ELIZA

return kwic search for cell out of >500 occurrences
928965 occurrences (No.3 in the rank) during 5 years in the PubMed. [cache]

215) Our results suggest that uncorrelated cell-type-specific markers are ideally suited to deconvolute both the expression and co-expression patterns of an individual cell type.

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PMID:31813949 DOI:10.1093/bib/bbz135

2021 Briefings in bioinformatics

* The effect of tissue composition on gene co-expression.

- Variable cellular composition of tissue samples represents a significant challenge for the interpretation of genomic profiling studies. Substantial effort has been devoted to modeling and adjusting for compositional differences when estimating differential expression between sample types. However, relatively little attention has been given to the effect of tissue composition on co-expression estimates. In this study, we illustrate the effect of variable cell-type composition on correlation-based network estimation and provide a mathematical decomposition of the tissue-level correlation. We show that a class of deconvolution methods developed to separate tumor and stromal signatures can be applied to two component cell-type mixtures. In simulated and real data, we identify conditions in which a deconvolution approach would be beneficial. Our results suggest that uncorrelated cell-type-specific markers are ideally suited to deconvolute both the expression and co-expression patterns of an individual cell type. We provide a Shiny application for users to interactively explore the effect of cell-type composition on correlation-based co-expression estimation for any cell types of interest.

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(1)23 death	(18)5 differentiation	(35)3 envelope	(52)2 immunity
(2)15 lines	(19)5 infiltration	(36)3 function	(53)2 informative
(3)15 types	(20)5 membrane	(37)3 growth	(54)2 interactions
(4)14 proliferation	(21)4 null	(38)3 lysis	(55)2 is
(5)14 wall	(22)4 activation	(39)3 migration	(56)2 killing
(6)8 carcinoma	(23)4 apoptosis	(40)3 mitochondrial	(57)2 malignancies
(7)8 transplantation	(24)4 culture	(41)3 shape	(58)2 manner
(8)7 line	(25)4 cultures	(42)3 therapy	(59)2 marker
(9)7 lung	(26)4 invasion	(43)2 DNA	(60)2 mass
(10)7 populations	(27)4 metabolism	(44)2 adhesion,	(61)2 migration,
(11)7 proliferation,	(28)4 receptor	(45)2 behavior	(62)2 mixture
(12)7 viability	(29)4 responses	(46)2 biology	(63)2 morphology
(13)6 surface	(30)4 type	(47)2 cholesterol	(64)2 nuclear
(14)6 survival	(31)3 RNA	(48)2 culture,	(65)2 number
(15)6 types,	(32)3 adhesion	(49)2 development	(66)2 over-activation,
(16)5 and	(33)3 cycle	(50)2 fate	(67)2 permeability
(17)5 cycle,	(34)3 division	(51)2 genes

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--- WordNet output for cell --- =>密室, 細胞, 電池, 独房・細胞, 監房, 組織, 独房 Overview of noun cell The noun cell has 7 senses (first 3 from tagged texts) 1. (71) cell -- (any small compartment; "the cells of a honeycomb") 2. (44) cell -- ((biology) the basic structural and functional unit of all organisms; they may exist as independent units of life (as in monads) or may form colonies or tissues as in higher plants and animals) 3. (1) cell, electric cell -- (a device that delivers an electric current as the result of a chemical reaction) 4. cell, cadre -- (a small unit serving as part of or as the nucleus of a larger political movement) 5. cellular telephone, cellular phone, cellphone, cell, mobile phone -- (a hand-held mobile radiotelephone for use in an area divided into small sections, each with its own short-range transmitter/receiver) 6. cell, cubicle -- (small room in which a monk or nun lives) 7. cell, jail cell, prison cell -- (a room where a prisoner is kept) --- WordNet end ---