Relevant bibliographies by topics / Sequencer

Academic literature on the topic 'Sequencer'

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Published: 4 June 2021
Last updated: 9 February 2022

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Journal articles on the topic "Sequencer"

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McKay, D. J., B. S. Renaux, and G. H. Dixon. "The amino acid sequence of human sperm protamine P1." Bioscience Reports 5, no. 5 (May 1, 1985): 383–91. http://dx.doi.org/10.1007/bf01116555.

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Human sperm protamines have been extracted from spermatozoa pooled from several donors, converted to their S-pyridylethylated derivatives and resolved into two major components, P1 and PI, by Bio-Rex 70 chromatography. Protamine P1 was further purified by Bio-Gel P-10 chromatography and sequenced directly on a gas phase protein sequencer for 43 residues. To complete the sequence, P1 was cleaved at methionine 36 and the C-terminal tetradecapeptide was purified by h.p.i.c, and sequenced completely. The 50 residue sequence is: 10 20 30 40 ARYRC CRSQS RSRYY RQRQR SRRRR RRSCQ TRRRA MRCCR 50 PRYRP RCRRH. This sequence has a calculated molecular weight of 6674 and is homologous with four other published mammalian protamine sequences.
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Xu, Liu, and Masahide Seki. "Recent advances in the detection of base modifications using the Nanopore sequencer." Journal of Human Genetics 65, no. 1 (October 11, 2019): 25–33. http://dx.doi.org/10.1038/s10038-019-0679-0.

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Abstract DNA and RNA modifications have important functions, including the regulation of gene expression. Existing methods based on short-read sequencing for the detection of modifications show difficulty in determining the modification patterns of single chromosomes or an entire transcript sequence. Furthermore, the kinds of modifications for which detection methods are available are very limited. The Nanopore sequencer is a single-molecule, long-read sequencer that can directly sequence RNA as well as DNA. Moreover, the Nanopore sequencer detects modifications on long DNA and RNA molecules. In this review, we mainly focus on base modification detection in the DNA and RNA of mammals using the Nanopore sequencer. We summarize current studies of modifications using the Nanopore sequencer, detection tools using statistical tests or machine learning, and applications of this technology, such as analyses of open chromatin, DNA replication, and RNA metabolism.
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URANO, Gen, and Masanori KUNITA. "DNA Sequencer." Japanese Journal of Thrombosis and Hemostasis 1, no. 4 (1990): 357–61. http://dx.doi.org/10.2491/jjsth.1.357.

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Gabriel, Christian, Martin Danzer, Christa Hackl, Guido Kopal, Katja Hofer, Stephanie Stabentheiner, and Johannes Pröll. "215-P: Genome sequencer sequence-based HLA typing." Human Immunology 70 (November 2009): S120. http://dx.doi.org/10.1016/j.humimm.2009.09.248.

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Walker, J. E., I. M. Fearnley, and R. A. Blows. "A rapid solid-phase protein microsequencer." Biochemical Journal 237, no. 1 (July 1, 1986): 73–84. http://dx.doi.org/10.1042/bj2370073.

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A solid-phase protein microsequencer is described that has been designed to determine protein sequences with subnanomolar quantities of protein. Its utility has been demonstrated by the determination of many sequences in subunits of mitochondrial F1-ATPase, in a protein isolated from mouse gap junctions and in the mitochondrial phosphate-transporter protein. It has a number of advantages over liquid- and gas-phase sequencers. Firstly, the degradation cycle takes 24 min, more than twice as fast as any other sequencer. This helps to reduce exposure of proteins to inimical reagents and increases throughput of samples. Secondly, polar amino acids such as phosphoserine, and polar derivatives formed by active-site photoaffinity labelling with 8-azido-ATP, are recovered quantitatively from the reaction column and can be positively identified. In other types of sequencer these polar derivatives, being somewhat insoluble in butyl chloride, tend to remain in the reaction chamber of the instrument and so are more difficult to identify. The solid-phase protein sequencer is also more suited than the liquid-phase instrument for analysis of proteolipids from membranes. These hydrophobic proteins tend to dissolve in organic solvents during washing steps in the liquid-phase instrument and are lost. Covalent attachment as used in the solid-phase instrument solves this problem.
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HIRANO, Hisashi. "Amino Acid Sequence Analysis by Gas-Phase Protein Sequencer." Journal of Japan Oil Chemists' Society 38, no. 10 (1989): 791–99. http://dx.doi.org/10.5650/jos1956.38.791.

