Sunday, 29 December 2013

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Sender's message: Sepsis or genomics or altitude: JKB_daily1

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Search: (sepsis[MeSH Terms] OR septic shock[MeSH Terms] OR altitude[MeSH Terms] OR genomics[MeSH Terms] OR genetics[MeSH Terms] OR retrotransposons[MeSH Terms] OR macrophage[MeSH Terms]) AND ("2009/8/8"[Publication Date] : "3000"[Publication Date]) AND (("Science"[Journal] OR "Nature"[Journal] OR "The New England journal of medicine"[Journal] OR "Lancet"[Journal] OR "Nature genetics"[Journal] OR "Nature medicine"[Journal]) OR (Hume DA[Author] OR Baillie JK[Author] OR Faulkner, Geoffrey J[Author]))

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PubMed Results
Items 1 - 2 of 2

1. Nature. 2013 Dec 5;504(7478):33. doi: 10.1038/504033a.

Climate science: Take more care over glacier facts.

Gardner AS.

Author information:

  • 1] Clark University, Worcester, Massachusetts, USA. [2].
  • Comment on

    PMID: 24305140 [PubMed - indexed for MEDLINE]
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    2. Nature. 2013 Dec 5;504(7478):20-1. doi: 10.1038/504020a.

    Museums hunt for relics from genomics' early days.

    Ledford H.
    PMID: 24305133 [PubMed - indexed for MEDLINE]
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    Wednesday, 25 December 2013

    What's new for 'JKB_daily1' in PubMed

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    Sender's message: Sepsis or genomics or altitude: JKB_daily1

    Sent on Wednesday, 2013 December 25
    Search: (sepsis[MeSH Terms] OR septic shock[MeSH Terms] OR altitude[MeSH Terms] OR genomics[MeSH Terms] OR genetics[MeSH Terms] OR retrotransposons[MeSH Terms] OR macrophage[MeSH Terms]) AND ("2009/8/8"[Publication Date] : "3000"[Publication Date]) AND (("Science"[Journal] OR "Nature"[Journal] OR "The New England journal of medicine"[Journal] OR "Lancet"[Journal] OR "Nature genetics"[Journal] OR "Nature medicine"[Journal]) OR (Hume DA[Author] OR Baillie JK[Author] OR Faulkner, Geoffrey J[Author]))

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    PubMed Results
    Items 1 - 4 of 4

    1. Science. 2013 Dec 13;342(6164):1335. doi: 10.1126/science.1248808.

    Retrospective. Michael Neuberger (1953-2013).

    Sale JE, Patel KJ, Batista FD.

    Author information:

  • MRC Laboratory of Molecular Biology, Cambridge, UK.
  • PMID: 24337288 [PubMed - indexed for MEDLINE]
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    2. Science. 2013 Dec 13;342(6164):1360-4. doi: 10.1126/science.1242335. Epub 2013 Nov 29.

    The missing mountain water: slower westerlies decrease orographic enhancement in the Pacific Northwest USA.

    Luce CH, Abatzoglou JT, Holden ZA.

    Author information:

  • U.S. Forest Service Research and Development, 322 East Front Street, Boise, ID 83702, USA.
  • Abstract

    Trends in streamflow timing and volume in the Pacific Northwest United States have been attributed to increased temperatures, because trends in precipitation at lower-elevation stations were negligible. We demonstrate that observed streamflow declines are probably associated with declines in mountain precipitation, revealing previously unexplored differential trends. Lower-troposphere winter (November to March) westerlies are strongly correlated with high-elevation precipitation but weakly correlated with low-elevation precipitation. Decreases in lower-tropospheric winter westerlies across the region from 1950 to 2012 are hypothesized to have reduced orographic precipitation enhancement, yielding differential trends in precipitation across elevations and contributing to the decline in annual streamflow. Climate projections show weakened lower-troposphere zonal flow across the region under enhanced greenhouse forcing, highlighting an additional stressor that is relevant for climate change impacts on hydrology.

    PMID: 24292627 [PubMed - indexed for MEDLINE]
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    3. N Engl J Med. 2013 Dec 19;369(25):2369-71. doi: 10.1056/NEJMp1314561. Epub 2013 Nov 19.

    First FDA authorization for next-generation sequencer.

    Collins FS, Hamburg MA.

    Author information:

  • From the Office of the Director, National Institutes of Health, Bethesda, MD (F.S.C.); and the Office of the Commissioner, Food and Drug Administration, Department of Health and Human Services, Silver Spring, MD (M.A.H.).
  • Free Article
    PMID: 24251383 [PubMed - indexed for MEDLINE]
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    4. Science. 2013 Dec 13;342(6164):1379-82. doi: 10.1126/science.1242993. Epub 2013 Nov 14.

