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Open data exploration in virtual reality: a comparative study of input technology

Nico Reski, Aris Alissandrakis
2019 Virtual Reality  
Following up on our earlier work (Reski and Alissandrakis 2016), we are interested in investigating two aspects.  ...  Following up on design decisions made within our earlier work (Reski and Alissandrakis 2016), the VR system features a visual interface to display detailed information about a node.  ...  Appendix 1: Statement of previous research This submission is partially related to Reski and Alissandrakis (2016), as that conference paper discusses an earlier implementation of our VR system.  ... 
doi:10.1007/s10055-019-00378-w fatcat:o77ndnhttbgbvpwbmqsnfrwr6a

Expression of a human cDNA in moss results in spliced mRNAs and fragmentary protein isoforms [article]

Oguz Top, Stella W.L. Milferstaedt, Nico van Gessel, Sebastian N.W. Hoernstein, Bugra Oezdemir, Eva L. Decker, Ralf Reski
2020 bioRxiv   pre-print
Production of biopharmaceuticals relies on the expression of mammalian cDNAs in host organisms. Here we show that the expression of a human cDNA in the moss Physcomitrella patens generates the expected full-length and four additional transcripts due to unexpected splicing. This mRNA splicing results in non-functional protein isoforms, cellular misallocation of the proteins and low product yields. We integrated these results together with the results of our analysis of all 32,926
more » ... P. patens genes and their 87,533 annotated transcripts in a web application, physCO, for automatized codon-optimization. A thus optimized cDNA results in about eleven times more protein, which correctly localizes to the ER. An analysis of codon preferences of different production hosts suggests that similar effects also occur in non-plant hosts. We anticipate that the use of our methodology will prevent so far undetected mRNA heterosplicing resulting in maximized functional protein amounts for basic biology and biotechnology.
doi:10.1101/2020.09.30.320721 fatcat:z5gyxkyexzhoxgdgwset62xi5u

An Empirical Evaluation of Asymmetric Synchronous Collaboration Combining Immersive and Non-Immersive Interfaces Within the Context of Immersive Analytics

Nico Reski, Aris Alissandrakis, Andreas Kerren
2022 Frontiers in Virtual Reality  
The integrated Time Slice aims to facilitate data interpretation and visual pattern detection when investigating the time-series data in more detail (Reski et al., 2020a ).  ...  An immersive VR environment allows for the interaction with spatio-temporal data using a 3D Radar Chart approach, as introduced and validated in our previous work (Reski et al., 2020a) .  ...  Copyright © 2022 Reski, Alissandrakis and Kerren. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY).  ... 
doi:10.3389/frvir.2021.743445 fatcat:ckt2enqayrhz7nosjpog3eeana

RecQ Helicases Function in Development, DNA Repair, and Gene Targeting inPhyscomitrella patens

Gertrud Wiedemann, Nico van Gessel, Fabian Köchl, Lisa Hunn, Katrin Schulze, Lina Maloukh, Fabien Nogué, Eva L. Decker, Frank Hartung, Ralf Reski
2018 The Plant Cell  
Microscopy of 49,6-diamidino-2-phenylindole (DAPI)-stained spermatozoids was performed according to Horst and Reski (2017) .  ...  The material was axenically cultured in Knop medium (Reski and Abel, 1985) supplemented with microelements (Schween et al., 2003b) .  ... 
doi:10.1105/tpc.17.00632 pmid:29514942 fatcat:an3lonm34bdrlnusvhroo33yju

Viral suppressor of RNA silencing in vascular plants also interferes with the development of the bryophyte Physcomitrella patens

Eeva M. Marttinen, Mikko T. Lehtonen, Nico Gessel, Ralf Reski, Jari P.T. Valkonen
2021 Plant, Cell and Environment  
The gene encoding ribosomal subunit L21 was used as a reference gene (Lehtonen, Akita, Frank, Reski, & Valkonen, 2012) to normalize variation in cDNA amounts.  ...  P19-27) and three P. patens 2b lines (2b-1, 2b-10 and 2b-21), whose phenotypes resembled wild type under non-inducing conditions, were tested for ploidy levels according to Schween, Gorr, Hohe, and Reski  ... 
doi:10.1111/pce.14194 pmid:34564869 pmcid:PMC9135061 fatcat:4ierzm5ymzb5jkcynzgopdl7iy

Polyploidization within the Funariaceae—a key principle behind speciation, sporophyte reduction and the high variance of spore diameters?

