computational infrastructure and basic data analysis for high throughput sequencing

... the leaves of the plant and fractionated HPLC and GC-MS were used for the analysis of the extract and fractions Platelet aggregation assay was performed on the extract and fractions using a platelet ... Linearity, LOD and LOQ data of α-amyrin and β-amyrin standard calibration curves 162 Table 5.3 163 Table 5.4 Absolute and analytical recovery of α-amyrin and βamyrin Stability of α-amyrin and β-amyrin ... 21.3 and 10.5 µM for α- and β-amyrin respectively These values indicated that α- and β-amyrin are three and six times more active respectively than aspirin (IC50 value= 62.7 µM) Hence, α- xi and...

Ngày tải lên: 10/09/2015, 08:25

... Polymorphism xv List of Papers and Manuscripts Xie, C and M T Tammi (2009) CNV-seq, a new method to detect copy number variation using high- throughput sequencing BMC Bioinformatics 10, 80 (Appendix ... Pyrosequencer performs massively parallel pyrosequencing reactions to improve sequencing throughput The basis of pyrosequencing is illustrated in Figure 1.6 When amplifying a single stranded DNA fragment, ... Analytical Methods for aCGH Data 18 Development of DNA Sequencing Technologies 19 1.3.1 The Sanger Sequencing Technology 20 1.3.2 The Next-Generation Sequencing ...

Ngày tải lên: 11/09/2015, 10:01

... different steps of a high throughput sequencing project The “newbies” eager to learn the basics of high throughput sequencing technologies and data analysis will find what they yearn for specially by ... Computational Infrastructure and Basic Data Analysis for High- Throughput Sequencing David Sexton 55 Base-Calling for Bioinformaticians Mona A Sheikh and Yaniv Erlich 67 De Novo Short-Read ... steps in high- throughput sequencing: preparation, immobilization, and sequencing Preparation of the sample for highthroughput sequencing involves random fragmentation of the genomic DNA and addition...

Ngày tải lên: 29/05/2014, 14:33

... diacylglycerol and Ca2+ [29-33] The unconventional isoforms, δ, ε, η, and θ, require phosphatidylserine and diacylglycerol but not require Ca2+ The ζ and λ isoforms are called atypical and require ... Processing for microarray data and copy number variation were described Section, 2.4 2.5 present the method and strategies used for marker selection from microarray data 2.1 Methods for mathematics ... the disease biomarker selection using high throughput data, includes microarray and copy number variation datasets (Section 1.3) The motivation of this work and outline of the structure of this...

Ngày tải lên: 09/09/2015, 10:14

... reliable algorithms for error reduction and data processing are required to employ immunoblotting for the generation of high- quality quantitative data Another problem in normalization of data from different ... generation of high- quality data by quantitative immunoblotting Strategies for standardizing quantitative data Results Standardized generation of absolute values The reliable generation of large data sets ... immunoprecipitates (data not shown), demonstrated that our automated computational data processing is robust and reliably applicable for both methods These tools facilitate the standardized and automated...

Ngày tải lên: 19/02/2014, 07:20

... information-enough data- to make a sound choice His short visits to each campus were Chapter Introduction: Statistics and Data Analysis as Tools for Researchers Statistics and data analysis highlight ... variables and a continuing with t tests, ANOVAs, and chisquare, this site will help your students understand the basics of the SPSS program Study Guide for Statistics and Data Analysis for the ... variables, and make better judgments about how and why people behave the way they Statistics and Data Analysis for the Behavioral Sciences teaches the theory behind statistics and the analysis of data...

Ngày tải lên: 29/03/2014, 04:21

... EM and MVM performed the cross and larval rearing SW and LZ conducted DNA preparation, SNP and microsatellite genotyping, and linkage analysis EM conducted comparative genome analysis SW, EM and ... via high resolution melting analysis Mapping population Among the methods available for high- throughput SNP genotyping, the simple, fast and cost-effective HRM method is especially suitable for ... markers (primer and probe sequences, gene annotation and synteny) (Additional data file 1) Click here gene annotation, and synteny) sequences, data file Detailed information Additionalfor file of...

Ngày tải lên: 09/08/2014, 20:20

... Authors' contributions WS and DH designed the study WS performed the molecular genetic experiments and DH performed the computational analysis WS and DH analyzed the data WS, DH and ML wrote the manuscript ... miR Our approach for the identification of microRNAs using high- throughput sequencing reads is to compute a set of quantities for each candidate locus, and by using thresholds for each quantity ... approach called miRTRAP (miRNA Tests for Read Analysis and Prediction) was developed for the systematic prediction of miRNAs from high- throughput sequence data In contrast to most current methods,...

