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Basecalling of automated sequencer traces using phred. I. Accuracy Assessment
 GENOME RES
, 1998
"... The availability of massive amounts of DNA sequence information has begun to revolutionize the practice of biology. As a result, current largescale sequencing output, while impressive, is not adequate to keep pace with growing demand and, in particular, is far short of what will be required to obta ..."
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Cited by 1602 (4 self)
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The availability of massive amounts of DNA sequence information has begun to revolutionize the practice of biology. As a result, current largescale sequencing output, while impressive, is not adequate to keep pace with growing demand and, in particular, is far short of what will be required to obtain the 3billionbase human genome sequence by the target date of 2005. To reach this goal, improved automation will be essential, and it is particularly important that human involvement in sequence data processing be significantly reduced or eliminated. Progress in this respect will require both improved accuracy of the data processing software and reliable accuracy measures to reduce the need for human involvement in error correction and make human review more efficient. Here, we describe one step toward that goal: a basecalling program for automated sequencer traces, phred, with improved accuracy. phred appears to be the first basecalling program to achieve a lower error rate than the ABI software, averaging 40%–50 % fewer errors in the data sets examined independent of position in read, machine running conditions, or sequencing chemistry.
A Critical Point For Random Graphs With A Given Degree Sequence
, 2000
"... Given a sequence of nonnegative real numbers 0 ; 1 ; : : : which sum to 1, we consider random graphs having approximately i n vertices of degree i. Essentially, we show that if P i(i \Gamma 2) i ? 0 then such graphs almost surely have a giant component, while if P i(i \Gamma 2) i ! 0 the ..."
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Cited by 511 (8 self)
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Given a sequence of nonnegative real numbers 0 ; 1 ; : : : which sum to 1, we consider random graphs having approximately i n vertices of degree i. Essentially, we show that if P i(i \Gamma 2) i ? 0 then such graphs almost surely have a giant component, while if P i(i \Gamma 2) i ! 0
The Science of Monetary Policy: A New Keynesian Perspective
 Journal of Economic Literature
, 1999
"... “Having looked at monetary policy from both sides now, I can testify that central banking in practice is as much art as science. Nonetheless, while practicing this dark art, I have always found the science quEite useful.” 2 Alan S. Blinder ..."
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Cited by 1809 (45 self)
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“Having looked at monetary policy from both sides now, I can testify that central banking in practice is as much art as science. Nonetheless, while practicing this dark art, I have always found the science quEite useful.” 2 Alan S. Blinder
The sources and consequences of embeddedness for the economic performance of organizations: The network effect
 American Sociological Review
, 1996
"... In this paper, I attempt to advance the concept of embeddedness beyond the level of a programmatic statement by developing a formulation that specifies how embeddedness and network structure affect economic action. On the basis of existing theory and original ethnographies of 23 apparel firms, I dev ..."
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Cited by 709 (8 self)
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In this paper, I attempt to advance the concept of embeddedness beyond the level of a programmatic statement by developing a formulation that specifies how embeddedness and network structure affect economic action. On the basis of existing theory and original ethnographies of 23 apparel firms, I
LSQR: An Algorithm for Sparse Linear Equations and Sparse Least Squares
 ACM Trans. Math. Software
, 1982
"... An iterative method is given for solving Ax ~ffi b and minU Ax b 112, where the matrix A is large and sparse. The method is based on the bidiagonalization procedure of Golub and Kahan. It is analytically equivalent to the standard method of conjugate gradients, but possesses more favorable numerica ..."
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Cited by 649 (21 self)
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numerical properties. Reliable stopping criteria are derived, along with estimates of standard errors for x and the condition number of A. These are used in the FORTRAN implementation of the method, subroutine LSQR. Numerical tests are described comparing I~QR with several other conjugate
The Omega Test: a fast and practical integer programming algorithm for dependence analysis
 Communications of the ACM
, 1992
"... The Omega testi s ani nteger programmi ng algori thm that can determi ne whether a dependence exi sts between two array references, and i so, under what condi7: ns. Conventi nalwi[A m holds thati nteger programmiB techni:36 are far too expensi e to be used for dependence analysi6 except as a method ..."
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Cited by 521 (15 self)
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The Omega testi s ani nteger programmi ng algori thm that can determi ne whether a dependence exi sts between two array references, and i so, under what condi7: ns. Conventi nalwi[A m holds thati nteger programmiB techni:36 are far too expensi e to be used for dependence analysi6 except as a method
Monotone Complexity
, 1990
"... We give a general complexity classification scheme for monotone computation, including monotone spacebounded and Turing machine models not previously considered. We propose monotone complexity classes including mAC i , mNC i , mLOGCFL, mBWBP , mL, mNL, mP , mBPP and mNP . We define a simple ..."
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Cited by 2837 (11 self)
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We give a general complexity classification scheme for monotone computation, including monotone spacebounded and Turing machine models not previously considered. We propose monotone complexity classes including mAC i , mNC i , mLOGCFL, mBWBP , mL, mNL, mP , mBPP and mNP . We define a
Gravity with Gravitas: a Solution to the Border Puzzle
, 2001
"... Gravity equations have been widely used to infer trade ow effects of various institutional arrangements. We show that estimated gravity equations do not have a theoretical foundation. This implies both that estimation suffers from omitted variables bias and that comparative statics analysis is unfo ..."
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Cited by 610 (3 self)
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is unfounded. We develop a method that (i) consistently and ef ciently estimates a theoretical gravity equation and (ii) correctly calculates the comparative statics of trade frictions. We apply the method to solve the famous McCallum border puzzle. Applying our method, we nd that national borders reduce
AgentSpeak(L): BDI Agents speak out in a logical computable language
, 1996
"... BeliefDesireIntention (BDI) agents have been investigated by many researchers from both a theoretical specification perspective and a practical design perspective. However, there still remains a large gap between theory and practice. The main reason for this has been the complexity of theoremprov ..."
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Cited by 509 (2 self)
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theoretic semantics of a language AgentSpeak(L). This language can be viewed as an abstraction of one of the implemented BDI systems (i.e., PRS) and allows agent programs to be written and interpreted in a manner similar to that of hornclause logic programs. We show how to perform derivations in this logic using a
Emerging adulthood: A theory of development from the late teens through the twenties
 American Psychologist
, 2000
"... Emerging adulthood is proposed as a new conception of development for the period from the late teens through the twenties, with a focus on ages 1825. A theoretical background is presented, Then evidence is provided to support the idea that emerging adulthood is a distinct period demographically, ..."
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Cited by 616 (8 self)
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prolonged period of independent role. exploration during the late teens and twenties. When our mothers were our age, they were engaged.... They at least had some idea what they were going to do with their lives.... I, on the other hand, will have a dual degree in majors
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