    EMRE is an essential component of the mitochondrial calcium uniporter complex.

    Sancak Y, Markhard AL, Kitami T, Kovács-Bogdán E, Kamer KJ, Udeshi ND, Carr SA, Chaudhuri D, Clapham DE, Li AA, Calvo SE, Goldberger O, Mootha VK.

    Author information:

  • Department of Molecular Biology, Massachusetts General Hospital, Department of Systems Biology, Harvard Medical School, Boston, MA, USA.
  • Abstract

    The mitochondrial uniporter is a highly selective calcium channel in the organelle's inner membrane. Its molecular components include the EF-hand-containing calcium-binding proteins mitochondrial calcium uptake 1 (MICU1) and MICU2 and the pore-forming subunit mitochondrial calcium uniporter (MCU). We sought to achieve a full molecular characterization of the uniporter holocomplex (uniplex). Quantitative mass spectrometry of affinity-purified uniplex recovered MICU1 and MICU2, MCU and its paralog MCUb, and essential MCU regulator (EMRE), a previously uncharacterized protein. EMRE is a 10-kilodalton, metazoan-specific protein with a single transmembrane domain. In its absence, uniporter channel activity was lost despite intact MCU expression and oligomerization. EMRE was required for the interaction of MCU with MICU1 and MICU2. Hence, EMRE is essential for in vivo uniporter current and additionally bridges the calcium-sensing role of MICU1 and MICU2 with the calcium-conducting role of MCU.

    PMID: 24231807 [PubMed - indexed for MEDLINE]
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    Tuesday, 24 December 2013

    What's new for 'JKB_daily1' in PubMed

    This message contains My NCBI what's new results from the National Center for Biotechnology Information (NCBI) at the U.S. National Library of Medicine (NLM).
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    Sender's message: Sepsis or genomics or altitude: JKB_daily1

    Sent on Tuesday, 2013 December 24
    Search: (sepsis[MeSH Terms] OR septic shock[MeSH Terms] OR altitude[MeSH Terms] OR genomics[MeSH Terms] OR genetics[MeSH Terms] OR retrotransposons[MeSH Terms] OR macrophage[MeSH Terms]) AND ("2009/8/8"[Publication Date] : "3000"[Publication Date]) AND (("Science"[Journal] OR "Nature"[Journal] OR "The New England journal of medicine"[Journal] OR "Lancet"[Journal] OR "Nature genetics"[Journal] OR "Nature medicine"[Journal]) OR (Hume DA[Author] OR Baillie JK[Author] OR Faulkner, Geoffrey J[Author]))

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    PubMed Results
    Items 1 - 3 of 3

    1. Science. 2013 Dec 6;342(6163):1186. doi: 10.1126/science.1247569.

    Science & SciLifeLab Prize. Evolution of vertebrate transcriptional regulator binding.

    Schmidt D.

    Author information:

  • L.E.K. Consulting, 40 Grosvenor Place, London, SW1X 7JL, UK.
  • Free Article
    PMID: 24311678 [PubMed - indexed for MEDLINE]
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    2. Nature. 2013 Nov 28;503(7477):525-9. doi: 10.1038/nature12686. Epub 2013 Oct 23.

    Differential L1 regulation in pluripotent stem cells of humans and apes.

    Marchetto MC, Narvaiza I, Denli AM, Benner C, Lazzarini TA, Nathanson JL, Paquola AC, Desai KN, Herai RH, Weitzman MD, Yeo GW, Muotri AR, Gage FH.

    Author information:

  • 1] Laboratory of Genetics, The Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, California 92037, USA [2].
  • Abstract

    Identifying cellular and molecular differences between human and non-human primates (NHPs) is essential to the basic understanding of the evolution and diversity of our own species. Until now, preserved tissues have been the main source for most comparative studies between humans, chimpanzees (Pan troglodytes) and bonobos (Pan paniscus). However, these tissue samples do not fairly represent the distinctive traits of live cell behaviour and are not amenable to genetic manipulation. We propose that induced pluripotent stem (iPS) cells could be a unique biological resource to determine relevant phenotypical differences between human and NHPs, and that those differences could have potential adaptation and speciation value. Here we describe the generation and initial characterization of iPS cells from chimpanzees and bonobos as new tools to explore factors that may have contributed to great ape evolution. Comparative gene expression analysis of human and NHP iPS cells revealed differences in the regulation of long interspersed element-1 (L1, also known as LINE-1) transposons. A force of change in mammalian evolution, L1 elements are retrotransposons that have remained active during primate evolution. Decreased levels of L1-restricting factors APOBEC3B (also known as A3B) and PIWIL2 (ref. 7) in NHP iPS cells correlated with increased L1 mobility and endogenous L1 messenger RNA levels. Moreover, results from the manipulation of A3B and PIWIL2 levels in iPS cells supported a causal inverse relationship between levels of these proteins and L1 retrotransposition. Finally, we found increased copy numbers of species-specific L1 elements in the genome of chimpanzees compared to humans, supporting the idea that increased L1 mobility in NHPs is not limited to iPS cells in culture and may have also occurred in the germ line or embryonic cells developmentally upstream to germline specification during primate evolution. We propose that differences in L1 mobility may have differentially shaped the genomes of humans and NHPs and could have continuing adaptive significance.

