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  • 1
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    Proteomics. Tissue-based map of the human proteome (2015)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2015-01-24
    Description: Resolving the molecular details of proteome variation in the different tissues and organs of the human body will greatly increase our knowledge of human biology and disease. Here, we present a map of the human tissue proteome based on an integrated omics approach that involves quantitative transcriptomics at the tissue and organ level, combined with tissue microarray-based immunohistochemistry, to achieve spatial localization of proteins down to the single-cell level. Our tissue-based analysis detected more than 90% of the putative protein-coding genes. We used this approach to explore the human secretome, the membrane proteome, the druggable proteome, the cancer proteome, and the metabolic functions in 32 different tissues and organs. All the data are integrated in an interactive Web-based database that allows exploration of individual proteins, as well as navigation of global expression patterns, in all major tissues and organs in the human body.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Uhlen, Mathias -- Fagerberg, Linn -- Hallstrom, Bjorn M -- Lindskog, Cecilia -- Oksvold, Per -- Mardinoglu, Adil -- Sivertsson, Asa -- Kampf, Caroline -- Sjostedt, Evelina -- Asplund, Anna -- Olsson, IngMarie -- Edlund, Karolina -- Lundberg, Emma -- Navani, Sanjay -- Szigyarto, Cristina Al-Khalili -- Odeberg, Jacob -- Djureinovic, Dijana -- Takanen, Jenny Ottosson -- Hober, Sophia -- Alm, Tove -- Edqvist, Per-Henrik -- Berling, Holger -- Tegel, Hanna -- Mulder, Jan -- Rockberg, Johan -- Nilsson, Peter -- Schwenk, Jochen M -- Hamsten, Marica -- von Feilitzen, Kalle -- Forsberg, Mattias -- Persson, Lukas -- Johansson, Fredric -- Zwahlen, Martin -- von Heijne, Gunnar -- Nielsen, Jens -- Ponten, Fredrik -- New York, N.Y. -- Science. 2015 Jan 23;347(6220):1260419. doi: 10.1126/science.1260419.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Science for Life Laboratory, KTH-Royal Institute of Technology, SE-171 21 Stockholm, Sweden. Department of Proteomics, KTH-Royal Institute of Technology, SE-106 91 Stockholm, Sweden. Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2970 Horsholm, Denmark. mathias.uhlen@scilifelab.se. ; Science for Life Laboratory, KTH-Royal Institute of Technology, SE-171 21 Stockholm, Sweden. ; Science for Life Laboratory, KTH-Royal Institute of Technology, SE-171 21 Stockholm, Sweden. Department of Proteomics, KTH-Royal Institute of Technology, SE-106 91 Stockholm, Sweden. ; Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, SE-751 85 Uppsala, Sweden. ; Department of Chemical and Biological Engineering, Chalmers University of Technology, SE-412 96 Gothenburg, Sweden. ; Science for Life Laboratory, KTH-Royal Institute of Technology, SE-171 21 Stockholm, Sweden. Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, SE-751 85 Uppsala, Sweden. ; Leibniz Research Centre for Working Environment and Human Factors (IfADo) at Dortmund TU, D-44139 Dortmund, Germany. ; Lab Surgpath, Mumbai, India. ; Department of Proteomics, KTH-Royal Institute of Technology, SE-106 91 Stockholm, Sweden. ; Science for Life Laboratory, Department of Neuroscience, Karolinska Institute, SE-171 77 Stockholm, Sweden. ; Center for Biomembrane Research, Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden. ; Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2970 Horsholm, Denmark. Department of Chemical and Biological Engineering, Chalmers University of Technology, SE-412 96 Gothenburg, Sweden.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25613900" target="_blank"〉PubMed〈/a〉
    Keywords: Alternative Splicing ; Cell Line ; *Databases, Protein ; Female ; Genes ; Genetic Code ; Humans ; Internet ; Male ; Membrane Proteins/genetics/metabolism ; Mitochondrial Proteins/genetics/metabolism ; Neoplasms/genetics/metabolism ; Protein Array Analysis ; Protein Isoforms/genetics/metabolism ; Proteome/genetics/*metabolism ; Tissue Distribution ; Transcription, Genetic
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 2
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    The crystal structure of comancheite, Formula(OH,NH2)4(Cl,Br)34, and crystal-chemical and spectroscopic discrimination of N3- and O2- anions in Hg2+ compounds (2013)
    Mineralogical Society of Great Britain and Ireland
    Details
    Publication Date: 2013-12-24
