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UniFrac information


UniFrac, a shortened version of unique fraction metric, is a distance metric used for comparing biological communities. It differs from dissimilarity measures such as Bray-Curtis dissimilarity in that it incorporates information on the relative relatedness of community members by incorporating phylogenetic distances between observed organisms in the computation.

Both weighted (quantitative) and unweighted (qualitative) variants of UniFrac[1] are widely used in microbial ecology, where the former accounts for abundance of observed organisms, while the latter only considers their presence or absence. The method was devised by Catherine Lozupone, when she was working with Rob Knight[2] of the University of Colorado at Boulder in 2005.[3][4]

  1. ^ Lozupone, C. A.; Hamady, M; Kelley, S. T.; Knight, R. (2007). "Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities". Applied and Environmental Microbiology. 73 (5): 1576–85. doi:10.1128/AEM.01996-06. PMC 1828774. PMID 17220268.
  2. ^ Knight, Rob (2015). Follow Your Gut: The Enormous Impact of Tiny Microbes. Simon & Schuster/TED. p. 89. ISBN 978-1-4767-8475-5.
  3. ^ Lozupone, C.; Knight, R. (2005). "UniFrac: A New Phylogenetic Method for Comparing Microbial Communities". Applied and Environmental Microbiology. 71 (12): 8228–8235. doi:10.1128/AEM.71.12.8228-8235.2005. PMC 1317376. PMID 16332807.
  4. ^ Hamady, M; Lozupone, C; Knight, R (2010). "Fast Uni Frac: Facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and Phylo Chip data". The ISME Journal. 4 (1): 17–27. doi:10.1038/ismej.2009.97. PMC 2797552. PMID 19710709.

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UniFrac

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UniFrac, a shortened version of unique fraction metric, is a distance metric used for comparing biological communities. It differs from dissimilarity...

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Human microbiome

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data to analyse. Phylogenetic aware distance is usually performed with UniFrac or similar tools, such as Soresen's index or Rao's D, to quantify the differences...

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Microbiota

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sequences. Due to the complexity of the data, distance measures such as UniFrac distances are usually defined between microbiome samples, and downstream...

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List of female scientists in the 21st century

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American microbiologist, working on the gut microbiome, who developed the UniFrac algorithm Silvia Maciá (born 1972), marine biologist Carolyn M. Mazure...

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Lindemann mechanism

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{\displaystyle {\frac {\mathrm {d} [{\ce {P}}]}{\mathrm {d} t}}=k_{\rm {uni}}[{\ce {A}}],\quad k_{\rm {uni}}={\frac {1}{[A]}}{\frac {\mathrm {d[P]} }{\mathrm...

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RRKM theory

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{uni} }={\frac {1}{hQ_{r}Q_{v}}}\int \limits _{E_{0}}^{\infty }\mathrm {d} E\sum _{J=0}^{\infty }{\frac {(2J+1)G^{\ddagger }(E,J)\exp \!\left({\frac...

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Gamma function

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(n+z)}}\left({\frac {2}{1}}\cdot {\frac {3}{2}}\cdots {\frac {n+1}{n}}\right)^{z}\\[8pt]&={\frac {1}{z}}\prod _{n=1}^{\infty }\left[{\frac {1}{1+{\frac {z}{n}}}}\left(1+{\frac...

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Orthographic projection

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frac {{\text{right}}-{\text{left}}}{2}}&0&0&{\frac {{\text{left}}+{\text{right}}}{2}}\\0&{\frac {{\text{top}}-{\text{bottom}}}{2}}&0&{\frac...

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Root of unity

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1 , … , n − 1. {\displaystyle \exp \left({\frac {2k\pi i}{n}}\right)=\cos {\frac {2k\pi }{n}}+i\sin {\frac {2k\pi }{n}},\qquad k=0,1,\dots ,n-1.} However...

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Viscosity

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m ⋅ s = N m 2 ⋅ s = P a ⋅ s = {\displaystyle [\mu ]={\frac {\rm {kg}}{\rm {m{\cdot }s}}}={\frac {\rm {N}}{\rm {m^{2}}}}{\cdot }{\rm {s}}={\rm {Pa{\cdot...

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Superior highly composite number

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{\displaystyle {\frac {2}{2^{.5}}}\approx 1.414,{\frac {3}{4^{.5}}}=1.5,{\frac {4}{6^{.5}}}\approx 1.633,{\frac {6}{12^{.5}}}\approx 1.732,{\frac {8}{24^{.5}}}\approx...