    PMID: 24153179 [PubMed - indexed for MEDLINE]
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    3. Nature. 2013 Nov 28;503(7477):487-92. doi: 10.1038/nature12615. Epub 2013 Oct 13.

    Effect of natural genetic variation on enhancer selection and function.

    Heinz S, Romanoski CE, Benner C, Allison KA, Kaikkonen MU, Orozco LD, Glass CK.

    Author information:

  • 1] Department of Cellular and Molecular Medicine, University of California, San Diego, 9500 Gilman Drive, Mail Code 0651, La Jolla, California 92093, USA [2].
  • Abstract

    The mechanisms by which genetic variation affects transcription regulation and phenotypes at the nucleotide level are incompletely understood. Here we use natural genetic variation as an in vivo mutagenesis screen to assess the genome-wide effects of sequence variation on lineage-determining and signal-specific transcription factor binding, epigenomics and transcriptional outcomes in primary macrophages from different mouse strains. We find substantial genetic evidence to support the concept that lineage-determining transcription factors define epigenetic and transcriptomic states by selecting enhancer-like regions in the genome in a collaborative fashion and facilitating binding of signal-dependent factors. This hierarchical model of transcription factor function suggests that limited sets of genomic data for lineage-determining transcription factors and informative histone modifications can be used for the prioritization of disease-associated regulatory variants.

    PMID: 24121437 [PubMed - indexed for MEDLINE]
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    Friday, 20 December 2013

    What's new for 'JKB_daily1' in PubMed

    This message contains My NCBI what's new results from the National Center for Biotechnology Information (NCBI) at the U.S. National Library of Medicine (NLM).
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    Sender's message: Sepsis or genomics or altitude: JKB_daily1

    Sent on Friday, 2013 December 20
    Search: (sepsis[MeSH Terms] OR septic shock[MeSH Terms] OR altitude[MeSH Terms] OR genomics[MeSH Terms] OR genetics[MeSH Terms] OR retrotransposons[MeSH Terms] OR macrophage[MeSH Terms]) AND ("2009/8/8"[Publication Date] : "3000"[Publication Date]) AND (("Science"[Journal] OR "Nature"[Journal] OR "The New England journal of medicine"[Journal] OR "Lancet"[Journal] OR "Nature genetics"[Journal] OR "Nature medicine"[Journal]) OR (Hume DA[Author] OR Baillie JK[Author] OR Faulkner, Geoffrey J[Author]))

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    PubMed Results
    Items 1 - 4 of 4

    1. N Engl J Med. 2013 Dec 12;369(24):2352-3. doi: 10.1056/NEJMcibr1312709.

    Macrophage accumulation in atherosclerosis.

    Parks BW, Lusis AJ.
    PMID: 24328470 [PubMed - indexed for MEDLINE]
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    2. N Engl J Med. 2013 Dec 12;369(24):2294-303. doi: 10.1056/NEJMoa1311386. Epub 2013 Nov 19.

    A randomized trial of genotype-guided dosing of warfarin.

    Pirmohamed M, Burnside G, Eriksson N, Jorgensen AL, Toh CH, Nicholson T, Kesteven P, Christersson C, Wahlström B, Stafberg C, Zhang JE, Leathart JB, Kohnke H, Maitland-van der Zee AH, Williamson PR, Daly AK, Avery P, Kamali F, Wadelius M; EU-PACT Group.

    Collaborators: Barallon R, de Boer A, Daly A, Haschke-Becher E, Kamali F, Maitland-van der Zee AH, Redekop K, Stingl J, Manolopoulos VG, Pirmohamed M, Rosendaal FR, Wadelius M.

