7,940 research outputs found

    Inferring HIV escape rates from multi-locus genotype data

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    Cytotoxic T-lymphocytes (CTLs) recognize viral protein fragments displayed by major histocompatibility complex (MHC) molecules on the surface of virally infected cells and generate an anti-viral response that can kill the infected cells. Virus variants whose protein fragments are not efficiently presented on infected cells or whose fragments are presented but not recognized by CTLs therefore have a competitive advantage and spread rapidly through the population. We present a method that allows a more robust estimation of these escape rates from serially sampled sequence data. The proposed method accounts for competition between multiple escapes by explicitly modeling the accumulation of escape mutations and the stochastic effects of rare multiple mutants. Applying our method to serially sampled HIV sequence data, we estimate rates of HIV escape that are substantially larger than those previously reported. The method can be extended to complex escapes that require compensatory mutations. We expect our method to be applicable in other contexts such as cancer evolution where time series data is also available

    Hydrologic Properties of Subarctic Organic Soils

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    Completion Report for U. S. Forest Service Institute of Northern Forestry Cooperative Agreement No. 16 USC 581; 581a-581iThe need for understanding the natural system and how it responds to various stresses is important; this is especially so in an environment where the climate not only sustains permafrost, but develops massive seasonal frost as well. Consequently, the role of the shallow surface organic layer is also quite important. Since a slight change in the soil thermal regime may bring about a phase change in the water or ice, therefore, the system response to surface alterations such as burning can be quite severe. The need for a better understanding of the behavior and properties of the organic layer is, therefore, accentuated. The central theme of this study was the examination of the hydrologic and hydraulic properties of subarctic organic soils. Summarized in this paper are the results of three aspects of subarctic organic soil examinations conducted during the duration of the project. First, a field site was set up in Washington Creek with the major emphasis on measuring numerous variables of that soil system during the summer. The greatest variations in moisture content occur in the thick organic soils that exist at this site. Our major emphasis was to study the soil moisture levels in these soils. This topic is covered in the first major section, including associated laboratory studies. Those laboratory studies include investigations of several hydraulic and hydrologic properties of taiga organic and mineral soils. Second, some field data on organic moisture levels was collected at the site of prescribed burns in Washington Creek to ascertain the sustainability of fires as a function of moisture levels. This portion of the study is described under the second major heading. The last element of this study was a continued application of the two-dimensional flow model that was developed in an earlier study funded by the U. S. Forest Service, Institute of Northern Forestry, and reported by Kane, Luthin, and Taylor (1975a). Many of the results and concepts gathered in the field work were integrated into the modeling effort, which is aimed at producing better estimates of the hydrologic effects of surface disturbances in the black spruce taiga subarctic ecosystem. This knowledge should also contribute to better fire management decisions of the same system.The work upon which this report is based was made possible by a cooperative aid agreement funded by the U. S. Forest Service, Institute of Northern Forestry, Fairbanks, Alaska. Contribution to this study was also made by Ohio State University

    Cultivating Regionalism: Higher Education and the Making of the American Midwest

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    Review of: "Cultivating Regionalism: Higher Education and the Making of the American Midwest," a part of the "Early American Places series," by Kenneth H. Wheeler

    Preacher\u27s Magazine Volume 46 Number 01

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    Publication renamed, “The Nazarene Preacher” “The Good Way,” G. B. Williamson The Holiness Movement in ’71, Editorial New Year’s Prayer for Preachers, Wilson R. Lanpher Winning Young Adults, Melvin McCullough Eyeball to Eyeball, Practical Points Ministerial Resolutions, W. B. Walker The Open-Altar Service, C. William Ellwanger Church Membership, Raymond C. Kratzer The Wise Use of the Press, O. Joe Olson A Searching World from Cuba, Hildo Morejon Why Sit and Die! Mrs. B. Edgar Johnson A Pioneer at Prayer, James F. Ballew Gleanings from the Greek, Ralph Earle Some Leading Authorities Speak of the Old Man, Ross E. Price Idea Sparks, Asa H. Sparks DEPARTMENTS Administration The Pastor’s Supplement The Preacher’s Wife In the Study Gleanings Doctrinal Studies Timely Outlines Idea Sparks Bulletin Barrel Here and There Among Books Ideas That Work Preachers’ Exchange Calendar Digest Among Ourselveshttps://digitalcommons.olivet.edu/cotn_pm/1522/thumbnail.jp