2021 Bryophyte Diversity and Evolution  
In P. patens, the spores are slightly smaller with 24-34 µm ( Figure 3) , while the chromosome number is n=27 (Reski et al.1994) and the genome size is 1C=0.96 (Table 1) .  ...  were grown under axenic conditions on solid Knop medium (250 mg/L KH 2 PO 4 , 250 mg/L KCl, 250 mg/L MgSO 4 x 7 H 2 O, 1000 mg/L Ca(NO 3 ) 2 x 4 H 2 O, 12.5 mg/L FeSO 4 x 7 H 2 O, pH = 5.8 with KOH; Reski  ... 
doi:10.11646/bde.43.1.13 fatcat:flqq7knl2rfd7nav2tcwhlyfiu

Selfing in Haploid Plants and Efficacy of Selection: Codon Usage Bias in the Model Moss Physcomitrella patens

Péter Szövényi, Kristian K. Ullrich, Stefan A. Rensing, Daniel Lang, Nico van Gessel, Hans K. Stenøien, Elena Conti, Ralf Reski
2017 Genome Biology and Evolution  
A long-term reduction in effective population size will lead to major shift in genome evolution. In particular, when effective population size is small, genetic drift becomes dominant over natural selection. The onset of self-fertilization is one evolutionary event considerably reducing effective size of populations. Theory predicts that this reduction should be more dramatic in organisms capable for haploid than for diploid selfing. Although theoretically well-grounded, this assertion received
more » ... mixed experimental support. Here, we test this hypothesis by analyzing synonymous codon usage bias of genes in the model moss Physcomitrella patens frequently undergoing haploid selfing. In line with population genetic theory, we found that the effect of natural selection on synonymous codon usage bias is very weak. Our conclusion is supported by four independent lines of evidence: 1) Very weak or nonsignificant correlation between gene expression and codon usage bias, 2) no increased codon usage bias in more broadly expressed genes, 3) no evidence that codon usage bias would constrain synonymous and nonsynonymous divergence, and 4) predominant role of genetic drift on synonymous codon usage predicted by a model-based analysis. These findings show striking similarity to those observed in AT-rich genomes with weak selection for optimal codon usage and GC content overall. Our finding is in contrast to a previous study reporting adaptive codon usage bias in the moss P. patens.
doi:10.1093/gbe/evx098 pmid:28549175 pmcid:PMC5507605 fatcat:hwkbrqne6rdkfnakgnfesjzury

Change your Perspective: Exploration of a 3D Network created from Open Data in an Immersive Virtual Reality Environment

Nico Reski, Aris Alissandrakis
This paper investigates an approach of how to naturally interact and explore information (based on open data) within an immersive virtual reality environment (VRE) using a head-mounted display and vision-based motion controls. We present the results of a user interaction study that investigated the acceptance of the developed prototype, estimated the workload as well as examined the participants' behavior. Additional discussions with experts provided further feedback towards the prototype's
more » ... all design and concept. The results indicate that the participants were enthusiastic regarding the novelty and intuitiveness of exploring information in a VRE, as well as were challenged (in a positive manner) with the applied interface and interaction design. The presented concept and design were well received by the experts, who valued the idea and implementation and encouraged to be even bolder, making more use of the available 3D environment.

50th anniversary of IAB (Table of Contents)

2021 Bryophyte Diversity and Evolution  
aNNa K. oSteNdorf, NICo vaN GeSSel, YaroN MalKowSKY, MarKo S. SaBovlJevIC, StefaN a. reNSING, aNIta roth-NeBelSICK & ralf reSKI 112.  ... 
doi:10.11646/bde.43.1.2 fatcat:cm2xtf45vzhrhf2gdwohqdb4ye

The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution

Daniel Lang, Kristian K. Ullrich, Florent Murat, Jörg Fuchs, Jerry Jenkins, Fabian B. Haas, Mathieu Piednoel, Heidrun Gundlach, Michiel Van Bel, Rabea Meyberg, Cristina Vives, Jordi Morata (+44 others)
2018 The Plant Journal  
., 2012) , while the extant chromosome number of P. patens is n = 27 (Reski et al., 1994) , suggesting two ancestral WGD events (Rensing et al., 2007 (Rensing et al., , 2012 .  ... 
doi:10.1111/tpj.13801 pmid:29237241 fatcat:yfqiutbkr5dmljcxfxdkuuqi5i