    Author information:

  • From the University of Liverpool (M.P., G.B., A.L.J., C.H.T., J.E.Z., P.R.W.) and Royal Liverpool and Broadgreen University Hospital National Health Service (NHS) Trust (M.P., C.H.T.), Liverpool, Whiston Hospital, Prescot (T.N.), and Newcastle upon Tyne NHS Trust (P.K.) and Newcastle University (J.B.L., A.K.D., P.A., F.K.), Newcastle upon Tyne - all in the United Kingdom; Uppsala University, Department of Medical Sciences (N.E., C.C., H.K., M.W.), Uppsala Clinical Research Center (N.E.) and Uppsala University Hospital (C.C., B.W., M.W.), Uppsala, and Enköping Hospital, Enköping (C.S.) - all in Sweden; and Utrecht University, Utrecht, the Netherlands (A.H.M.Z.).
  • Comment in

    Abstract

    BACKGROUND:

    The level of anticoagulation in response to a fixed-dose regimen of warfarin is difficult to predict during the initiation of therapy. We prospectively compared the effect of genotype-guided dosing with that of standard dosing on anticoagulation control in patients starting warfarin therapy.

    METHODS:

    We conducted a multicenter, randomized, controlled trial involving patients with atrial fibrillation or venous thromboembolism. Genotyping for CYP2C9*2, CYP2C9*3, and VKORC1 (-1639G→A) was performed with the use of a point-of-care test. For patients assigned to the genotype-guided group, warfarin doses were prescribed according to pharmacogenetic-based algorithms for the first 5 days. Patients in the control (standard dosing) group received a 3-day loading-dose regimen. After the initiation period, the treatment of all patients was managed according to routine clinical practice. The primary outcome measure was the percentage of time in the therapeutic range of 2.0 to 3.0 for the international normalized ratio (INR) during the first 12 weeks after warfarin initiation.

    RESULTS:

    A total of 455 patients were recruited, with 227 randomly assigned to the genotype-guided group and 228 assigned to the control group. The mean percentage of time in the therapeutic range was 67.4% in the genotype-guided group as compared with 60.3% in the control group (adjusted difference, 7.0 percentage points; 95% confidence interval, 3.3 to 10.6; P<0.001). There were significantly fewer incidences of excessive anticoagulation (INR ≥4.0) in the genotype-guided group. The median time to reach a therapeutic INR was 21 days in the genotype-guided group as compared with 29 days in the control group (P<0.001).

    CONCLUSIONS:

    Pharmacogenetic-based dosing was associated with a higher percentage of time in the therapeutic INR range than was standard dosing during the initiation of warfarin therapy. (Funded by the European Commission Seventh Framework Programme and others; ClinicalTrials.gov number, NCT01119300.).

    PMID: 24251363 [PubMed - indexed for MEDLINE]
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    3. N Engl J Med. 2013 Dec 12;369(24):2283-93. doi: 10.1056/NEJMoa1310669. Epub 2013 Nov 19.

    A pharmacogenetic versus a clinical algorithm for warfarin dosing.

    Kimmel SE, French B, Kasner SE, Johnson JA, Anderson JL, Gage BF, Rosenberg YD, Eby CS, Madigan RA, McBane RB, Abdel-Rahman SZ, Stevens SM, Yale S, Mohler ER 3rd, Fang MC, Shah V, Horenstein RB, Limdi NA, Muldowney JA 3rd, Gujral J, Delafontaine P, Desnick RJ, Ortel TL, Billett HH, Pendleton RC, Geller NL, Halperin JL, Goldhaber SZ, Caldwell MD, Califf RM, Ellenberg JH; COAG Investigators.