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Graphene lens

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e2/h represents the universal conductance. σ uni = ( π ) e 2 2 h {\displaystyle \sigma _{\text{uni}}={\frac {(\pi )e^{2}}{2h}}} (Equation 1) A representation...

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Helmholtz decomposition

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{r} )&={\frac {1}{4\pi }}\int _{V}{\frac {\nabla '\cdot \mathbf {F} (\mathbf {r} ')}{|\mathbf {r} -\mathbf {r} '|}}\,\mathrm {d} V'-{\frac {1}{4\pi }}\oint...

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Epicyclic gearing

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r N s . {\displaystyle {\frac {\omega _{s}}{\omega _{r}}}=R,\quad {\mbox{so}}\quad {\frac {\omega _{s}}{\omega _{r}}}=-{\frac {N_{r}}{N_{s}}}.} 2. The...

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Dipole antenna

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S={\frac {1}{2}}E_{\theta }H_{\phi }^{*}={\frac {1}{2}}\ {\frac {\ \zeta _{0}\ I_{h}^{2}\ \ell ^{2}\ k^{2}\ }{(4\pi r)^{2}}}\ \sin ^{2}(\theta )={\frac {\zeta...

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Horsepower

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{\displaystyle P={\frac {W}{t}}={\frac {Fd}{t}}={\frac {180~{\text{lbf}}\times 2.4\times 2\,\pi \times 12~{\text{ft}}}{1~{\text{min}}}}=32{,}572~{\frac {{\text{ft}}\cdot...

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Feedforward neural network

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by direction of the flow of information between its layers. Its flow is uni-directional, meaning that the information in the model flows in only one...

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Morison equation

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D u | u | . {\displaystyle F\,=\,C_{m}\,\rho \,{\frac {\pi }{4}}D^{2}\,{\dot {u}}\,+\,C_{d}\,{\frac {1}{2}}\,\rho \,D\,u\,|u|.} Besides the inline force...

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Electromagnetic radiation

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^{2}-{\frac {1}{{c_{0}}^{2}}}{\frac {\partial ^{2}}{\partial t^{2}}}={\frac {\partial ^{2}}{\partial x^{2}}}+{\frac {\partial ^{2}}{\partial y^{2}}}+{\frac {\partial...

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Internal rate of return

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{\displaystyle \operatorname {NPV} =-123400+{\frac {36200}{(1+r)^{1}}}+{\frac {54800}{(1+r)^{2}}}+{\frac {48100}{(1+r)^{3}}}=0.} In this case, the answer...

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Ellipsoid

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V={\frac {\pi ^{\frac {n}{2}}}{\Gamma \left({\frac {n}{2}}+1\right)}}a_{1}a_{2}\cdots a_{n}\approx {\frac {1}{\sqrt {\pi n}}}\cdot \left({\frac {2e\pi...

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Autoregressive model

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\Phi (\omega )={\frac {1}{\sqrt {2\pi }}}\,\sum _{n=-\infty }^{\infty }B_{n}e^{-i\omega n}={\frac {1}{\sqrt {2\pi }}}\,\left({\frac {\sigma _{\varepsilon...

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Tantalum capacitor

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of the dielectric is. C = ε ⋅ A d {\displaystyle C=\varepsilon \cdot {\frac {A}{d}}} The dielectric thickness of electrolytic capacitors is very thin...

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EURO STOXX 50

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{\displaystyle Index_{t}={\frac {\displaystyle \sum _{i=1}^{n}(p_{it}\cdot s_{it}\cdot ff_{it}\cdot cf_{it}\cdot x_{it})}{D_{t}}}={\frac {M_{t}}{D_{t}}}} where:...

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Inductor

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{\mathcal {E}}=-{\frac {d\Phi _{\mathbf {B} }}{dt}}=-{\frac {d}{dt}}(LI)} E = − L d I d t {\displaystyle \quad {\mathcal {E}}=-L{\frac {dI}{dt}}\quad }...

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Notation for differentiation

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x  or  d d x f ( x ) . {\displaystyle {\frac {df}{dx}}(x){\text{ or }}{\frac {df(x)}{dx}}{\text{ or }}{\frac {d}{dx}}f(x).} Higher derivatives are written...

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