1,483 research outputs found
Strategies for integrating single-cell RNA sequencing results with multiple species
No full textSingle-cell RNA sequencing (scRNAseq) is a robust technology for parsing gene expression in individual cells from a tissue or other complex source. One application involves experiments where cells from multiple species are recovered from a single sample, such as when human cells are transplanted into an animal model. We transplanted microglial precursor cells into newborn mouse brain and then recovered unenriched cortical tissue six months later. Dissociated cells were assessed by scRNAseq. The default method for analyzing these results begins by aligning sequencing reads with a mixture of both mouse and human reference genomes. While this clearly identifies the human cells as a distinct cluster, the clustering is artificially driven by expression from non-comparable gene identifiers from different species. We devised a method for translating expression counts from human to mouse and evaluated four algorithms for parsing mixed-species scRNAseq data. Our optimal approach split raw sequencing reads according to the best alignment score in each genome, and then re-aligned reads only with the appropriate genome. After gene symbol translation, pooled results indicate that cell types are more appropriately clustered and that differential expression analysis identifies species-specific patterns. This method should be applicable to any mixed-species scRNAseq experiment
Long Noncoding RNAs: Central to Nervous System Development
No full textThe development of the central nervous system (CNS) is a complex orchestration of stem cells, transcription factors, growth/differentiation factors, and epigenetic control. Noncoding RNAs have been identified, classified, and studied for their functional roles in many systems including the CNS. In particular, the class of long noncoding RNAs (lncRNAs) has generated both enthusiasm and skepticism due to the unexpected discovery, the diversity of mechanisms, and the lower level of expression than found in protein-coding RNAs. Here we describe evidence supporting the role of lncRNAs in driving CNS-specific differentiation. It is clear that lncRNAs exhibit a functional diversity that makes their study and compartmentalization more challenging than other classes of noncoding RNAs. We predict, however, that lncRNAs will be essential for the characterization of discrete neuronal cell types in the age of single-cell transcriptomics and that these regulatory RNAs contribute to the multitude of functional mechanisms during CNS differentiation that will rival the diversities of protein-based mechanisms.Peer reviewe
Spontaneous ATM gene reversion in A-T iPSC to produce an isogenic cell line
No full textA spontaneously reverted iPSC line was identified from an A-T subject with heterozygous ATM truncation mutations. The reverted iPSC line expressed ATM protein and was capable of radiation-induced phosphorylation of CHK2 and H2A.X. Genome-wide SNP analysis confirmed a match to source T-cells and also to a distinct, non-reverted iPSC line from the same subject. Rearranged T-cell receptor sequences predict that the iPSC culture originated as several independently reprogrammed cells that resolved into a single major clone, suggesting that gene correction likely occurred early in the reprogramming process. Gene expression analysis comparing ATM-/- iPSC lines to unrelated ATM+/- cells identifies a large number of differences but comparing only the isogenic pair of A-T iPSC lines reveals that the primary pathway affected by loss of ATM is a diminished expression of p53-related mRNAs. Gene reversion in culture, while likely a rare event, provided a novel, reverted cell line for studying ATM function.Peer reviewe
Final Report for Waterfowl Recognition Algorithm
No full textBird-aircraft coll lslons cost the United States Air Force
mlll Ions of dollars annually and are l lkely to Increase because there
Is Increasing emphasis on low-level fl lghts where bird hazards are
especially· severe. Larkin proposed In 1982 that Next Generation
Weather Radar be used to provide a real-time warning to aircraft of
hazardous concentrations of birds; funding for this research commenced September 15, 1984. In the first year of this project, Quine and
Larkin have Identified a number of factors which can be used to
discriminate birds from weather on NEXRAD prototype radars and have Integrated these factors Into a pref lmlnary waterfowl recognition
algorithm.not peer reviewedOpen Restriction set for Item 123691 on 2022-06-08T16:29:27Z with date null by [email protected] by Susan Braxton ([email protected]) on 2022-06-08T16:36:43Z
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Previous issue date: 1986-03-06U.S. Air Force, AFESC/DEVN (U.S. Air Force) Contract FO8637-84-C0062unpublishedOpe
Landscape Associations of Birds During Migratory Stopover