    Description: The crystal structure of comancheite, $${\mathrm{Hg}}_{55}^{2+}{\mathrm{N}}_{24}^{3-}$$ (OH,NH 2 ) 4 (Cl,Br) 34 , orthorhombic, space group Pnnm, a = 18.414(5), b = 21.328(6), c = 6.6976(19)Å, V = 2630(2)Å 3 , Z = 1, was solved by direct methods and refined to an R 1 index of 4.3% based on 4160 unique observed reflections. In the structure of comancheite, there are nine crystallographically distinct Hg 2+ cations, each of which is coordinated by two N 3– anions to form near-linear N 3– –Hg 2+ –N 3– groups. Four other crystallographically distinct Hg 2+ cations are coordinated by a mixture of N 3– , O 2– , (OH) – and (NH 2 ) – anions, and there is a small amount of [Hg–Hg] 2+ dimer. In addition, there are eight crystallographically distinct halogen sites, three of which are completely occupied by Cl – , and five of which are occupied by both Cl – and Br – . The principal anion, N 3– , shows a strong preference for tetrahedral coordination by Hg 2+ , which results in a strongly bonded three-dimensional {–Hg 2+ –N 3– –} framework. This framework is both interrupted and contains large interstices that incorporate additional Hg 2+ cations, a very small amount of [Hg + –Hg + ] 2+ dimer and additional anion species, O 2– , (OH) – and (NH 2 ) – , that coordinate Hg 2+ . Comancheite was described originally as an Hg-oxide mineral. The major change in chemical composition indicated by the present work was approved by the Commission on New Minerals, Nomenclature and Classification of the International Mineralogical Association (Voting Proposal 13-B). The presence of N provides some analytical challenges, particularly in the presence of Hg. New bond-valence parameters were derived for Hg 2+ –N 3– bonds [R o N 3– ) = 1.95] using well refined Hg 2+ structures, and this allows discrimination between Hg 2+ –O 2– and Hg 2+ –N 3– bonds based on the valence-sum rule. Comparison of the Raman spectra of several Hg-bearing minerals shows that peaks in the range 500–700 cm –1 are characteristic of Hg 2+ –N 3– stretching vibrations whereas peaks in the range 350–500 cm –1 are characteristic of Hg 2+ –O 2– stretching vibrations; Hg 2+ –O 2– and Hg 2+ –N 3– bonds may be discriminated on this basis.
    Print ISSN: 0026-461X
    Electronic ISSN: 1471-8022
    Topics: Geosciences
    Published by Mineralogical Society of Great Britain and Ireland
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  • 3
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    BACKITE, Pb2Al(TeO6)Cl, A NEW TELLURATE MINERAL FROM THE GRAND CENTRAL MINE, TOMBSTONE HILLS, COCHISE COUNTY, ARIZONA: DESCRIPTION AND CRYSTAL STRUCTURE (2015)
    Mineralogical Association of Canada
    Details
    Publication Date: 2015-07-22
    Description: A bstract Backite, Pb 2 Al(TeO 6 )Cl, is a new tellurate mineral from the Grand Central mine, Tombstone Hills, Cochise County, Arizona. It occurs as rosettes of hexagonal plates perched on microcrystalline quartz, associated with schieffelinite, oboyerite, and rodalquilarite. Backite is dark to pale blue-grey, moderately transparent with opacity increasing with intensity of color, has a very pale bluish-grey streak, an adamantine luster, and does not fluoresce under ultraviolet light. It has a perfect micaceous cleavage parallel to {001}. Mohs hardness is 2–3, and backite is brittle with a splintery fracture. The calculated density is 5.573 g/cm 3 . The indices of refraction are greater than 1.80, and grains are pleochroic in shades of blue-grey. Backite is trigonal, space group P 312, a 5.0441(7), c 9.4210(5) Å, V 205.58(8) Å 3 , Z = 1, c:a = 1:1.868. The six strongest lines in the X-ray powder diffraction pattern are as follows: d (Å), I , ( h k l ): 3.193, 100, (012); 4.363, 55, (010); 2.521, 55, (013, 20); 1.555, 35, (32, 122); 1.978, 28, (022); 1.715, 20, (015, 24, 114). Chemical analysis by electron microprobe gave TeO 3 24.05, Al 2 O 3 7.07, PbO 63.74, S 1.15, Cl 2.28, O + Cl –1.09, sum 97.20 wt.% where the valence states of Te, Pb, and S were determined by crystal-structure analysis. The resulting empirical formula on the basis of 6 O anions is Pb 2.05 Al 1.00 Te 0.98 O 6 (Cl 0.46 S 0.26 ) and the endmember formula is Pb 2 AlTeO 6 Cl. The crystal structure of backite was solved by direct methods and refined to an R 1 index of 4.20% based on 422 observed reflections collected with a three-circle rotating-anode diffractometer using Mo K α X-radiation. In the structure of backite, Te and Al octahedra occupy the vertices of a 6 3 net and each octahedron shares three edges with three adjacent octahedra. These layers of octahedra repeat along the c direction and are linked by a thick slab of lone-pair stereoactive Pb 2+ cations and Cl – anions. The structure is held together in the c direction by long, weak Pb–Cl bonds, accounting for the perfect cleavage parallel to {001}.
