Conflation of short identity-by-descent segments bias their inferred length distribution

Identity-by-descent (IBD) is a fundamental concept in genetics with many applications. In a common definition, two haplotypes are said to contain an IBD segment if they share a segment that is inherited from a recent shared common ancestor without intervening recombination. Long IBD segments (> 1cM) can be efficiently detected by a number of algorithms using high-density SNP array data from a population sample. However, these approaches detect IBD based on contiguous segments of identity-by-state, and such segments may exist due to the conflation of smaller, nearby IBD segments. We quantified this effect using coalescent simulations, finding that nearly 40% of inferred segments 1-2cM long are results of conflations of two or more shorter segments, under demographic scenarios typical for modern humans. This biases the inferred IBD segment length distribution, and so can affect downstream inferences. We observed this conflation effect universally across different IBD detection programs and human demographic histories, and found inference of segments longer than 2cM to be much more reliable (less than 5% conflation rate). As an example of how this can negatively affect downstream analyses, we present and analyze a novel estimator of the de novo mutation rate using IBD segments, and demonstrate that the biased length distribution of the IBD segments due to conflation can lead to inflated estimates if the conflation is not modeled. Understanding the conflation effect in detail will make its correction in future methods more tractable

A rational approach to the harmonisation of the thermal properties of building materials

The Energy Systems Research Unit at the University of Strathclyde in Glasgow was contracted by the Building Research Establishment to review existing data-sets of thermo-physical properties of building materials and devise vetting and conflation mechanisms. The UK Chartered Institute of Building Services Engineers subsequently commissioned a project to extract a sub-set of these data for inclusion in Guide A, Section 3. This paper reports the project process and outcome. Specifically, it describes the source of existing data, comments on the robustness of the underlying test procedures and presents a new approach to data classification and conflation

“I’d Rather Be Dead Than Disabled”—The Ableist Conflation and the Meanings of Disability

Despite being assailed for decades by disability activists and disability studies scholars spanning the humanities and social sciences, the medical model of disability—which conceptualizes disability as an individual tragedy or misfortune due to genetic or environmental insult—still today structures many cases of patient–practitioner communication. Synthesizing and recasting work done across critical disability studies and philosophy of disability, I argue that the reason the medical model of disability remains so gallingly entrenched is due to what I call the “ableist conflation” of disability with pain and suffering. In an effort to better equip healthcare practitioners and those invested in health communication to challenge disability stigma, discrimination, and oppression, I lay out the logic of the ableist conflation and interrogate examples of its use. I argue that insofar as the semiosis of pain and suffering is structured by the lived experience of unwelcome bodily transition or variation, experiences of pain inform the ableist conflation by preemptively tying such variability and its attendant disequilibrium to disability. I conclude by discussing how philosophy of disability and critical disability studies might better inform health communication concerning disability, offering a number of conceptual distinctions toward that end

Conflation: a new type of accelerated expansion

In the framework of scalar-tensor theories of gravity, we construct a new kind of cosmological model that conflates inflation and ekpyrosis. During a phase of conflation, the universe undergoes accelerated expansion, but with crucial differences compared to ordinary inflation. In particular, the potential energy is negative, which is of interest for supergravity and string theory where both negative potentials and the required scalar-tensor couplings are rather natural. A distinguishing feature of the model is that, for a large parameter range, it does not significantly amplify adiabatic scalar and tensor fluctuations, and in particular does not lead to eternal inflation and the associated infinities. We also show how density fluctuations in accord with current observations may be generated by adding a second scalar field to the model. Conflation may be viewed as complementary to the recently proposed anamorphic universe of Ijjas and Steinhardt.Comment: 22 pages, 6 figures, replaced with published versio

How to Combine Independent Data Sets for the Same Quantity

This paper describes a new mathematical method called conflation for consolidating data from independent experiments that measure the same physical quantity. Conflation is easy to calculate and visualize and minimizes the maximum loss in Shannon information in consolidating several independent distributions into a single distribution. A formal mathematical treatment of conflation has recently been published. For the benefit of experimenters wishing to use this technique, in this paper we derive the principal basic properties of conflation in the special case of normally distributed (Gaussian) data. Examples of applications to measurements of the fundamental physical constants and in high energy physics are presented, and the conflation operation is generalized to weighted conflation for cases in which the underlying experiments are not uniformly reliable. When different experiments are designed to measure the same unknown quantity, how can their results be consolidated in an unbiased and optimal way? Given data from experiments made at different times, in different locations, with different methodologies, and perhaps differing even in underlying theory, is there a straightforward, easily applied method for combining the results from all of the experiments into a single distribution? This paper describes a new mathematical method called conflation for consolidating data from independent experiments that measure the same physical quantity

Acronyms as an integral part of multi–word term recognition - A token of appreciation

Term conflation is the process of linking together different variants of the same term. In automatic term recognition approaches, all term variants should be aggregated into a single normalized term representative, which is associated with a single domain–specific concept as a latent variable. In a previous study, we described FlexiTerm, an unsupervised method for recognition of multi–word terms from a domain–specific corpus. It uses a range of methods to normalize three types of term variation – orthographic, morphological and syntactic variation. Acronyms, which represent a highly productive type of term variation, were not supported. In this study, we describe how the functionality of FlexiTerm has been extended to recognize acronyms and incorporate them into the term conflation process. The main contribution of this study is not acronym recognition per se, but rather its integration with other types of term variation into the term conflation process. We evaluated the effects of term conflation in the context of information retrieval as one of its most prominent applications. On average, relative recall increased by 32 percent points, whereas index compression factor increased by 7 percent points. Therefore, evidence suggests that integration of acronyms provides non–trivial improvement of term conflation

Further developments in the conflation of CFD and building simulation

To provide practitioners with the means to tackle problems related to poor indoor environments, building simulation and computational fluid dynamics can usefully be integrated within a single computational framework. This paper describes the outcomes from a research project sponsored by the European Commission, which furthered the CFD modelling aspects of the ESP-r system. The paper summarises the form of the CFD model and describes the method used to integrate the thermal and flow domains