No full text142 p.Finally, in the context of hierarchy theory, I examined the influence of landscape ecological and behavioral processes on bird density during migratory stopover. Migrant abundance did not vary across landscapes that differed considerably in the amount of habitat available for stopover. As a result, smaller, more isolated patches held higher densities of birds. Spatial models of migrant habitat selection based on migrant proximity to a patch explained nearly as much variance in the number of migrants occupying patches (R2 = 0.88) as selection models based on migrant interception of patches during flight (R2 = 0.90). Because migrant densities in specific patches were the consequence of biological processes operating at larger spatial scales, sound conservation strategies for migrating landbirds should consider the landscape context of stopover habitats that are potential targets for preservation.Made available in DSpace on 2015-09-25T22:42:26Z (GMT). No. of bitstreams: 2
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Previous issue date: 2003Embargo set by: Seth Robbins for item 86626
Lift date: Forever
Reason: Restricted to the U of I community idenfinitely during batch ingest of legacy ETDsRestricted to the U of I community idenfinitely during batch ingest of legacy ETDsU of I OnlyThesis (Ph.D.)--University of Illinois at Urbana-Champaign, 2003
Correction to: Transcriptome signature of miRNA-26b KO mouse model suggests novel targets
No full textFollowing publication of the original article [1], the authors identified an error in the author name of Ronald Naumann. The incorrect author name is: Ronald Nauman The correct author name is: Ronald Naumann The author group has been updated above and the original article [1] has been corrected.</p
Transactions Cost Theory influence in strategy research: A review through a bibliometric study in leading journals
No full textTransaction cost theory (TCT) is widely used in several management disciplines. Its value for explaining organizational phenomena and managers? decisions is well accepted and has been recognized with two Nobel laureates (Ronald Coase and Oliver Williamson). In this paper we examine the impact of the TCT on extant research in top tier management journals. We conduct a bibliometric study supported in the analysis of citations and co-citations to uncover the connections between authors and presumably theories. We conclude that the TCT, albeit its specific focus on the transactions as the unit of analysis, is present in a majority of management- and business-related research.transaction costs theory, bibliometric study, strategy research, review
Civil Religion or Public Theology? : On the Presidencies of Ronald Reagan and George H. W. Bush
No full textSince the inauguration of the civil religion debate in the United States in 1967, it has been argued that the religious dimension of American presidency should be understood as a kind of civil religion, normally based upon the definition of Jean Jacque Rousseau or variations of his definition. However, in this article the author argues, based upon the empirical material presented in Public Papers of the President and elsewhere, that a more accurate description of the religious dimension of some modern presidencies is public theology. He uses the presidencies of Ronald Reagan and George H. W. Bush as case studies.</p
James P. Brawley at UNCF banquet, October 9, 1984
No full textJames P. Brawley at UNCF banquet. Written on verso: Taken at the UNCF Banquet during the UNCF tribute to Dr. Brawley. L to R: Clarence Cooper, Ronald Jackson, Dr. Brawley, and Carl Wise.The Atlanta University Center Robert W. Woodruff Library acknowledges the generous support of the National Endowment for Humanities - Humanities Collections and Reference Resources Implementation Project Grant in supporting the processing and digitization of a number of its major archival collections as part of the project: Spreading the Word: Expanding Access to African American Religious Archival Collections at the Atlanta University Center Robert W. Woodruff Library.</em
THE MODEL OF DEMOCRACY IN RONALD DWORKIN’S THEORY
No full textThe article aims
to analyze the model of democracy in Ronald Dworkin 's legal and political
theory. Therefore, he carried out a bibliographical research with a
qualitative approach in the vast work of the author and some of his main
commentators, in order to examine the step-by-step development of his
coparticipatory or partnership democratic model. The paper explores the main
characteristics of this model, especially its connection to the idea of human
dignity as equal consideration (equality) and personal responsibility (autonomy
and freedom); the refutation to the majority conception; the compatibility of
this model with judicial control of constitutionality and the protection of
minorities in the constitutional system, based on their ethical individualism
and the idea that a constitution of principles, defended by independent judges,
is essentially democratic.</p
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