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Constraints on Constraints: Surveying the Epigenetic Landscape

Frank C. Keil
1990 Cognitive Science  
The constraints moreover seem to be on knowledge structures, not on process.  ...  The constraints of interest could be residing primarily in any one of three cells and possibly even in the DGA one.  ... 
doi:10.1207/s15516709cog1401_7 fatcat:u7jjevsf6bc6ndlse2iy4aetxm

Constraints on gene patent protection fuel secrecy concerns: a qualitative study

Christi J Guerrini, Amy L McGuire, Mary A Majumder, Juli M Bollinger, Paul J Rowan
2017 Journal of Law and the Biosciences  
We conducted semi-structured interviews of legal and scientific experts (n = 30) to understand the effect of recent patent eligibility changes on interest in patenting and trade secrecy of genetic innovations  ...  Due to the clandestine nature of trade secrets, it is impossible to quantify the extent to which innovators actually elect to protect their inventions as trade secrets rather than patents.  ...  The authors thank Arthur Rogers for his suggestions on an early draft of this manuscript.  ... 
doi:10.1093/jlb/lsx034 pmid:29868184 pmcid:PMC5965503 fatcat:ov4nv6j6xfawvmhl3axbmdb5di

Constraints to and conservation implications for climate change adaptation in plants

Matthew J. Christmas, Martin F. Breed, Andrew J. Lowe
2015 Conservation Genetics  
The key climate responses of plant populations can be categorised into one of three types: migration, in situ adaptation, or extirpation.  ...  Our synthesis of plant, and particularly tree, responses and constraints to climate change adaptation, combined with the identification of conservation strategies designed to overcome constraints, will  ...  The funding bodies played no role in the writing of this review or in the decision to submit it for publication.  ... 
doi:10.1007/s10592-015-0782-5 fatcat:juv3l7qtife5flh3km3logjcgi

Whole-genome sequencing of glioblastoma reveals enrichment of non-coding constraint mutations in known and novel genes

Sharadha Sakthikumar, Ananya Roy, Lulu Haseeb, Mats E. Pettersson, Elisabeth Sundström, Voichita D. Marinescu, Kerstin Lindblad-Toh, Karin Forsberg-Nilsson
2020 Genome Biology  
Performing analysis on non-coding constraint mutations and their position relative to nearby genes, we find a significant enrichment of non-coding constraint mutations in the neighborhood of 78 genes that  ...  Glioblastoma (GBM) has one of the worst 5-year survival rates of all cancers.  ...  The authors acknowledge support from the National Genomics Infrastructure in Uppsala funded by Science for Life Laboratory, the Knut and Alice Wallenberg Foundation and the Swedish Research Council, and  ... 
doi:10.1186/s13059-020-02035-x pmid:32513296 fatcat:rnbs5g5lqnaydntq76qkytkgv4

Potential Benefits and Constraints of Development of Critical Raw Materials' Production in the EU: Analysis of Selected Case Studies

Katarzyna Guzik, Krzysztof Galos, Alicja Kot-Niewiadomska, Toni Eerola, Pasi Eilu, Jorge Carvalho, Francisco Javier Fernandez-Naranjo, Ronald Arvidsson, Nikolaos Arvanitidis, Agnes Raaness
2021 Resources  
Major benefits and constraints related to mineral extraction within the EU have been identified on the examples of selected critical raw materials' deposits.  ...  and constraints related to the possibility of exploitation commencement.  ...  Among the identified constraints, a negative impact of the mining activity on landscape, environment, local fauna and flora, as well as a threat to business activities of local society in cases where the  ... 
doi:10.3390/resources10070067 fatcat:udgjgwemkvglzopaa4cpwgpjpq

Flexibility and constraint in preimplantation gene regulation in mouse [article]

Colin Conine, MArina Krykbaeva, Lina Song, Robert Brewster, Nir Friedman, Oliver Rando
2020 bioRxiv   pre-print
Together, our data provide a detailed survey of the molecular consequences of different fertilization methods, establish parthenotes as a tabula rasa for understanding the role for sperm RNAs in preimplantation  ...  First, we characterize the effects of each fertilization method on early embryonic gene regulation, most notably finding decreased expression of trophectoderm markers at later stages of preimplantation  ...  ACKNOWLEDGEMENTS We thank Nick Rhind, Marisa Bartolomei, Jaime Rivera, John Yeh, and Shaila Chauhan, as well as members of the Rando lab, for critical reading of the manuscript and insightful discussions  ... 
doi:10.1101/2020.03.13.990275 fatcat:s7pfx7xxjvduhoqiva46w3sb7u

Extensive conservation of ancient microsynteny across metazoans due to cis-regulatory constraints

M. Irimia, J. J. Tena, M. S. Alexis, A. Fernandez-Minan, I. Maeso, O. Bogdanovic, E. de la Calle-Mustienes, S. W. Roy, J. L. Gomez-Skarmeta, H. B. Fraser
2012 Genome Research  
Here we report the first systematic survey of microsynteny conservation across metazoans, utilizing 17 genome sequences.  ...  Integrating sequence conservation, gene expression data, gene function, epigenetic marks, and other genomic features, we provide extensive evidence that many conserved ancient linkages involve (1) the  ...  genes with fully functional regulatory landscapes.  ... 
doi:10.1101/gr.139725.112 pmid:22722344 pmcid:PMC3514665 fatcat:z6pkcsypv5ahbowrrurofsvia4