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Bell, Steven. "The ‘logic’ sequencer." Electronics Education 1990, no. 2 (1990): 16–17. http://dx.doi.org/10.1049/ee.1990.0024.

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Md Isa, Mohd Nazrin, Sohiful Anuar Zainol Murad, Mohamad Imran Ahmad, Muhammad M. Ramli, and Rizalafande Che Ismail. "An Efficient Scheduling Technique for Biological Sequence Alignment." Applied Mechanics and Materials 754-755 (April 2015): 1087–92. http://dx.doi.org/10.4028/www.scientific.net/amm.754-755.1087.

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Computing alignment matrix score to search for regions of homology between biological sequences is time consuming task. This is due to the recursive nature of the dynamic programming-based algorithms such as the Smith-Waterman and the Needleman-Wunsch algorithmns. Typical FPGA-based protein sequencer comprises of two main logic blocks. One for computing alignment scores i.e. the processing element (PE), while another logic block for configuring the PE with coefficients. During alignment matrix computation, the logic block for configuring the PE are left unused until the time consuming alignment matrix computation finished. Therefore, a new technique, known as overlap computation and configuration (OCC) is proposed to minimize the time overhead for performing biological sequence alignment. The OCC technique simultaneously updating substitution matrix in a processing element (PE) systolic array, while computing alignment matrix scores. Results showed that, the sequencer achieves more than two order of magnitude speed-up higher compared to the state of the art, at negligible area overhead, if any.
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Poole, Anthony M., Daniel B. Stouffer, and Jason M. Tylianakis. "‘Ecosystomics’: ecology by sequencer." Trends in Ecology & Evolution 27, no. 6 (June 2012): 309–10. http://dx.doi.org/10.1016/j.tree.2012.03.008.

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Dovichi, N. "Development of DNA Sequencer." Science 285, no. 5430 (August 13, 1999): 1013h—1013. http://dx.doi.org/10.1126/science.285.5430.1013h.

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Dissertations / Theses on the topic "Sequencer"

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Persson, Daniel. "Sequi : Tredimensionell sequencer." Thesis, Konstfack, Grafisk Design & Illustration, 2014. http://urn.kb.se/resolve?urn=urn:nbn:se:konstfack:diva-4707.

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Music production software has a strong tradition of two-dimensional graphical user interface (GUI), in which the time line is represented as a flat composition either horizontally (from left to right) or vertically (from top to bottom). In my degree work titled Sequi, I approach music composition from a different angle. Instead of a two-dimensional time line with only two possibly ways of progression (forward or backward) I constructed a three-dimensional GUI with the maximum of four different ways of progression from any given point in a composition. The height axis is used to describe time-intervals (the time between downbeats) and the wide and depth axes are used to describe progression from one sound to another.
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Ait-Ghezala, Ahmed 1976. "Software systems for a DNA sequencer." Thesis, Massachusetts Institute of Technology, 2000. http://hdl.handle.net/1721.1/8931.