    Collaborators: McBane RD, Metzger K, Lexvold N, Streichert-Blair A, Wysokinski W, Ransone T, Randolph J, Black J, O'Kane D, Christiansen P, Abdel-Rahman SZ, Clark CA, Snow LE, vonMarrensdorff H, Anderson KE, Nekhayeva I, Hallberg CK, Garcia C, Albright KJ, Mitchell C, Stevens SM, Woller SC, Peterson CP, Butler AR, Carlquist JF, Yale S, Kohnhorst D, Strey SK, Burmester JK, Schmelzer J, Caldwell M, Mazza JJ, Bhupathi S, Johnson JA, Lopez L, Zumberg M, Langaee T, Elewa H, Shahin M, Mohamed M, Chang SS, Mohler ER 3rd, Medenilla E, Rivera G, van Deerlin V, Fang MC, Magan Y, Shin J, Yglecias L, Wu A, Shah V, Kaatz S, Ellsworth S, Gikas H, Chitale D, Horenstein RB, Zhao RY, Shuldiner AR, Marron J, Fred-Omojole O, Kiser K, Sturpe D, Lee M, Limdi NA, Brown TM, Alexander J, Messiaen LM, Hill R, Dudley A, Muldowney JA 3rd, Neal T, Freehardt D, Vnencak-Jones C, Gujral J, Sharma G, Smith C, Best P, Elewa H, Deremer CE, Keller KJ, Liu S, Wang CY, Delafontaine P, Irimpen A, Ali G, Arain S, O'Meallie L, Martin-Schild SB, McDuffie R, Japa S, Asafu-Adjaye NO, Bowers S, Eloby-Childress S, Morrison E, Desnick RJ, Halperin JL, van der Zee S, Rothlauf E, Cohen I, Doheny DO, Blanchard L, Scott S, Ortel TL, Gleim MA, Sexton PA, Hall S, Jordan L, Billett HH, Naeem RC, Maala-Gentolia C, Gage BF, Do E, Venker B, Pendleton RC, Napoli L, Rondina M, McMillin G, Califf RM, Abdel-Rahman SZ, Anderson JL, Billett HH, Bookman E, Caldwell MD, Delafontaine P, Desnick RJ, Eby CS, Ellenberg JH, Fang MC, French B, Gage BF, Geller NL, Goldberg S, Goldhaber SZ, Gujral J, Hart RG, Hindorff LA, Horenstein RB, Johnson JA, Kimmel SE, Limdi NA, McBane RD, Manolio TA, Mohler ER 3rd, Muldowney JA 3rd, Ortel T, Pendleton RC, Rosenberg YD, Shah V, Stevens SM, Xu D, Yale S, Califf RM, Anderson JL, Gage BF, Johnson JA, Kimmel SE, Rosenberg YD, Wyse D, Ansell J, Crowther M, Deverka P, Richardson D, Tracy R, Kimmel SE, Ellenberg JH, French B, Kasner SE, Baldwin DA, Ballard S, Brensinger C, Cifelli D, Durborow M, Durborow S, Glick HA, Helker C, Jaskowiak J, Madigan RA, Rockwell K Jr, Wang X, Wang Y, Rosenberg YD, Goldberg S, Geller NL, Bursie Y, Hasan A, Iturriaga E, Xu D, Bookman E, Hindoff LA, Manolio TA, Eby CS, Porche-Sorbet R, King C, Kasner SE, Messé S, Goldhaber SZ, Halperin JL, Stevens SM.

    Author information:

  • The authors' affiliations are listed in the Appendix.
  • Comment in

    Abstract

    BACKGROUND:

    The clinical utility of genotype-guided (pharmacogenetically based) dosing of warfarin has been tested only in small clinical trials or observational studies, with equivocal results.

    METHODS:

    We randomly assigned 1015 patients to receive doses of warfarin during the first 5 days of therapy that were determined according to a dosing algorithm that included both clinical variables and genotype data or to one that included clinical variables only. All patients and clinicians were unaware of the dose of warfarin during the first 4 weeks of therapy. The primary outcome was the percentage of time that the international normalized ratio (INR) was in the therapeutic range from day 4 or 5 through day 28 of therapy.

    RESULTS:

    At 4 weeks, the mean percentage of time in the therapeutic range was 45.2% in the genotype-guided group and 45.4% in the clinically guided group (adjusted mean difference, [genotype-guided group minus clinically guided group], -0.2; 95% confidence interval, -3.4 to 3.1; P=0.91). There also was no significant between-group difference among patients with a predicted dose difference between the two algorithms of 1 mg per day or more. There was, however, a significant interaction between dosing strategy and race (P=0.003). Among black patients, the mean percentage of time in the therapeutic range was less in the genotype-guided group than in the clinically guided group. The rates of the combined outcome of any INR of 4 or more, major bleeding, or thromboembolism did not differ significantly according to dosing strategy.

    CONCLUSIONS:

    Genotype-guided dosing of warfarin did not improve anticoagulation control during the first 4 weeks of therapy. (Funded by the National Heart, Lung, and Blood Institute and others; COAG ClinicalTrials.gov number, NCT00839657.).

    PMID: 24251361 [PubMed - indexed for MEDLINE]
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    4. N Engl J Med. 2013 Dec 12;369(24):2304-12. doi: 10.1056/NEJMoa1311388. Epub 2013 Nov 19.

    A randomized trial of genotype-guided dosing of acenocoumarol and phenprocoumon.

    Verhoef TI, Ragia G, de Boer A, Barallon R, Kolovou G, Kolovou V, Konstantinides S, Le Cessie S, Maltezos E, van der Meer FJ, Redekop WK, Remkes M, Rosendaal FR, van Schie RM, Tavridou A, Tziakas D, Wadelius M, Manolopoulos VG, Maitland-van der Zee AH; EU-PACT Group.