    Preacher\u27s Magazine Volume 43 Number 09

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    Publication renamed, “The Nazarene Preacher” The Stewardship of Spending, General Superintendent Young Six Ways Prayer Lightens Our Load, Editorial That “Silly Millimeter,” Editorial The Sermon in the Mental Hospital, David E. Sparks Two Years — and Still Awed, Anonymous Missionaries or Rebels? Willis E. Snowbarger The Coordinating Church Council, Dorothy M. Maddon The “New Morality:” A Theological Appraisal, J. Kenneth Grider September Crisis for Little Men — and Their Mothers, Mrs. Gerald Davis The Greatest Prayer of All (No. 10), H. K. Bedwell Gleanings from the Greek New Testament, Ralph Earle Sermon of the Month, “The Other Side,” Kenneth L. Dodge DEPARTMENTS Pastor’s Supplement Queen of the Parsonage Biblical Studies Sermonic Studies Ideas That Work My Problem Bulletin Exchange Readers’ Exchange Hymn of the Month Calendar Digest Here and There Among Books Among Ourselveshttps://digitalcommons.olivet.edu/cotn_pm/1494/thumbnail.jp

    Preacher\u27s Magazine Volume 40 Number 12

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    Publication renamed, The Nazarene Preacher Preaching vs. Lecturing, Hugh C. Benner This Plea for Relevance, Editorial On Observing a Christian Christmas, Editorial His Star over Bethlehem, Joseph T. Larson Making Christmas Live, Allen B. Miller A Call for Greater Use of the Bible in Our Pulpit Ministry, E. E. Wordsworth “My Problem Is Nervousness,” Anonymous Ministerial Ethics, Earle W. Vennum The Preacher I Should Like to Have Heard, Ross W. Hayslip My Happy Christmas Hobby: Love-Notes on Postals, S. L. Morgan, Sr. Evangelism in the Ministry of Jesus, Vernon L. Wilcox Gleanings from the Greek New Testament, Ralph Earle The God of Advent, W. E. McCumber Too Many Tools or Not Enough Hands? Dean Wessels DEPARTMENTS The Pastor’s Supplement Queen of the Parsonage Biblical Studies Sermonic Studies My Problem Ideas That Work Hymn of the Month Quotes and Notes Bulletin Exchange Index Among Ourselveshttps://digitalcommons.olivet.edu/cotn_pm/1461/thumbnail.jp

    Preacher\u27s Magazine Volume 43 Number 05

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    Publication renamed, “The Nazarene Preacher” The Missing Element in Some Preaching, Hardy C. Powers What’s Right with the Church? Editorial What a Layman Expects of His Pastor, Warren Lahue The Blitz, Asa H. Sparks Seventy-five Minutes — for What? Wilson R. Lanpher Improving Accounting Methods in the Local Church, Joe Franklin Irenaeus on Christ and Adam, Paul Merritt Bassett The Answer, Mrs. B. Edgar Johnson Happiness Is Being a Minister’s Wife, Elaine Cunningham The Greatest Prayer of All (No. 7), H. K. Bedwell Gleanings from the Greek New Testament, Ralph Earle The Creation of Woman, W. E. McCumber Sermon Starters Expository Outlines from II Peter (No. 4), Ross Price Stewardship Outline, W. J. WieandMy Seven Reasons (Poem), Ruth Hoien DEPARTMENTS Queen of the Parsonage Biblical Studies The Pastor’s Supplement Sermonic Studies Ideas That Work Hymn of the Month My Problem Bulletin Exchange Here and There Among Books Among Ourselveshttps://digitalcommons.olivet.edu/cotn_pm/1490/thumbnail.jp

    Preacher\u27s Magazine Volume 39 Number 05

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    Publication renamed, “The Nazarene Preacher” Our Whole Selves as Well as Our Full Time, V. H. Lewis The Prayer Life of Owls and Larks, Editorial When Is a Revival Campaign a Success? Editorial Are Our Youth Camps in Danger? Dwaine Hildie Christian Conversion: Antidote for Anxiety, W . Curry Mavis Escaping the Spiral, Brian L. Farmer Whence This Idea of “Visitation Evangelism”? Ross E. Price Guideposts to a More Effective Ministry, No. 5, Raymond C. Kratzer Some Questions About the Church, The Editor More About Funerals, James C. Hefley Compassed About, Audrey J. Williamson Studies in the Sermon on the Mount, No. 1, H. K. Bedwell Gleanings from the Greek New Testament, Ralph Earle This Doctrine of the Cross, J. Glenn Gould DEPARTMENTS The Pastor’s Supplement Theologian’s Corner Queen of the Parsonage Biblical Studies Sermonic Studies My Problem Hymn of the Month Ideas That Work Bulletin Exchange Here and There Among Books Among Ourselveshttps://digitalcommons.olivet.edu/cotn_pm/1442/thumbnail.jp
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