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Thesis (M.Eng. and S.B.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2000.
Includes bibliographical references (leaf 49).
The initiative to complete the sequencing of the human genome is bringing the need for high-throughput sequencing capabilities to the forefront. We at the BioMEMS engineering group at the Whitehead Institute are designing and building a new sequencing machine that uses a 384 glass "chip" to dramatically increase sequencing rates. This thesis describes the design and implementation of two of the machine's software components. The first is a prototype application for the control of a robot used to automate sample loading. The second is a software filter that allows us to generate quality scores from data processed by Trout using Phred. I present the algorithm used to perform the filtering and show that the results are comparable to the processing of data with the Plan- Phred processing package.
by Ahmed Ait-Ghezala.
M.Eng.and S.B.
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Crabtree, H. John. "Development of a high throughput, multicapillary DNA sequencer." Thesis, National Library of Canada = Bibliothèque nationale du Canada, 1997. http://www.collectionscanada.ca/obj/s4/f2/dsk3/ftp04/nq21562.pdf.

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Phạm, Paul Tân Thế. "A general-purpose pulse sequencer for quantum computing." Thesis, Massachusetts Institute of Technology, 2005. http://hdl.handle.net/1721.1/32106.

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Thesis (M. Eng.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2005.
This electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections.
Includes bibliographical references (p. 165-170).
Quantum mechanics presents a more general and potentially more powerful model of computation than classical systems. Quantum bits have many physically different representations which nonetheless share a common need for modulating pulses of electromagnetic waves. This thesis presents the design and evaluates the implementation of a general-purpose sequencer which supports fast, programmable pulses; a flexible, open design; and feedback operation for adaptive algorithms. The sequencer achieves a timing resolution, minimum pulse duration, and minimum delay of 10 nanoseconds; it has 64 simultaneously-switching, independent digital outputs and 8 digital inputs for triggering or feedback. Multiple devices can operate in a daisy chain to facilitate adding and removing channels. An FPGA is used to implement a firmware network stack and a specialized pulse processor core whose modules are all interconnected using the Wishbone bus standard. Users can write pulse programs in an assembly language and control the device from a host computer over an Ethernet network. An embedded web server provides an intuitive, graphical user interface, while a non-interactive, efficient UDP protocol provides programmatic access to third-party software. The performance characteristics, tolerances, and cost of the device are measured and compared with those of contemporary research and commercial offerings. Future improvements and extensions are suggested. All circuit schematics, PCB layouts, source code, and design documents are released under an open source license.
by Paul Tân Thế Phạm.
M.Eng.
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Bay, Sue J. "The construction and evaluation of a multiple capillary DNA sequencer." Thesis, National Library of Canada = Bibliothèque nationale du Canada, 1998. http://www.collectionscanada.ca/obj/s4/f2/dsk2/ftp03/NQ34733.pdf.

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Zhu, Zhineng. "Low Noise Offset Operational Amplifier for Nanopore-based Gene Sequencer." Fogler Library, University of Maine, 2007. http://www.library.umaine.edu/theses/pdf/ZhuZ2007.pdf.

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Bowler, I. "Digital techniques in the storage and processing of audio waveforms for music synthesis." Thesis, Bucks New University, 1986. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.373583.

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Brandt, Jason J. "Fault-tolerant sequencer using FPGA-based logic designs for space applications." Thesis, Monterey, California: Naval Postgraduate School, 2013. http://hdl.handle.net/10945/38884.

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Approved for public release; distribution is unlimited.
The design of a device that controls the sequence and timing of deployment of CubeSats on the Naval Postgraduate Schools CubeSat Launcher (NPSCuL) is detailed in this thesis. This design is intended to be implemented on a field-programmable gate array (FPGA) installed into the NPSCuL. This configuration allows flexibility in reprogramming the launch sequence and adding additional functionality in future designs. Operating an FPGA on orbit presents unique challenges due to the radiation environment. Radiation from space cannot be shielded efficiently, so devices must be tolerant of the expected effects. The most common effect, the single-event upset can have detrimental effects on operating electronics, causing undesired changes to data. To combat this problem, fault tolerant techniques, such as triple-modular redundancy (TMR) are explored. In these methods, multiple redundant copies of the design are operated simultaneously, and the outputs are voted on by special circuits to eliminate errors. Comparisons between manual and software generated TMR methods are tested, and the design is implemented on test hardware for further verification. Finally, future research and testing is discussed to continue to ready the design for employment of the sequencer on an actual space mission.
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Tumati, Raghu. "Solid-State Nanopore Characterization and Low noise Transimpedance Amplifier for Nanopore-Based Gene Sequencer." Fogler Library, University of Maine, 2008. http://www.library.umaine.edu/theses/pdf/TumatiR2008.pdf.

