia muridarum induces different levels of protective immunity in a murine genital tract model: correlation with MHC class II peptide presentation and multifunctional Th1 cells. J Immunol 2011, 186:3615-3621.
    • (2011) J Immunol , vol.186 , pp. 3615-3621
    • Yu, H.1    Karunakaran, K.P.2    Kelly, I.3    Shen, C.4    Jiang, X.5    Foster, L.J.6
  • 42
    • 0035241690 scopus 로고    scopus 로고
    • Mass spectrometry in proteomics
    • Aebersold R., Goodlett D.R. Mass spectrometry in proteomics. Chem Rev 2001, 101:269-295.
    • (2001) Chem Rev , vol.101 , pp. 269-295
    • Aebersold, R.1    Goodlett, D.R.2
  • 43
    • 0036218697 scopus 로고    scopus 로고
    • Producing nature's gene-chips: the generation of peptides for display by MHC class I molecules
    • Shastri N., Schwab S., Serwold T. Producing nature's gene-chips: the generation of peptides for display by MHC class I molecules. Annu Rev Immunol 2002, 20:463-493.
    • (2002) Annu Rev Immunol , vol.20 , pp. 463-493
    • Shastri, N.1    Schwab, S.2    Serwold, T.3
  • 44
    • 0025855156 scopus 로고
    • Allele-specific motifs revealed by sequencing of self-peptides eluted from MHC molecules
    • Falk K., Rötzschke O., Stevanović S., Jung G., Rammensee H.G. Allele-specific motifs revealed by sequencing of self-peptides eluted from MHC molecules. Nature 1991, 351:290-296.
    • (1991) Nature , vol.351 , pp. 290-296
    • Falk, K.1    Rötzschke, O.2    Stevanović, S.3    Jung, G.4    Rammensee, H.G.5
  • 45
    • 84860869256 scopus 로고    scopus 로고
    • MRM-based multiplexed quantitation of 67 putative cardiovascular disease biomarkers in human plasma
    • Domanski D., Percy A.J., Yang J., Chambers A.G., Hill J.S., Freue G.V., et al. MRM-based multiplexed quantitation of 67 putative cardiovascular disease biomarkers in human plasma. Proteomics 2012, 12:1222-1243.
    • (2012) Proteomics , vol.12 , pp. 1222-1243
    • Domanski, D.1    Percy, A.J.2    Yang, J.3    Chambers, A.G.4    Hill, J.S.5    Freue, G.V.6
  • 46
    • 80052521703 scopus 로고    scopus 로고
    • High-flow multiplexed MRM-based analysis of proteins in human plasma without depletion or enrichment
    • Domanski D., Smith D.S., Miller C.A., Yang Y., Jackson A.M., Cohen-Freue G., et al. High-flow multiplexed MRM-based analysis of proteins in human plasma without depletion or enrichment. Clin Lab Med 2011, 31:371-384.
    • (2011) Clin Lab Med , vol.31 , pp. 371-384
    • Domanski, D.1    Smith, D.S.2    Miller, C.A.3    Yang, Y.4    Jackson, A.M.5    Cohen-Freue, G.6
  • 47
    • 84865584319 scopus 로고    scopus 로고
    • Comparison of standard-flow and nano-flow liquid chromatography systems for MRM-based quantitation of putative plasma biomarker proteins
    • Percy A.J., Chambers A.G., Yang J., Domanski D., Borchers C.H. Comparison of standard-flow and nano-flow liquid chromatography systems for MRM-based quantitation of putative plasma biomarker proteins. Anal Bioanal Chem 2012, 404:1089-1101.
    • (2012) Anal Bioanal Chem , vol.404 , pp. 1089-1101
    • Percy, A.J.1    Chambers, A.G.2    Yang, J.3    Domanski, D.4    Borchers, C.H.5
  • 48
    • 77749320923 scopus 로고    scopus 로고
    • Isotopic labeling of terminal amines in complex samples identifies protein N-termini and protease cleavage products
    • Kleifeld O., Doucet A., auf dem Keller U., Prudova A., Schilling O., Kainthan R.K., et al. Isotopic labeling of terminal amines in complex samples identifies protein N-termini and protease cleavage products. Nat Biotechnol 2010, 28:281-288.
    • (2010) Nat Biotechnol , vol.28 , pp. 281-288
    • Kleifeld, O.1    Doucet, A.2    Keller, U.3    Prudova, A.4    Schilling, O.5    Kainthan, R.K.6
  • 49
    • 80053404377 scopus 로고    scopus 로고
    • Identifying and quantifying proteolytic events and the natural N terminome by terminal amine isotopic labeling of substrates
    • Kleifeld O., Doucet A., Prudova A., auf dem Keller U., Gioia M., Kizhakkedathu J.N., et al. Identifying and quantifying proteolytic events and the natural N terminome by terminal amine isotopic labeling of substrates. Nat Protoc 2011, 6:1578-1611.
    • (2011) Nat Protoc , vol.6 , pp. 1578-1611
    • Kleifeld, O.1    Doucet, A.2    Prudova, A.3    Keller, U.4    Gioia, M.5    Kizhakkedathu, J.N.6
  • 50
    • 77954693076 scopus 로고    scopus 로고
    • Proteome-wide analysis of protein carboxy termini: C terminomics
    • Schilling O., Barré O., Huesgen P.F., Overall C.M. Proteome-wide analysis of protein carboxy termini: C terminomics. Nat Methods 2010, 7:508-511.
    • (2010) Nat Methods , vol.7 , pp. 508-511
    • Schilling, O.1    Barré, O.2    Huesgen, P.F.3    Overall, C.M.4
  • 51
    • 80052290625 scopus 로고    scopus 로고
    • TopFIND, a knowledgebase linking protein termini with function
    • Lange P.F., Overall C.M. TopFIND, a knowledgebase linking protein termini with function. Nat Meth 2011, 8:703-704.
    • (2011) Nat Meth , vol.8 , pp. 703-704
    • Lange, P.F.1    Overall, C.M.2
  • 52
    • 84897066300 scopus 로고    scopus 로고
    • Ensembles of protein termini are sensitive and specific proteolytic signature biomarkers of disease
    • [in press]
    • Huesgen P.F., Lange P.F., Ovarall C.M. Ensembles of protein termini are sensitive and specific proteolytic signature biomarkers of disease. J Prot 2013, [in press].
    • (2013) J Prot
    • Huesgen, P.F.1    Lange, P.F.2    Ovarall, C.M.3
  • 53
    • 84897097267 scopus 로고    scopus 로고
    • Absolute proteomic quantification of the activity state of proteases and proteolytic cleavages using proteolytic signature peptides and isobaric tags
    • Fahlman R.P., Chen W., Overall C.M. Absolute proteomic quantification of the activity state of proteases and proteolytic cleavages using proteolytic signature peptides and isobaric tags. J Prot 2014, 100:79-91.
    • (2014) J Prot , vol.100 , pp. 79-91
    • Fahlman, R.P.1    Chen, W.2    Overall, C.M.3
  • 54
    • 84897104877 scopus 로고    scopus 로고
    • Annotating N termini for the Human Proteome Project: N termini differentiate stable processed protein species from degradation remnants in the human erythrocyte proteome
    • [in press]
    • Lange P.F., Huesgen P.F., Overall C.M. Annotating N termini for the Human Proteome Project: N termini differentiate stable processed protein species from degradation remnants in the human erythrocyte proteome. J Prot 2013, [in press].
    • (2013) J Prot
    • Lange, P.F.1    Huesgen, P.F.2    Overall, C.M.3


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