    Print ISSN: 0008-4476
    Topics: Geosciences
    Published by Mineralogical Association of Canada
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  • 4
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    The crystal structure of gianellaite, [(NHg2)2](SO4)(H2O)x, a framework of (NHg4) tetrahedra with ordered (SO4) groups in the interstices (2016)
    Mineralogical Society of Great Britain and Ireland
    Details
    Publication Date: 2016-09-24
    Description: The crystal structure of gianellaite, [(NHg 2 ) 2 ](SO 4 )(H 2 O) x , cubic, F 3 m , a = 9.521(6) Å V = 863.1(1.6) Å 3 , Z = 4, was solved by direct methods and refined to an R 1 index of 2.1% based on 167 unique observed reflections collected on a three-circle rotating-anode (Mo K α X-radiation) diffractometer equipped with multilayer optics and an APEX-II detector. In the structure of gianellaite, nitrogen-centred (NHg 4 ) 5+ tetrahedra share all corners to form a framework of tetrahedra with an ordered arrangement of interstitial (SO 4 ) 2– tetrahedra that show strong orientational disorder. Infrared spectroscopy in the principal O–H stretching region shows peaks at ~3300 and 1600 cm –1 , indicating the presence of (H 2 O), the position(s) of which could not be discerned in difference-Fourier maps.
    Print ISSN: 0026-461X
    Electronic ISSN: 1471-8022
    Topics: Geosciences
    Published by Mineralogical Society of Great Britain and Ireland
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  • 5
    Electronic Resource
    Electronic Resource
    The membrane-bound electron-transfer components of aerobically grown Chromatium vinosum
    Amsterdam : Elsevier
    Biochimica et Biophysica Acta (BBA)/Bioenergetics 808 (1985), S. 85-93 
    Details
    ISSN: 0005-2728
    Keywords: (C. vinosum) ; Cytochrome ; Electron transport ; Iron-sulfur protein
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology , Chemistry and Pharmacology , Medicine , Physics
    Type of Medium: Electronic Resource
    URL: http://linkinghub.elsevier.com/retrieve/pii/0005-2728(85)90030-1
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  • 6
    Electronic Resource
    Electronic Resource
    The electron transfer chain of aerobically grown Rhodopseudomonas viridis
    Amsterdam : Elsevier
    Biochimica et Biophysica Acta (BBA)/Bioenergetics 894 (1987), S. 228-238 
    Details
    ISSN: 0005-2728
    Keywords: (Rps. viridis) ; Chemotrophic growth ; Cytochrome b-560 ; Electron transfer chain
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology , Chemistry and Pharmacology , Medicine , Physics
    Type of Medium: Electronic Resource
    URL: http://linkinghub.elsevier.com/retrieve/pii/0005-2728(87)90192-7
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  • 7
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    First measurements of reactive α-dicarbonyl concentrations on PM2.5 aerosol over the Boreal forest in Finland during HUMPPA-COPEC 2010 – source apportionment and links to aerosol aging (2012)
    Copernicus
    Details
    Publication Date: 2012-07-17
    Description: The first dataset for summertime boreal forest concentrations of two atmospherically relevant α-dicarbonyl compounds, glyoxal (Gly) and methylglyoxal (Mgly) on PM2.5 aerosol was obtained during the HUMPPA-COPEC-2010 field measurement intensive in Hyytiälä, Finland. Anthropogenic influences over the course of the campaign were identified using trace gas signatures and aerosol particle chemical composition analysis. The data evaluation allowed the identification of different events such as urban pollution plumes, biomass burning and sawmill emissions as sources of high Gly and Mgly concentrations. Mean aerosol concentrations during periods of biogenic influence were 0.81 ng m−3 for Gly and 0.31 ng m−3 for Mgly. Mgly was generally less abundant in PM2.5, probably due to its shorter photolysis lifetime and less effective partitioning into the particle phase due to its smaller effective Henry's Law constant compared to Gly. This is in contrast with previous urban studies which show significantly more Mgly than Gly. Peak concentrations for Gly coincided with nearby sources, e.g. high VOC emissions from nearby sawmills, urban pollution plumes from the city of Tampere located 50 km southwest of the sampling site and biomass burning emissions from wildfires. Calculated ratios of Gly in PM2.5 and total organic matter in PM1 aerosols indicate higher values in less aged aerosols. Irreversible processing of Gly in the particle phase, e.g. via oxidation by OH radicals, organo sulfate or imidazole formation are processes currently discussed in the literature which could likely explain these findings.
    Print ISSN: 1680-7316
    Electronic ISSN: 1680-7324
    Topics: Geosciences
    Published by Copernicus on behalf of European Geosciences Union.
