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Finding a Periodic Attractor of a Boolean Network

Tatsuya Akutsu, Sven Kosub, Avraham A. Melkman, Takeyuki Tamura
2012 IEEE/ACM Transactions on Computational Biology & Bioinformatics  
For finding an attractor of period 2 of a BN consisting of n AND/OR functions of literals, we present an O(1.985 n ) time algorithm.  ...  For finding an attractor of period 2 of a BN consisting of n OR functions of positive literals, we present a polynomial time algorithm.  ...  Based on this proposition, we eliminate paths and cycles. We present a procedure for elimination as a part of the proof of the following lemma.  ... 
doi:10.1109/tcbb.2012.87 pmid:22689081 fatcat:vtq2dmddmjfhfcobemvoiksmm4

Efficient CSMA using Regional Free Energy Approximations [article]

Peruru Subrahmanya Swamy, Venkata Pavan Kumar Bellam, Radha Krishna Ganti, Krishna Jagannathan
2017 arXiv   pre-print
A distinguishing feature of our work is that the regional approximations that we propose are tailored to conflict graphs with small cycles, which is a typical characteristic of wireless networks.  ...  CSMA (Carrier Sense Multiple Access) algorithms based on Gibbs sampling can achieve throughput optimality if certain parameters called the fugacities are appropriately chosen.  ...  Let {b r (x r )} be a set of locally consistent regional distributions.  ... 
arXiv:1702.06772v1 fatcat:nuzc63ggv5awrmzexcrxhn5xsy

Identifying Maternal Constraints on Fetal Growth and Subsequent Perinatal Outcomes Using a Multiple Embryo Implantation Model

Nigel Pereira, Tyler Cozzubbo, Stephanie Cheung, Zev Rosenwaks, Gianpiero D. Palermo, Queenie V. Neri, Antonio Gonzalez-Bulnes
2016 PLoS ONE  
Patients and Methods This is a retrospective, single center study of ART cycles, specifically intracytoplasmic sperm injection (ICSI) cycles during a 16-year period.  ...  These outcomes complicate multiple gestations as expected, but have also been reported in singletons.  ...  ICSI cycles with the number of implanted embryos with cardiac activity on CD49 consistent with the number of live births were defined as "true" live births to distinguish them from "virtual" live births  ... 
doi:10.1371/journal.pone.0166222 pmid:27824942 pmcid:PMC5100992 fatcat:6ueaqflc7vfabkhl3mov6flizm

The stochastic nature of errors in next-generation sequencing of circulating cell-free DNA

David A. Nix, Sabine Hellwig, Christopher Conley, Alun Thomas, Carrie L. Fuertes, Cindy L. Hamil, Preetida J. Bhetariya, Ignacio Garrido-Laguna, Gabor T. Marth, Mary P. Bronner, Hunter R. Underhill, Hoh Boon-Peng
2020 PLoS ONE  
Error was not associated with local GC content (S11 Fig) . CHIP-related artifacts (Fig 4c) and patterned error (Fig 4d) did not show a bias towards a particular base pair change.  ...  Read depth was greater in the singleton adapter group up to family size �3 consistent with the generation of larger family sizes by the duplex adapters (Fig 1d) .  ... 
doi:10.1371/journal.pone.0229063 pmid:32084206 fatcat:o5wokkycpfavnnzt2ocxq6xzgu

nD Object Representation and Detection from Single 2D Line Drawing [chapter]

Hongbo Li, Quan Wang, Lina Zhao, Ying Chen, Lei Huang
2005 Lecture Notes in Computer Science  
Combining the projective geometric constraints of the wireframe representation with the idea of local construction and deletion, we propose an algorithm for high dimensional object detection from single  ...  Our algorithm outperforms any other algorithm in 2D face identification in that it generally does not generate redundant cycles that are not assigned as faces, and can handle 3D solids of over 10,000 faces  ...  Within the local wireframe, we look for rD cycles corresponding to (r + 1)D faces based on topological and geometric consideration.  ... 
doi:10.1007/11499251_26 fatcat:aqbapesb5jdnpifxv264b4gkom