Ngày tải lên: 09/08/2014, 20:21

Ngày tải lên: 21/02/2014, 05:20

... produced in high yields in vivo are also suitable for efficient production by cell-free synthesis In order to compensate for the increased effort and expense required for the production and selective ... scrambling and easier sample handling compared to in vivo protein production render cell-free protein synthesis particularly attractive for high- throughput production of proteins and selective ... proteins makes it an attractive tool for preliminary studies prior to the production of uniformly [15N ⁄ 13C]labelled samples for in-depth NMR analysis Much information can be gleaned already from...

Ngày tải lên: 07/03/2014, 12:20

... Setting To perform the final stage analysis for the cable-stayed bridge, open a new file and save it as ‘cable stayed’, and start modeling Assign ‘m’ for length unit and ‘kN’ for force unit This ... entered for the cables using Display Fig 30 Unit Pretension Loads entered for Cables 32 FINAL AND CONSTRUCTION STAGE ANALYSIS FOR CABLE-STAYED BRIDGES Perform Structural Analysis Perform static analysis ... classified into forward analysis and backward analysis, based on the analysis sequence Forward analysis reflects the real construction sequence Whereas backward analysis is performed from the...

Ngày tải lên: 24/03/2014, 06:20

... rmbrann@sandia.gov Abstract Elementary vector and tensor analysis concepts are reviewed in a manner that proves useful for higher-order tensor analysis of anisotropic media In addition to reviewing basic ... Henry Thoreau Matrix Analysis (and some matrix calculus) Tensor analysis is neither a subset nor a superset of matrix analysis — tensor analysis complements matrix analysis For the purpose of this ... reproduced for profit DRAF September 4, 2003 5:24 pm Introduction Rebec FUNCTIONAL AND STRUCTURED TENSOR ANALYSIS FOR ENGINEERS: a casual (intuition-based) introduction to vector and tensor analysis...

Ngày tải lên: 31/03/2014, 16:19

... Abstract Purpose — Describe a high- throughput method for the analysis of uncertain models, e.g in biological research Methods — Generalized modeling for conceptual analysis of large classes of ... Generalized Models for high- throughput analysis of uncertain nonlinear systems Thilo Gross1,2 , Stefan Siegmund∗2 Max-Planck Technical Institute for the Physics of Complex Systems, ... valid for a class of models and robust against uncertainties in specific models positive X ∗ and F (X ∗ ) We write • avoids expensive numerical approximation of steady states and can be scaled to highdimensional...

Ngày tải lên: 18/06/2014, 18:20

... Abstract Purpose — Describe a high- throughput method for the analysis of uncertain models, e.g in biological research Methods — Generalized modeling for conceptual analysis of large classes of ... Generalized Models for high- throughput analysis of uncertain nonlinear systems Thilo Gross1,2 , Stefan Siegmund∗2 Max-Planck Technical Institute for the Physics of Complex Systems, ... valid for a class of models and robust against uncertainties in specific models positive X ∗ and F (X ∗ ) We write • avoids expensive numerical approximation of steady states and can be scaled to highdimensional...

Ngày tải lên: 20/06/2014, 01:20

... Abstract Purpose — Describe a high- throughput method for the analysis of uncertain models, e.g in biological research Methods — Generalized modeling for conceptual analysis of large classes of ... Generalized Models for high- throughput analysis of uncertain nonlinear systems Thilo Gross1,2 , Stefan Siegmund∗2 Max-Planck Technical Institute for the Physics of Complex Systems, ... valid for a class of models and robust against uncertainties in specific models positive X ∗ and F (X ∗ ) We write • avoids expensive numerical approximation of steady states and can be scaled to highdimensional...

Ngày tải lên: 20/06/2014, 21:20

... world works by old-fashioned investigative standards and practices and has draconian secrecy laws for all investigations, including asset searches and background checks In some instances, the ... cost and time required for translations The actual and incidental bureaucratic costs of obtaining records on a timely basis must also be considered In some foreign venues, nonnative requests for ... translation problems, and travel The agreement should also specify the approximate turnaround time, costs and budget limits; reporting standards, in other words, need for official documents and signed statements,...

Ngày tải lên: 21/06/2014, 03:20