    Collaborators: Barallon R, de Boer A, Daly A, Haschke-Becher E, Kamali F, Maitland-van der Zee AH, Redekop K, Stingl J, Manolopoulos VG, Pirmohamed M, Rosendaal FR, Wadelius M, Grounidis G, Kikas P, Mitrousi K , Kouroumichakis I, Maounis T, van der Wateren W, Straasheijm-Veldhuis B, Bayat S, Buikema M, Zuurhout M, Hegazy H, Dorenbos B, Beltman P, Hoeben E, Vellenga A, Karwar Z, Hasrat F, Hammoud S, Hagemans I, Berbee J, van der Meer S, Verdoorn S, Kraaijeveld J, Babajeff A, Boejharet S, Emerenciana A, el Khedr N, Aoussar A, van Hoorn L, Aziz A, Elia M, Schalekamp T, Nasser A, Sukel M, Verbeek-Janssen D, Vermaas H, Siauw M, Wessels J, Zwinderman K, Palmcrantz-Graf E, Eriksson N, Fitzmaurice D, Gurwitz D, Roes K, Bruggink M, ten Bokum B, Michorius N, Hennen J, Ondracek W, Cascorbi I, Eijkemans R, Koster R.

    Author information:

  • The authors' affiliations are listed in the Appendix.
  • Comment in

    Abstract

    BACKGROUND:

    Observational evidence suggests that the use of a genotype-guided dosing algorithm may increase the effectiveness and safety of acenocoumarol and phenprocoumon therapy.

    METHODS:

    We conducted two single-blind, randomized trials comparing a genotype-guided dosing algorithm that included clinical variables and genotyping for CYP2C9 and VKORC1 with a dosing algorithm that included only clinical variables, for the initiation of acenocoumarol or phenprocoumon treatment in patients with atrial fibrillation or venous thromboembolism. The primary outcome was the percentage of time in the target range for the international normalized ratio (INR; target range, 2.0 to 3.0) in the 12-week period after the initiation of therapy. Owing to low enrollment, the two trials were combined for analysis. The primary outcome was assessed in patients who remained in the trial for at least 10 weeks.

    RESULTS:

    A total of 548 patients were enrolled (273 patients in the genotype-guided group and 275 in the control group). The follow-up was at least 10 weeks for 239 patients in the genotype-guided group and 245 in the control group. The percentage of time in the therapeutic INR range was 61.6% for patients receiving genotype-guided dosing and 60.2% for those receiving clinically guided dosing (P=0.52). There were no significant differences between the two groups for several secondary outcomes. The percentage of time in the therapeutic range during the first 4 weeks after the initiation of treatment in the two groups was 52.8% and 47.5% (P=0.02), respectively. There were no significant differences with respect to the incidence of bleeding or thromboembolic events.

    CONCLUSIONS:

    Genotype-guided dosing of acenocoumarol or phenprocoumon did not improve the percentage of time in the therapeutic INR range during the 12 weeks after the initiation of therapy. (Funded by the European Commission Seventh Framework Programme and others; EU-PACT ClinicalTrials.gov numbers, NCT01119261 and NCT01119274.).

    PMID: 24251360 [PubMed - indexed for MEDLINE]
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    Thursday, 19 December 2013

    What's new for 'JKB_daily1' in PubMed

    This message contains My NCBI what's new results from the National Center for Biotechnology Information (NCBI) at the U.S. National Library of Medicine (NLM).
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    Sender's message: Sepsis or genomics or altitude: JKB_daily1

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    Search: (sepsis[MeSH Terms] OR septic shock[MeSH Terms] OR altitude[MeSH Terms] OR genomics[MeSH Terms] OR genetics[MeSH Terms] OR retrotransposons[MeSH Terms] OR macrophage[MeSH Terms]) AND ("2009/8/8"[Publication Date] : "3000"[Publication Date]) AND (("Science"[Journal] OR "Nature"[Journal] OR "The New England journal of medicine"[Journal] OR "Lancet"[Journal] OR "Nature genetics"[Journal] OR "Nature medicine"[Journal]) OR (Hume DA[Author] OR Baillie JK[Author] OR Faulkner, Geoffrey J[Author]))

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    PubMed Results
    Items 1 - 8 of 8

    1. Science. 2013 Nov 29;342(6162):1059. doi: 10.1126/science.1248055.

    Retrospective. Fred Sherman (1932-2013).

    Liebman SW, Haber JE.

    Author information:

  • University of Illinois at Chicago, Chicago, IL, USA.
  • PMID: 24288325 [PubMed - indexed for MEDLINE]
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    2. Science. 2013 Nov 29;342(6162):1057-8. doi: 10.1126/science.1247023.

    Microbiology. Genomes from metagenomics.

    Sharon I, Banfield JF.

    Author information:

  • Department of Earth and Planetary Science, University of California, Berkeley, CA 94720, USA.
  • PMID: 24288324 [PubMed - indexed for MEDLINE]
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    3. Science. 2013 Nov 22;342(6161):1242974. doi: 10.1126/science.1242974.