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Goff, Jordan K. "Adaptation of a fault–tolerant FPGA–based launch sequencer as a CubeSat payload processor." Thesis, Monterey, California: Naval Postgraduate School, 2014. http://hdl.handle.net/10945/42634.

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The purpose of this thesis is to design and test a fault–tolerant reduced instruction set computer processor running a subset of the multiprocessor without interlocked pipelined stages instruction set. This processor is implemented on a field programmable gate array (FPGA) and will be used as the foundation for a payload processor on a cube satellite developed at the Naval Postgraduate School. This thesis begins by considering the radiation effects present in the space environment and the various fault– tolerant designs used to guard against specific types of particle events. The internal triple modular redundancy method is selected and implemented at each pipeline stage of the processor. Next, a target FPGA is selected based on the performance requirements of the processor. The Virtex–5 (registered trademark of Xilinx, Inc.) is selected over the ProASIC3 (registered trademark of Microsemi, Inc.) due to its enhanced capabilities and potential to support expansion for future applications. The hardware design is presented as a hybrid Verilog and schematic based design. The system consists of the processor and a universal asynchronous receiver/transmitter that reads and writes data received from a generic serial interface. The device is simulated to ensure proper logic functionality. Conclusions and future work are discussed.
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Books on the topic "Sequencer"

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Knox, Nigel Philip. A MIDI sequencer for live performances. Manchester: University of Manchester, Department of Computer Science, 1995.

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McCartney, Timothy P. A test matrix sequencer for research test facility automation. [Washington, D.C.]: NASA, 1990.

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Robby, Berman, ed. All about-- electronic percussion. Milwaukee, WI: Hal Leonard, 2006.

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Emile, Menasché, ed. What's a sequencer?: A basic guide to their features and use. 2nd ed. Milwaukee: Hal Leonard, 2001.

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What's a sequencer?: A basic guide to their features and use. Milwaukee, WI, U.S.A: H. Leonard Pub. Corp., 1990.

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Edstrom, Brent. Making music with your computer. 2nd ed. Vallejo, CA: EMBooks, 2001.

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Edstrom, Brent. Making music with your computer. 2nd ed. Vallejo, CA: EMBooks, 2001.

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Walker, Dan. Roland D-20: Sequencing & recording handbook. Newbury Park, CA: P.L. Alexander Pub., 1989.

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Modern MIDI: Sequencing and performing using traditional and mobile tools. Burlington, MA: Focal Press, 2014.

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Pejrolo, Andrea. Creative sequencing techniques for music production pro tools and logic pro: A practical guide for digital performer, cubase sx. Boston, MA: Elsevier, 2005.

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Book chapters on the topic "Sequencer"

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Florentin, J. S. "The Sequencer." In Microprogrammed Systems Design, 105–69. London: Macmillan Education UK, 1991. http://dx.doi.org/10.1007/978-1-349-21622-2_4.

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Baldoni, Roberto, Carlo Marchetti, and Sara Tucci Piergiovanni. "Fault-Tolerant Sequencer." In Concurrency in Dependable Computing, 149–67. Boston, MA: Springer US, 2002. http://dx.doi.org/10.1007/978-1-4757-3573-4_8.

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Zbierski, Maciej. "Iwazaru: The Byzantine Sequencer." In Architecture of Computing Systems – ARCS 2013, 38–49. Berlin, Heidelberg: Springer Berlin Heidelberg, 2013. http://dx.doi.org/10.1007/978-3-642-36424-2_4.