Contents to volume 14

1990 Cognitive Science  
Brown Constraints on Constraints: Surveying the Epigenetic Landscape I35 Frank C. Keil Douglas L. Medin. Woo-Kyoung Ahn. Jeffre.v Beltger. Judv Flonan. Robert Goldsrone.  ...  Spelke Constraints Children Place on Word Meanings 57 Ellen M.  ... 
doi:10.1016/0364-0213(90)90013-m fatcat:bs3k5mprabgfdni7tahiqbhzxu

In This Issue

2016 Proceedings of the National Academy of Sciences of the United States of America  
www.pnas.org/cgi/doi/10.1073/iti3416113 PNas | August 23, 2016 | vol. 113 | no. 34 | 9383 Constraints on human body form evolution  ...  Mouse primordial germ-cell model illuminates epigenetic inheritance Experiences, such as pain or environmental exposure to toxins, can imprint epigenetic marks on the genome that alter gene expression.  ... 
doi:10.1073/iti3416113 fatcat:pe2gwxvf5fcvlfne3aqlfs2w6u

Topslam: Waddington Landscape Recovery for Single Cell Experiments [article]

Max Zwiessele, Neil D Lawrence
2016 bioRxiv   pre-print
We present an approach to estimate the nature of the Waddington (or epigenetic) landscape that underlies a population of individual cells.  ...  Our approach makes use of probabilistic non-linear dimensionality reduction that respects the topology of our estimated epigenetic landscape.  ...  Acknowledgements 300 The authors would like to thank Aleksandra Ko lodziejczyk, Alexis Boukouvalas, Florian 301 Büttner, Sarah Teichmann, and Magnus Rattray for useful discussion and clarifying  ... 
doi:10.1101/057778 fatcat:wnedwz6wrbajnjqm6uwb5f4f7u

Epigenetic gorges in fluvial landscapes

W. B. Ouimet, K. X. Whipple, B. T. Crosby, J. P. Johnson, T. F. Schildgen
2008 Earth Surface Processes and Landforms  
(a)-(d) Landslide-induced epigenetic gorge located ~70 km west of Maerkang on the Do Qu River (GPS: 31·7973 North, 101·5150 West).  ...  A second example of a landslide-induced epigenetic gorge lies farther north in the Dadu River catchment, on the Do Qu River ~70 km west of Maerkang (Figure 3 ).  ...  Acknowledgements This work was supported by the NSF Continental Dynamics Program (EAR-0003571), in collaboration with Leigh Royden and Clark Burchfiel at the Massachusetts Institute of Technology, and  ... 
doi:10.1002/esp.1650 fatcat:ydirqbt2vvayxaesxb7kxjhmyi

Remembering the past: Mitotic bookmarking in a developing embryo

Maelle Bellec, Ovidiu Radulescu, Mounia Lagha
2018 Current Opinion in Systems Biology  
Yet, at each division, chromatin faces structural constraints imposed by the important nuclear re-organization operating during mitosis.  ...  Here we review mechanisms of mitotic bookmarking and discuss their impact on transcriptional dynamics in the context of multicellular developing embryos.  ...  Acknowledgements We thank Bernd Schuttengruber, Jeremy Dufourt, Yousra Yahia and Cyril Esnault for comments on the manuscript.  ... 
doi:10.1016/j.coisb.2018.08.003 pmid:30417158 pmcid:PMC6218673 fatcat:ssmuqcbaonebzdm4fsx4lqf35y

Genetic and Genomic Tools to Asssist Sugar Beet Improvement: The Value of the Crop Wild Relatives

Filipa Monteiro, Lothar Frese, Sílvia Castro, Maria C. Duarte, Octávio S. Paulo, João Loureiro, Maria M. Romeiras
2018 Frontiers in Plant Science  
Sugar beet (Beta vulgaris L. ssp. vulgaris) is one of the most important European crops for both food and sugar production.  ...  The introgression of traits from Crop Wild Relatives (CWR) has been done essentially for lessening biotic stresses constraints, namely using Beta and Patellifolia species which exhibit disease resistance  ...  epigenetic landscapes shaped by abiotic conditions.  ... 
doi:10.3389/fpls.2018.00074 pmid:29467772 pmcid:PMC5808244 fatcat:vnrltinizvczrcveb4ipt3sph4

Computational Prediction of the Global Functional Genomic Landscape: Applications, Methods, and Challenges

Weiqiang Zhou, Ben Sherwood, Hongkai Ji
2016 Human Heredity  
Exploiting the correlation among different data types, it is possible to predict one functional genomic data type from other data types.  ...  They also provide a cost-efficient solution to inferring the unknown functional genomic profiles when experimental data are unavailable due to resource or technological constraints.  ...  Acknowledgments This work is supported by grants from the National Institutes of Health (R01HG006841, R01HG006282).  ... 
doi:10.1159/000450827 pmid:28076869 pmcid:PMC5599299 fatcat:etol4dlitrcmjnfbaig7sgxrie

The emergence of linguistic form in time

Brian Macwhinney
2005 Connection science  
Linguistic forms are shaped by forces operating on vastly different time scales.  ...  Our challenge is to understand how forces with very different time scales mesh together in the current moment to determine the emergence of linguistic form.  ...  Before birth, epigenetic interactions with the environment are confined to forces that impinge on the uterus and the embryonic fluid.  ... 
doi:10.1080/09540090500177687 fatcat:4msb225fpvhrbiqgs5dxnzxtgu
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