    Beyond stem cells: self-renewal of differentiated macrophages.

    Sieweke MH, Allen JE.

    Author information:

  • Centre d'Immunologie de Marseille-Luminy (CIML), Aix-Marseille Université, UM2, Campus de Luminy, Case 906, 13288 Marseille Cedex 09, France.
  • Abstract

    In many mammalian tissues, mature differentiated cells are replaced by self-renewing stem cells, either continuously during homeostasis or in response to challenge and injury. For example, hematopoietic stem cells generate all mature blood cells, including monocytes, which have long been thought to be the major source of tissue macrophages. Recently, however, major macrophage populations were found to be derived from embryonic progenitors and to renew independently of hematopoietic stem cells. This process may not require progenitors, as mature macrophages can proliferate in response to specific stimuli indefinitely and without transformation or loss of functional differentiation. These findings suggest that macrophages are mature differentiated cells that may have a self-renewal potential similar to that of stem cells.

    PMID: 24264994 [PubMed - indexed for MEDLINE]
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    4. Nature. 2013 Nov 7;503(7474):18-9. doi: 10.1038/503018a.

    Proteins help solve taxonomy riddle.

    Callaway E.
    PMID: 24201261 [PubMed - indexed for MEDLINE]
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    5. J Exp Med. 2013 Oct 21;210(11):2477-91. doi: 10.1084/jem.20121999. Epub 2013 Oct 7.

    IL-4 directly signals tissue-resident macrophages to proliferate beyond homeostatic levels controlled by CSF-1.

    Jenkins SJ, Ruckerl D, Thomas GD, Hewitson JP, Duncan S, Brombacher F, Maizels RM, Hume DA, Allen JE.

    Author information:

  • Institute of Immunology and Infection Research, School of Biological Sciences; and 2 Medical Research Council Centre for Inflammation Research and 3 The Roslin Institute and Royal (Dick) School of Veterinary Studies, College of Medicine and Veterinary Medicine; University of Edinburgh, Edinburgh EH8 9YL, Scotland, UK.
  • Abstract

    Macrophages (MΦs) colonize tissues during inflammation in two distinct ways: recruitment of monocyte precursors and proliferation of resident cells. We recently revealed a major role for IL-4 in the proliferative expansion of resident MΦs during a Th2-biased tissue nematode infection. We now show that proliferation of MΦs during intestinal as well as tissue nematode infection is restricted to sites of IL-4 production and requires MΦ-intrinsic IL-4R signaling. However, both IL-4Rα-dependent and -independent mechanisms contributed to MΦ proliferation during nematode infections. IL-4R-independent proliferation was controlled by a rise in local CSF-1 levels, but IL-4Rα expression conferred a competitive advantage with higher and more sustained proliferation and increased accumulation of IL-4Rα(+) compared with IL-4Rα(-) cells. Mechanistically, this occurred by conversion of IL-4Rα(+) MΦs from a CSF-1-dependent to -independent program of proliferation. Thus, IL-4 increases the relative density of tissue MΦs by overcoming the constraints mediated by the availability of CSF-1. Finally, although both elevated CSF1R and IL-4Rα signaling triggered proliferation above homeostatic levels, only CSF-1 led to the recruitment of monocytes and neutrophils. Thus, the IL-4 pathway of proliferation may have developed as an alternative to CSF-1 to increase resident MΦ numbers without coincident monocyte recruitment.

    PMCID: PMC3804948 [Available on 2014/4/21]
    PMID: 24101381 [PubMed - indexed for MEDLINE]
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    6. Nat Med. 2013 Oct;19(10):1207-8. doi: 10.1038/nm.3355.

    Therapeutically reeducating macrophages to treat GBM.

    Garris C, Pittet MJ.

    Author information:

  • 1] Center for Systems Biology, Massachusetts General Hospital, Boston, Massachusetts, USA. [2] Graduate Program in Immunology, Harvard Medical School, Boston, Massachusetts, USA.
  • Comment on

    Abstract

    Glioblastoma multiforme (GBM) is the most common type of aggressive malignant brain cancer. The current lack of successful therapeutics means that this disease has a dismal prognosis. However, a new study in mice offers hope for patients with GBM by demonstrating the efficacy of a novel drug that targets GBM-associated macrophages (pages 1264–1272).

    PMID: 24100977 [PubMed - indexed for MEDLINE]
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    7. Nat Med. 2013 Oct;19(10):1264-72. doi: 10.1038/nm.3337. Epub 2013 Sep 22.

    CSF-1R inhibition alters macrophage polarization and blocks glioma progression.