Evolutionary divergence of core and post-translational circadian clock genes in the pitcher-plant mosquito, Wyeomyia smithii

Duncan Tormey, John K. Colbourne, Keithanne Mockaitis, Jeong-Hyeon Choi, Jacqueline Lopez, Joshua Burkhart, William Bradshaw, Christina Holzapfel
2015 BMC Genomics  
Eukaryotic clocks consist of core transcription-translation feedback loops that generate a cycle and post-translational modifiers that maintain that cycle at about 24 h.  ...  Results: Over 1.08 million cDNA sequence reads were obtained consisting of 432.5 million nucleotides.  ...  Pink: TTFL genes, the core transcription-translation feedback loop consists of positive-acting CLK and CYC and negative-acting CRY2, PER, and TIM; their cycling is affected by "stabilizing" loops involving  ... 
doi:10.1186/s12864-015-1937-y pmid:26444857 pmcid:PMC4594641 fatcat:ok5x4a3q5vcdzccdtko6j2rjbu

SMOOTH: a statistical method for successful removal of genotyping errors from high-density genetic linkage data

Hans van Os, Piet Stam, Richard G. F. Visser, Herman J. van Eck
2005 Theoretical and Applied Genetics  
The program SMOOTH calculates the difference between the observed and predicted values of data points based on data points of neighbouring loci in a given marker order.  ...  They are useful for the localization of genes underlying quantitative traits, marker assisted breeding and map based gene cloning.  ...  In the first cycle of the iteration, a high threshold (0.99) is set and the most likely singletons are replaced by missing values. During the following cycles, the threshold is slightly decreased.  ... 
doi:10.1007/s00122-005-0124-y pmid:16258753 fatcat:rhduqqy5rbggfmjh2tfcb4hh6q

Genome-wide MIG-seq and morphometric data reveals heterospecificity of the Gnamptogenys taivanensis group (Hymenoptera: Formicidae: Ectatomminae) in the northern mountainous region of Vietnam

Dai D. Nguyen, Emiko Oguri, Aiki Yamada, Chung-Chi Lin, Chen Zhilin, Anh D. Nguyen, Yoshihisa Suyama, Katsuyuki Eguchi
2020 The Raffles bulletin of zoology  
group (six Vietnamese and one Taiwanese lineages), with four singleton colonies for which these analyses yielded inconsistent and complex pictures.  ...  remarkable diversity in the external morphology of workers, even within a single locality.  ...  The PCR thermal regime consisted of one cycle of 2 min at 94°C; five cycles of 10 s at 98°C, 30 s at 45°C, and 45 s at 68°C; 40 cycles of 10 s at 98°C, 30 s at 48.5°C, and 45 s at 68°C; and a final cycle  ... 
doi:10.26107/rbz-2020-0070 fatcat:7jscucovjbeefg3elq62sexjma

Planar Matchings for Weighted Straight Skeletons

Therese Biedl, Stefan Huber, Peter Palfrader
2016 International journal of computational geometry and applications  
Using our new framework, we establish, for the first time, a complete, rigorous definition of weighted straight skeletons, which are based on a so-called wavefront propagation process.  ...  Let a singleton-party, a pair-party, and a cycle-party be a party consisting of one, two, and at least three pseudo-lines, respectively.  ...  If is not a singleton-party, then the party-tail of consists of the sub-curve between b( ) and × π −1 ( ).  ... 
doi:10.1142/s0218195916600050 fatcat:2mi5qwks6vccxdzz3wxmsfvbfe

Planar Matchings for Weighted Straight Skeletons [chapter]