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Ehrlich, Daniel, Aram Adourian, Charles Barr, David Breslau, Scott Buonocore, Robert Burger, Loucinda Carey, et al. "BIOMEMS-768 DNA Sequencer." In Micro Total Analysis Systems 2001, 16–18. Dordrecht: Springer Netherlands, 2001. http://dx.doi.org/10.1007/978-94-010-1015-3_6.

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Fischer, Stefan, Frank Reimann, and Brigitte Wittmann-Liebold. "A New Modular Sequencer." In Methods in Protein Sequence Analysis, 98–107. Berlin, Heidelberg: Springer Berlin Heidelberg, 1989. http://dx.doi.org/10.1007/978-3-642-73834-0_12.

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Rahalkar, Sagar. "Repeater, Comparer, Decoder, and Sequencer." In A Complete Guide to Burp Suite, 79–93. Berkeley, CA: Apress, 2020. http://dx.doi.org/10.1007/978-1-4842-6402-7_6.

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Wilcher, Donald. "An Interactive Light Sequencer Device." In Learn Electronics with Arduino, 51–67. Berkeley, CA: Apress, 2012. http://dx.doi.org/10.1007/978-1-4302-4267-3_3.

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Dunbar, Bryan. "Protein Sequencer Maintenance and Troubleshooting." In Protein Sequencing Protocols, 269–86. Totowa, NJ: Humana Press, 2003. http://dx.doi.org/10.1385/1-59259-342-9:269.

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Hunkapiller, Michael W., Kristina Granlund-Moyer, and Norman W. Whiteley. "Gas-Phase Protein/Peptide Sequencer." In Methods of Protein Microcharacterization, 223–47. Totowa, NJ: Humana Press, 1986. http://dx.doi.org/10.1007/978-1-59259-436-8_8.

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Wittmann-Liebold, Brigitte. "Design of a Multipurpose Sequencer." In Methods of Protein Microcharacterization, 249–77. Totowa, NJ: Humana Press, 1986. http://dx.doi.org/10.1007/978-1-59259-436-8_9.

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Conference papers on the topic "Sequencer"

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Wang, Perry H., Jamison D. Collins, Gautham N. Chinya, Bernard Lint, Asit Mallick, Koichi Yamada, and Hong Wang. "Sequencer virtualization." In the 21st annual international conference. New York, New York, USA: ACM Press, 2007. http://dx.doi.org/10.1145/1274971.1274993.

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Quessy, Alexandre. "Human sequencer." In the 7th international conference. New York, New York, USA: ACM Press, 2007. http://dx.doi.org/10.1145/1279740.1279857.

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Bonfield, J. "From the DNA sequencer to a sequence assembly." In IET Seminar on Signal Processing for Genomics. IEE, 2006. http://dx.doi.org/10.1049/ic:20060371.

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Sreetharan, M., and F. Langenbacher. "Implementation Approaches to Sequencing in Microprocessor-Based Controllers." In ASME 1985 International Gas Turbine Conference and Exhibit. American Society of Mechanical Engineers, 1985. http://dx.doi.org/10.1115/85-gt-104.

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Traditional relay-based sequencing is increasingly being replaced by microprocessor-based programmable sequence controllers. Microprocessor-based sequencers are flexible, easy to use and eliminate the expensive reworking of hardwired logic each time a sequencing scheme is revised. However, the logical (bit-oriented) nature of the computations involved in implementing sequencing systems offer considerable challenge to the designers of microprocessor-based (byte/word oriented) sequencers to provide novel software and/or hardware architectures that are cost effective to implement and meet the speed requirements. This paper examines several possible implementation techniques of automatic digital sequencers. In particular, it describes the requirements and the design concepts that formed the basis of the sequencer implemented as part of a multi-processor based full authority controller at the authors’ company, that is capable of controlling a range of turbines in various applications. A comparative study of the performances of several existing sequencing systems is also presented.
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Mendoza, Edgar. "Electrophoretic Plasmonic Nanopore Biochip Genome Sequencer." In Latin America Optics and Photonics Conference. Washington, D.C.: OSA, 2016. http://dx.doi.org/10.1364/laop.2016.lw2d.1.