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  • 8
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    Identification and characterization of aging products in the glyoxal/ammonium sulfate system – implications for light-absorbing material in atmospheric aerosols (2012)
    Copernicus
    Details
    Publication Date: 2012-07-23
    Description: In this study we report the identification of bicyclic imidazoles in aqueous aerosol mimics using HPLC-ESI-MS/MS. 2,2'-Biimidazole was identified to be a major contributor to the 280 nm absorbance band observed in mixtures of glyoxal and ammonium sulfate, despite the fact that its production rate is two orders of magnitude lower than the previously reported production rates of imidazole or imidazole-2-carboxaldehyde. The molar absorptivity of 2,2'-biimidazole was determined to be (36 690 ± 998) M−1 cm−1. This demonstrates the necessity of molecular product identification at trace levels to enable a better understanding of relevant absorbing species. Additionally, the formation of lower polarity products including formamides of imidazoles is proposed. The role of imidazoles and other light-absorbing species in the formation of SOA and optical properties of SOA is discussed and potentially interesting fields for future investigations are outlined.
    Print ISSN: 1680-7316
    Electronic ISSN: 1680-7324
    Topics: Geosciences
    Published by Copernicus on behalf of European Geosciences Union.
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  • 9
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    The summertime Boreal forest field measurement intensive (HUMPPA-COPEC-2010): an overview of meteorological and chemical influences (2011)
    Copernicus
    Details
    Publication Date: 2011-10-27
    Description: This paper describes the background, instrumentation, goals, and the regional influences on the HUMPPA-COPEC intensive field measurement campaign, conducted at the Boreal forest research station SMEAR II (Station for Measuring Ecosystem-Atmosphere Relation) in Hyytiälä, Finland from 12 July–12 August 2010. The prevailing meteorological conditions during the campaign are examined and contrasted with those of the past six years. Back trajectory analyses show that meteorological conditions at the site in 2010 were characterized by a higher proportion of southerly flow than in the other years studied. As a result the summer of 2010 was anomalously warm and high in ozone making the campaign relevant for the analysis of possible future climates. A comprehensive land use analysis, provided on both 5 and 50 km scales, shows that the main vegetation types surrounding the site on both the regional and local scales are: coniferous forest (Scots pine and/or Norway spruce); mixed forest (Birch and conifers); and woodland scrub (e.g. Willows, Aspen); indicating that the campaign results can be taken as representative of the Boreal forest ecosystem. In addition to the influence of biogenic emissions, the measurement site was occasionally impacted by sources other than vegetation. Specific tracers have been used here to identify the time periods when such sources have impacted the site namely: biomass burning (acetonitrile and CO), urban anthropogenic pollution (pentane and SO2) and the nearby Korkeakoski sawmill (enantiomeric ratio of chiral monoterpenes). None of these sources dominated the study period, allowing the Boreal forest summertime emissions to be assessed and contrasted with various other source signatures.
    Print ISSN: 1680-7316
    Electronic ISSN: 1680-7324
    Topics: Geosciences
    Published by Copernicus on behalf of European Geosciences Union.
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  • 10
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    The summertime Boreal forest field measurement intensive (HUMPPA-COPEC-2010): an overview of meteorological and chemical influences (2011)
    Copernicus
    Details
    Publication Date: 2011-05-26
    Description: This paper describes the background, instrumentation, goals, and the regional influences on the HUMPPA-COPEC intensive field measurement campaign, conducted at the Boreal forest research station SMEAR II (Station for Measuring Ecosystem-Atmosphere Relation) in Hyytiälä, Finland from 12 July–12 August 2010. The prevailing meteorological conditions during the campaign are examined and contrasted with those of the past six years. Back trajectory analyses show that meteorological conditions at the site were characterized by a higher proportion of southerly flow. As a result the summer of 2010 was anomalously warm and high in ozone making the campaign relevant for the analysis of possible future climates. A comprehensive land use analysis, provided on both 5 and 50 km scales, shows that the main vegetation types surrounding the site on both the regional and local scales are: coniferous forest (Scots pine and/or Norway spruce); mixed forest (Birch and conifers); and woodland scrub (e.g. Willows, Aspen); indicating that the campaign results can be taken as representative of the Boreal forest ecosystem. In addition to the influence of biogenic emissions, the measurement site was occasionally impacted by sources other than vegetation. Specific tracers have been used here to identify the time periods when such sources have impacted the site namely: biomass burning (acetonitrile and CO), urban anthropogenic pollution (pentane and SO2) and the nearby Korkeakoski sawmill (enantiomeric ratio of chiral monoterpenes). None of these sources dominated the study period, allowing the Boreal forest summertime emissions to be assessed and contrasted with various other source signatures.
    Electronic ISSN: 1680-7375
    Topics: Geosciences
    Published by Copernicus on behalf of European Geosciences Union.
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