Therese Biedl, Stefan Huber, Peter Palfrader
2014 Lecture Notes in Computer Science  
Using our new framework, we establish, for the first time, a complete, rigorous definition of weighted straight skeletons, which are based on a so-called wavefront propagation process.  ...  Let a singleton-party, a pair-party, and a cycle-party be a party consisting of one, two, and at least three pseudo-lines, respectively.  ...  If is not a singleton-party, then the party-tail of consists of the sub-curve between b( ) and × π −1 ( ).  ... 
doi:10.1007/978-3-319-13075-0_10 fatcat:2nmwqmfeuveidllhothwgh4od4

A High-Level Synthesis Scheduling and Binding Heuristic for FPGA Fault Tolerance

David Wilson, Aniruddha Shastri, Greg Stitt
2017 International Journal of Reconfigurable Computing  
Notably, it is a local scheduler that makes decisions on a cycle-by-cycle basis using operation slack as a priority function.  ...  Since MR-LC tries to minimize resources in a local cycle basis, this algorithm keeps a maximum operation count that limits the number of operations that may be scheduled in a cycle.  ... 
doi:10.1155/2017/5419767 fatcat:7l6zdrusafep5imjkf2d5mhepe

ArchHDL: A Novel Hardware RTL Modeling and High-Speed Simulation Environment

Shimpei SATO, Ryohei KOBAYASHI, Kenji KISE
2018 IEICE transactions on information and systems  
ArchHDL is a new language for hardware RTL modeling based on C++.  ...  The environment consists of (1) a new hardware description language called ArchHDL, which enables to simulate hardware faster than Verilog HDL simulation, and (2) a source code translation tool from ArchHDL  ...  The core consists of a Processing Element (PE), a memory controller (MC), a local memory, and a Network Interface Controller (NIC). The PE is a 32-bit five-stage pipelined MIPS processor [9] .  ... 
doi:10.1587/transinf.2017rcp0012 fatcat:wfhhu2wfnjf7fjonq6fgd6kava

The ventriloquist effect does not depend on the direction of automatic visual attention

Jean Vroomen, Paul Bertelson, Beatrice De Gelder
2001 Perception & Psychophysics  
Results were as before, showing that the singleton attracted attention, whereas sound localization was shifted away from the singleton.  ...  A display was used that consisted of a row of four bright squares with one square, in either the left-or the rightmost position, smaller than the others, serving as the singleton.  ...  Since the task made no reference to location, there was little danger that the effect was based on a voluntary localization strategy.  ... 
doi:10.3758/bf03194427 pmid:11436735 fatcat:p7qvrkeee5c6dah5klpwhu52se

A health-economic decision-analytic model comparing double with single embryo transfer in IVF/ICSI

P. De Sutter, J. Gerris, M. Dhont
2002 Human Reproduction  
CONCLUSIONS: More ART cycles are required to obtain the same numbers of children born following SET compared with DET.  ...  Estimates were obtained from literature, national pregnancy registers and local hospital records. A sensitivity analysis was performed, using pregnancy rates from four published studies.  ...  The cost of course is a very local variable and we based our estimates on the costs from the Gent University Hospital in 2001.  ... 
doi:10.1093/humrep/17.11.2891 pmid:12407045 fatcat:d3u5l2tnpfhizpfuuibcypffoe

Association between endometrial thickness and neonatal outcomes in intrauterine insemination cycles: a retrospective analysis of 1,016 live-born singletons

Jialyu Huang, Jiaying Lin, Xuefeng Lu, Hongyuan Gao, Ning Song, Renfei Cai, Yanping Kuang
2020 Reproductive Biology and Endocrinology  
This was a retrospective cohort study of 1016 patients who had singleton livebirths after IUI treatment cycles from January 2008 to December 2018 at a tertiary-care academic medical center in China.  ...  EMT is not independently associated with adverse perinatal outcomes in IUI cycles.  ...  For the standardization of birthweight, Zscore was calculated after controlling for gestational age and infant gender, based on the general population reference values of Chinese singletons [26] .  ... 
doi:10.1186/s12958-020-00597-w pmid:32410619 fatcat:6coa6mi725e6hiolojpqsw36au
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