A Physcomitrella PIN protein acts in spermatogenesis and sporophyte abortion [article]

Volker M. Lüth, Christine Rempfer, Oliver Herzog, Melanie Roecker, Marion Braun, Eva L. Decker, Ralf Reski
2022 bioRxiv   pre-print
Acknowledgements: We gratefully acknowledge Nico van Gessel for consultation on transcriptomic sequence analysis, Richard Haas for expert technical advice and assistance extracting RNA from gametangia,  ...  Plants were cultivated using Knop medium (pH 5.8) according to Reski & Abel (1985) containing microelements according to Egener et al. (2002) .  ...  Spermatogenesis in Physcomitrella is tightly regulated, producing motile, biflagellate sperm cells, relying on the availability of water to swim to the egg cell (Reski, 1998; Cove, 2005; Ortiz-Ramírez  ... 
doi:10.1101/2022.07.05.498815 fatcat:5kvx6tzui5hvlaasazb6ecahiy


Muh Reski, Eni Indriani, Nurabiah
2021 Jurnal Riset Mahasiswa Akuntansi  
Menurut Nico pada Aldin (2019) hal itu bakal menjadi perhatian penting karena ada potensi penurunan suku bunga acuan BI.  ... 
doi:10.29303/risma.v1i3.102 fatcat:xihwpe4svnetnavn32b3f7aky4

Functional Characterization of Class I Trehalose Biosynthesis Genes in Physcomitrella patens

Tran Le Cong Huyen Bao Phan, Ines Delorge, Nelson Avonce, Patrick Van Dijck
2020 Frontiers in Plant Science  
FUNDING ACKNOWLEDGMENTS We would like to thank Nico Van Goethem (VIB-KU Leuven Center for Microbiology) for assistance with preparation of the figures.  ...  ., 2007; Reski et al., 2015) . In P. patens there are two alternative generations: the haploid gametophyte stage and the diploid sporophyte stage.  ...  For instance, auxins induce the formation of caulonema, while cytokinins show the opposite effect (Ashton et al., 1979; Reski and Abel, 1985) .  ... 
doi:10.3389/fpls.2019.01694 pmid:32038675 pmcid:PMC6984353 fatcat:23zdappcffgevlghecu73qs5bu

Tazarotene-Induced Gene 1 (TIG1), a Novel Retinoic Acid Receptor-Responsive Gene in Skin

Sunil Nagpal, Sheetal Patel, Arisa T. Asano, Alan T. Johnson, Madeleine Duvic, Roshantha A.S. Chandraratna
1996 Journal of Investigative Dermatology  
C,D) Total RNA (10 IJ..g) from mock-treated (CON-TROL), AGN 190 168-or RA (1 IJ..M each for 24 h)-treated primary fo reski n dermal fibroblasts was subj ected to Northern hybridization .  ...  These e ffects include resolution of utric uli and tran sepide rmal water loss in rluno mouse skin (G enclim e nico e/ a/, 1994), inhibition of 12-0-tetradecanoyl-phorbol-13acetate-induced omitlune d eca  ... 
doi:10.1111/1523-1747.ep12340668 pmid:8601727 fatcat:5e3uzfaetnedpibgu2s6aiur3m

RAMAI-RAMAI MENOLAK WISATA HALAL: Kontestasi Politik Identitas dalam Perkembangan Wisata Halal di Indonesia

Ghifari Yuristiadhi Masyhari Makhasi, Muhammad Thohir Yudha Rahimmadhi
2020 Jurnal Sosiologi Reflektif  
Pada 11 Maret 2019, Anggota DPRD Tana Toraja, Yariana Somalinggi dan Nico Mangera mengatakan bahwa tanpa label halal, Tana Toraja sejak dahulu hidup rukun.  ...  Di hari yang sama, pada saat unjuk rasa, koordinator aksi, Pradyan Reski Londongallo mengatakan bahwa aksi menolak wisata halal ini untuk mempertahankan adat dan budaya Tana Toraja dan bukan atas nama  ... 
doi:10.14421/jsr.v14i2.1767 fatcat:gbo72g2trvfuxpz23seb56upqq
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