Proceedings Article•
The MD5 Message-Digest Algorithm
01 Apr 1992-Vol. 1321, pp 1-21
TL;DR: This document describes the MD5 message-digest algorithm, which takes as input a message of arbitrary length and produces as output a 128-bit "fingerprint" or "message digest" of the input.
Abstract: This document describes the MD5 message-digest algorithm. The
algorithm takes as input a message of arbitrary length and produces as
output a 128-bit "fingerprint" or "message digest" of the input. This
memo provides information for the Internet community. It does not
specify an Internet standard.
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01 Jul 2003
TL;DR: RTP provides end-to-end network transport functions suitable for applications transmitting real-time data over multicast or unicast network services and is augmented by a control protocol (RTCP) to allow monitoring of the data delivery in a manner scalable to large multicast networks.
Abstract: This memorandum describes RTP, the real-time transport protocol. RTP provides end-to-end network transport functions suitable for applications transmitting real-time data, such as audio, video or simulation data, over multicast or unicast network services. RTP does not address resource reservation and does not guarantee quality-of-service for real-time services. The data transport is augmented by a control protocol (RTCP) to allow monitoring of the data delivery in a manner scalable to large multicast networks, and to provide minimal control and identification functionality. RTP and RTCP are designed to be independent of the underlying transport and network layers. The protocol supports the use of RTP-level translators and mixers.
7,183 citations
Cites methods from "The MD5 Message-Digest Algorithm"
...The following subroutine generates a random 32-bit identifier using the MD5 routines published in RFC 1321 [26]....
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IBM1
TL;DR: A 2001 IBM manifesto noted the almost impossible difficulty of managing current and planned computing systems, which require integrating several heterogeneous environments into corporate-wide computing systems that extend into the Internet.
Abstract: A 2001 IBM manifesto observed that a looming software complexity crisis -caused by applications and environments that number into the tens of millions of lines of code - threatened to halt progress in computing. The manifesto noted the almost impossible difficulty of managing current and planned computing systems, which require integrating several heterogeneous environments into corporate-wide computing systems that extend into the Internet. Autonomic computing, perhaps the most attractive approach to solving this problem, creates systems that can manage themselves when given high-level objectives from administrators. Systems manage themselves according to an administrator's goals. New components integrate as effortlessly as a new cell establishes itself in the human body. These ideas are not science fiction, but elements of the grand challenge to create self-managing computing systems.
6,527 citations
Cites background from "The MD5 Message-Digest Algorithm"
...Similarly, Jackson’s problem frames are selected to match particular solutions, rather than problems per se: one fits problems to frames, rather than adjusting frames to enclose problems [43]....
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...Jackson’s Software Requirements & Specifications provides a (postmodern, poststructured) dictionary of development terminology, while Problem Frames recontextualises his earlier Structured Design and Structured Programming Methods as one technique amongst many [42, 43]....
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TL;DR: VSEARCH is here shown to be more accurate than USEARCH when performing searching, clustering, chimera detection and subsampling, while on a par with US EARCH for paired-ends read merging and dereplication.
Abstract: Background:
VSEARCH is an open source and free of charge multithreaded 64-bit tool for processing and preparing metagenomics, genomics and population genomics nucleotide sequence data. It is designed as an alternative to the widely used USEARCH tool (Edgar, 2010) for which the source code is not publicly available, algorithm details are only rudimentarily described, and only a memory-confined 32-bit version is freely available for academic use.
Methods:
When searching nucleotide sequences, VSEARCH uses a fast heuristic based on words shared by the query and target sequences in order to quickly identify similar sequences, a similar strategy is probably used in USEARCH. VSEARCH then performs optimal global sequence alignment of the query against potential target sequences, using full dynamic programming instead of the seed-and-extend heuristic used by USEARCH. Pairwise alignments are computed in parallel using vectorisation and multiple threads.
Results:
VSEARCH includes most commands for analysing nucleotide sequences available in USEARCH version 7 and several of those available in USEARCH version 8, including searching (exact or based on global alignment), clustering by similarity (using length pre-sorting, abundance pre-sorting or a user-defined order), chimera detection (reference-based or de novo), dereplication (full length or prefix), pairwise alignment, reverse complementation, sorting, and subsampling. VSEARCH also includes commands for FASTQ file processing, i.e., format detection, filtering, read quality statistics, and merging of paired reads. Furthermore, VSEARCH extends functionality with several new commands and improvements, including shuffling, rereplication, masking of low-complexity sequences with the well-known DUST algorithm, a choice among different similarity definitions, and FASTQ file format conversion. VSEARCH is here shown to be more accurate than USEARCH when performing searching, clustering, chimera detection and subsampling, while on a par with USEARCH for paired-ends read merging. VSEARCH is slower than USEARCH when performing clustering and chimera detection, but significantly faster when performing paired-end reads merging and dereplication. VSEARCH is available at https://github.com/torognes/vsearch under either the BSD 2-clause license or the GNU General Public License version 3.0.
Discussion:
VSEARCH has been shown to be a fast, accurate and full-fledged alternative to USEARCH. A free and open-source versatile tool for sequence analysis is now available to the metagenomics community.
5,850 citations
Cites background from "The MD5 Message-Digest Algorithm"
...VSEARCH includes public domain code for the MD5 algorithm written by Alexander Peslyak, and for SHA1 by Steve Reid and others....
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...VSEARCH exclusively also offers the possibility of relabelling each sequence with the SHA-1 (Eastlake & Jones, 2001) or MD5 (Rivest, 1992) message digest (hash) of the sequence....
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IBM1
TL;DR: It is argued that the random oracles model—where all parties have access to a public random oracle—provides a bridge between cryptographic theory and cryptographic practice, and yields protocols much more efficient than standard ones while retaining many of the advantages of provable security.
Abstract: We argue that the random oracle model—where all parties have access to a public random oracle—provides a bridge between cryptographic theory and cryptographic practice. In the paradigm we suggest, a practical protocol P is produced by first devising and proving correct a protocol PR for the random oracle model, and then replacing oracle accesses by the computation of an “appropriately chosen” function h. This paradigm yields protocols much more efficient than standard ones while retaining many of the advantages of provable security. We illustrate these gains for problems including encryption, signatures, and zero-knowledge proofs.
5,313 citations
24 Jan 2005
TL;DR: It is shown that such an approach can yield an implementation of the discrete Fourier transform that is competitive with hand-optimized libraries, and the software structure that makes the current FFTW3 version flexible and adaptive is described.
Abstract: FFTW is an implementation of the discrete Fourier transform (DFT) that adapts to the hardware in order to maximize performance. This paper shows that such an approach can yield an implementation that is competitive with hand-optimized libraries, and describes the software structure that makes our current FFTW3 version flexible and adaptive. We further discuss a new algorithm for real-data DFTs of prime size, a new way of implementing DFTs by means of machine-specific single-instruction, multiple-data (SIMD) instructions, and how a special-purpose compiler can derive optimized implementations of the discrete cosine and sine transforms automatically from a DFT algorithm.
5,172 citations
Cites methods from "The MD5 Message-Digest Algorithm"
...For hashing, we use the cryptographically strong MD5 algorithm [41]....
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