    Pyonteck SM, Akkari L, Schuhmacher AJ, Bowman RL, Sevenich L, Quail DF, Olson OC, Quick ML, Huse JT, Teijeiro V, Setty M, Leslie CS, Oei Y, Pedraza A, Zhang J, Brennan CW, Sutton JC, Holland EC, Daniel D, Joyce JA.

    Author information:

  • 1] Cancer Biology and Genetics, Memorial Sloan-Kettering Cancer Center (MSKCC), New York, New York, USA. [2].
  • Comment in

    Abstract

    Glioblastoma multiforme (GBM) comprises several molecular subtypes, including proneural GBM. Most therapeutic approaches targeting glioma cells have failed. An alternative strategy is to target cells in the glioma microenvironment, such as tumor-associated macrophages and microglia (TAMs). Macrophages depend on colony stimulating factor-1 (CSF-1) for differentiation and survival. We used an inhibitor of the CSF-1 receptor (CSF-1R) to target TAMs in a mouse proneural GBM model, which significantly increased survival and regressed established tumors. CSF-1R blockade additionally slowed intracranial growth of patient-derived glioma xenografts. Surprisingly, TAMs were not depleted in treated mice. Instead, glioma-secreted factors, including granulocyte-macrophage CSF (GM-CSF) and interferon-γ (IFN-γ), facilitated TAM survival in the context of CSF-1R inhibition. Expression of alternatively activated M2 markers decreased in surviving TAMs, which is consistent with impaired tumor-promoting functions. These gene signatures were associated with enhanced survival in patients with proneural GBM. Our results identify TAMs as a promising therapeutic target for proneural gliomas and establish the translational potential of CSF-1R inhibition for GBM.

    PMCID: PMC3840724 [Available on 2014/4/1]
    PMID: 24056773 [PubMed - indexed for MEDLINE]
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    8. Nat Med. 2013 Oct;19(10):1318-24. doi: 10.1038/nm.3270. Epub 2013 Sep 15.

    Endogenous factor VIII synthesis from the intron 22-inverted F8 locus may modulate the immunogenicity of replacement therapy for hemophilia A.

    Pandey GS, Yanover C, Miller-Jenkins LM, Garfield S, Cole SA, Curran JE, Moses EK, Rydz N, Simhadri V, Kimchi-Sarfaty C, Lillicrap D, Viel KR, Przytycka TM, Pierce GF, Howard TE, Sauna ZE; PATH (Personalized Alternative Therapies for Hemophilia) Study Investigators.

    Collaborators: Lusher J, Chitlur M, Ameri A, Natarajan K, Iyer RV, Thompson AA, Watts RG, Kempton CL, Kessler C, Barrett JC, Martin EJ, Key N, Kruse-Jarres R, Lessinger C, Pratt KP, Josephson N, McRedmond K, Withycombe J, Walsh C, Matthews D, Mahlangu J, Krause A, Schwyzer R, Thejpal R, Rapiti N, Goga Y, Coetzee M, Stones D, Mann K, Butenas S, Almasy L, Blangero J, Carless M, Raja R, Reed E.

    Author information:

  • Laboratory of Hemostasis, Division of Hematology, Center for Biologics Evaluation and Research, Food and Drug Administration, Bethesda, Maryland, USA.
  • Abstract

    Neutralizing antibodies (inhibitors) to replacement factor VIII (FVIII, either plasma derived or recombinant) impair the effective management of hemophilia A. Individuals with hemophilia A due to major deletions of the FVIII gene (F8) lack antigenically cross-reactive material in their plasma ("CRM-negative"), and the prevalence of inhibitors in these individuals may be as high as 90%. Conversely, individuals with hemophilia A caused by F8 missense mutations are CRM-positive, and their overall prevalence of inhibitors is <10% (ref. 2). Individuals with the F8 intron 22 inversion (found in ∼50% of individuals with severe hemophilia A) have been grouped with the former on the basis of their genetic defect and CRM-negative status. However, only ∼20% of these individuals develop inhibitors. Here we demonstrate that the levels of F8 mRNA and intracellular FVIII protein in B lymphoblastoid cells and liver biopsies from individuals with the intron 22 inversion are comparable to those in healthy controls. These results support the hypothesis that most individuals with the intron 22 inversion are tolerized to FVIII and thus do not develop inhibitors. Furthermore, we developed a new pharmacogenetic algorithm that permits the stratification of inhibitor risk for individuals and subpopulations by predicting the immunogenicity of replacement FVIII using, as input, the number of putative T cell epitopes in the infused protein and the competence of major histocompatibility complex class II molecules to present such epitopes. This algorithm showed statistically significant accuracy in predicting the presence of inhibitors in 25 unrelated individuals with the intron 22 inversion.

    PMID: 24037092 [PubMed - indexed for MEDLINE]
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