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Fast and accurate short read alignment with Burrows-Wheeler transform

by Heng Li, Richard Durbin - BIOINFORMATICS, 2009, ADVANCE ACCESS , 2009
"... Motivation: The enormous amount of short reads generated by the new DNA sequencing technologies call for the development of fast and accurate read alignment programs. A first generation of hashtable based methods has been developed, including MAQ, which is accurate, feature rich and fast enough to a ..."
Abstract - Cited by 2096 (24 self) - Add to MetaCart
to align short reads from a single individual. However, MAQ does not support gapped alignment for single-end reads, which makes it unsuitable for alignment of longer reads where indels may occur frequently. The speed of MAQ is also a concern when the alignment is scaled up to the resequencing of hundreds

Eye movements in reading and information processing: 20 years of research

by Keith Rayner - Psychological Bulletin , 1998
"... Recent studies of eye movements in reading and other information processing tasks, such as music reading, typing, visual search, and scene perception, are reviewed. The major emphasis of the review is on reading as a specific example of cognitive processing. Basic topics discussed with respect to re ..."
Abstract - Cited by 917 (28 self) - Add to MetaCart
to reading are (a) the characteristics of eye movements, (b) the perceptual span, (c) integration of information across saccades, (d) eye movement control, and (e) individual differences (including dyslexia). Similar topics are discussed with respect to the other tasks examined. The basic theme of the review

Alternative isoform regulation in human tissue transcriptomes

by Eric T. Wang, Rickard S, Shujun Luo, Irina Khrebtukova, Lu Zhang, Christine Mayr, Stephen F. Kingsmore, Gary P. Schroth, Christopher B. Burge - Nature , 2008
"... Through alternative processing of pre-mRNAs, individual mammalian genes often produce multiple mRNA and protein isoforms that may have related, distinct or even opposing functions. Here we report an in-depth analysis of 15 diverse human tissue and cell line transcriptomes based on deep sequencing of ..."
Abstract - Cited by 545 (6 self) - Add to MetaCart
-specific read densities indicated that a majority of AS and of alternative cleavage and polyadenylation (APA) events vary between tissues, while variation between individuals was ∼2- to 3-fold less common. Extreme or ‘switch-like ’ regulation of splicing between tissues was associated with increased sequence

Unrealistic optimism about future life events.

by Neil D Weinstein - Journal of Personality and Social Psychology, , 1980
"... Two studies investigated the tendency of people to be unrealistically optimistic about future life events. In Study 1, 258 college students estimated how much their own chances of experiencing 42 events differed from the chances of their classmates. Overall, they rated their own chances to be above ..."
Abstract - Cited by 535 (0 self) - Add to MetaCart
outcomes and fail to realize that others may have just as many factors in their favor. Students listed the factors that they thought influenced their own chances of experiencing eight future events. When such lists were read by a second group of students, the amount of unrealistic optimism shown

The faculty of language: what is it, who has it, and how did it evolve?

by Marc D Hauser , Noam Chomsky , W Tecumseh Fitch - Science, , 2002
"... We argue that an understanding of the faculty of language requires substantial interdisciplinary cooperation. We suggest how current developments in linguistics can be profitably wedded to work in evolutionary biology, anthropology, psychology, and neuroscience. We submit that a distinction should ..."
Abstract - Cited by 472 (7 self) - Add to MetaCart
conserved developmental systems that read an (almost) universal language encoded in DNA base pairs. As such, life is arranged hierarchically with a foundation of discrete, unblendable units (codons, and, for the most part, genes) capable of combining to create increasingly complex and virtually limitless

The Impact of Individual Teachers on Student Achievement: Evidence From Panel Data

by Jonah E. Rockoff, Christopher Jencks, Adam Looney , 2003
"... Teacher quality is widely believed to be important for education, despite little ev-idence that teachers ’ credentials matter for student achievement. To accurately measure variation in achievement due to teachers ’ characteristics–both observ-able and unobservable–it is essential to identify teache ..."
Abstract - Cited by 428 (23 self) - Add to MetaCart
quality raises reading and math test scores by approximately.20 and.24 standard deviations, respectively, on a nationally standardized scale. In addition, teaching experience has statistically significant positive effects on reading test scores, controlling for fixed teacher quality.

Purify: Fast detection of memory leaks and access errors

by Reed Hastings, Bob Joyce - In Proc. of the Winter 1992 USENIX Conference , 1991
"... This paper describes Purifyru, a software testing and quality assurance Ool that detects memory leaks and access erors. Purify inserts additional checking instructions directly into the object code produced by existing compilers. These instructions check every memory read and write performed by the ..."
Abstract - Cited by 354 (0 self) - Add to MetaCart
This paper describes Purifyru, a software testing and quality assurance Ool that detects memory leaks and access erors. Purify inserts additional checking instructions directly into the object code produced by existing compilers. These instructions check every memory read and write performed

A Trace-Driven Analysis of the UNIX 4.2 BSD File System

by John Ousterhout, Herve Da Costa, David Harrison, John A. Kunze, Mike Kupfer, James G. Thompson , 1985
"... We analyzed the UNIX 4.2 BSD file system by recording userlevel activity in trace files and writing programs to analyze the traces. The tracer did not record individual read and write operations, yet still provided tight bounds on what information was accessed and when. The trace analysis shows that ..."
Abstract - Cited by 277 (5 self) - Add to MetaCart
We analyzed the UNIX 4.2 BSD file system by recording userlevel activity in trace files and writing programs to analyze the traces. The tracer did not record individual read and write operations, yet still provided tight bounds on what information was accessed and when. The trace analysis shows

Toward a model of eye movement control in reading

by Erik D. Reichle, Alexander Pollatsek, Donald L. Fisher, Keith Rayner - PSYCHOLOGICAL REVIEW , 1998
"... The authors present several versions of a general model, titled the E-Z Reader model, of eye movement control in reading. The major goal of the modeling is to relate cognitive processing (specifically aspects of lexical access) to eye movements in reading. The earliest and simplest versions of the m ..."
Abstract - Cited by 210 (23 self) - Add to MetaCart
of fixations on individual words. The final version (E-Z Reader 5) appears to be psychologically plausible and gives a good account of many phenomena in reading. It is also a good tool for analyzing eye movement data in reading. Limitations of the model and directions for future research are also discussed.

Plutus: Scalable secure file sharing on untrusted storage

by Mahesh Kallahalla, Erik Riedel, Ram Swaminathan, Qian Wang, Kevin Fu , 2003
"... Plutus is a cryptographic storage system that enables secure file sharing without placing much trust on the file servers. In particular, it makes novel use of cryptographic primitives to protect and share files. Plutus features highly scalable key management while allowing individual users to retain ..."
Abstract - Cited by 229 (2 self) - Add to MetaCart
Plutus is a cryptographic storage system that enables secure file sharing without placing much trust on the file servers. In particular, it makes novel use of cryptographic primitives to protect and share files. Plutus features highly scalable key management while allowing individual users
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