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Lursinsap, C., and P. Watanapongse. "Study on effect of deterministic learning sequencer." In Proceedings of 1994 IEEE International Conference on Neural Networks (ICNN'94). IEEE, 1994. http://dx.doi.org/10.1109/icnn.1994.374175.

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French, Marcus J., Nicholas R. Waltham, G. M. Newton, and Richard Wade. "Single-chip CCD waveform generator and sequencer." In Astronomical Telescopes & Instrumentation, edited by Sandro D'Odorico. SPIE, 1998. http://dx.doi.org/10.1117/12.316835.

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Kackley, Russell D., Nicholas P. Rees, Craig Walther, and Tim Jenness. "The JCMT observing queue and recipe sequencer." In SPIE Astronomical Telescopes + Instrumentation. SPIE, 2004. http://dx.doi.org/10.1117/12.550646.

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Carr, C. E., M. T. Zuber, and G. Ruvkun. "Life detection with the Enceladus Orbiting Sequencer." In 2013 IEEE Aerospace Conference. IEEE, 2013. http://dx.doi.org/10.1109/aero.2013.6497129.

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Nordman, Eric S., and Charles R. Connell. "New optical design for automated DNA sequencer." In Photonics West '96, edited by Gerald E. Cohn, Steven A. Soper, and C. H. Winston Chen. SPIE, 1996. http://dx.doi.org/10.1117/12.237617.

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Reports on the topic "Sequencer"

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Utes, M. SVX Sequencer Board. Office of Scientific and Technical Information (OSTI), November 1997. http://dx.doi.org/10.2172/1032120.

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Utes, M. D0 Silicon Strip Detector Upgrade Project SVX Sequencer Controller Board. Office of Scientific and Technical Information (OSTI), May 2001. http://dx.doi.org/10.2172/1033674.

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Li, Qingbo, and T. Kane. A fully automated 384 capillary array for DNA sequencer. Final report. Office of Scientific and Technical Information (OSTI), March 2003. http://dx.doi.org/10.2172/819022.

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Kultys, Marek, James King, and Lydia Nicholas. Sequence Bundles. Science Practice, October 2013. http://dx.doi.org/10.14435/sequence-bundles-biovis.

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Gillies, S. GeoJSON Text Sequences. RFC Editor, April 2017. http://dx.doi.org/10.17487/rfc8142.

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Kuipers, Jack. Quaternions and Rotation Sequences. GIQ, 2012. http://dx.doi.org/10.7546/giq-1-2000-127-143.

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Stearns, S. D. Authentication of byte sequences. Office of Scientific and Technical Information (OSTI), June 1991. http://dx.doi.org/10.2172/5217104.

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Mielke, Charles H., Alan M. Novak, Dwight G. Rickel, and Kimberly P. Schneider. Single Turn Shot Sequence. Office of Scientific and Technical Information (OSTI), February 2014. http://dx.doi.org/10.2172/1122057.

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Foley, Brian Thomas, Thomas Kenneth Leitner, Cristian Apetrei, Beatrice Hahn, Ilene Mizrachi, James Mullins, Andrew Rambaut, Steven Wolinsky, and Bette Tina Marie Korber. HIV Sequence Compendium 2015. Office of Scientific and Technical Information (OSTI), October 2015. http://dx.doi.org/10.2172/1222684.

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Kuiken, Carla, Brian Foley, Thomas Leitner, Christian Apetrei, Beatrice Hahn, Ilene Mizrachi, James Mullins, Andrew Rambaut, Steven Wolinsky, and Bette Korber. HIV Sequence Compendium 2010. Office of Scientific and Technical Information (OSTI), December 2010. http://dx.doi.org/10.2172/1223877.

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