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181203s2018 mau ob 000 0 eng d |
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|a (OCoLC)1076873149
|z (OCoLC)1077865761
|z (OCoLC)1109834479
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|a High-density sequencing applications in microbial molecular genetics /
|c edited by Agamemnon J. Carpousis.
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1 |
|a Cambridge, MA :
|b Academic Press,
|c 2018.
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| 300 |
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|a 1 online resource
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| 336 |
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|a text
|b txt
|2 rdacontent
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|a computer
|b c
|2 rdamedia
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|a online resource
|b cr
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|a data file
|2 rda
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1 |
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|a Methods in enzymology ;
|v volume 612
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| 504 |
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|a Includes bibliographical references.
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0 |
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|a Online resource; title from PDF file page (EBSCO, viewed December 5, 2018).
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|a Front Cover; High-Density Sequencing Applications in Microbial Molecular Genetics; Copyright; Contents; Contributors; Preface; Chapter One: Characterizing the Role of Exoribonucleases in the Control of Microbial Gene Expression: Differential RNA-Seq; 1. Overview of Exoribonucleases; 2. Overview of Differential RNA-Seq; 3. RNA Extraction; 4. Bioinformatics Analysis; 4.1. Mapping of Reads; 4.2. Transcript Expression Quantification; 4.3. Differential Expression Analysis; 4.4. Functional Annotation Analysis; 5. Experimental Validation; 5.1. qPCR; 5.2. Motility Assays; 6. Conclusion
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| 505 |
8 |
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|a AcknowledgmentsReferences; Chapter Two: Conformational Studies of Bacterial Chromosomes by High-Throughput Sequencing Methods; 1. Introduction; 1.1. Chromosome Conformation; 1.2. DNA-Protein Interactions; 1.3. Combining NGS to 3C and ChIP Approaches; 2. 3C-Seq: The Protocol; 2.1. Buffers and Reagents; 2.2. Cross-Linking of Cell Cultures; 2.3. 3C Library Preparation; 2.3.1. Cell Lysis; 2.3.2. RE Digestion; 2.3.3. Ligation; 2.3.4. DNA Purification; 2.4. Notes; 3. ChIP-Seq: The Protocol; 3.1. Buffers and Reagents; 3.2. Cross-Linking of Cell Cultures; 3.3. Cell Lysis
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8 |
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|a 3.4. Batch Immunoprecipitation of FLAG Fusions Proteins3.5. Elution of the Immunoprecipitated Protein; 3.6. Purification of the Coimmunoprecipitated DNA; 3.7. Notes; 4. Data Processing and Analysis; 4.1. Analysis of 3C-Seq Data; 4.2. Analysis of ChIP-Seq Data; 5. Conclusion; Acknowledgments; References; Chapter Three: Large-Scale Measurement of mRNA Degradation in Escherichia coli: To Delay or Not to Delay; 1. Introduction; 2. Measuring mRNA Degradation Rates; 2.1. Methods; 2.2. Rifampicin; 2.3. Practical Considerations; 3. Genome-Wide mRNA Quantification
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| 505 |
8 |
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|a 3.1. mRNA Extraction and Quantification3.2. Normalization; 4. mRNA Half-Life Estimation; 4.1. Decay Models; 4.2. Accuracy Criteria of the Estimation; 5. Effect of the Delay Before the Onset of Exponential Decay on mRNA Half-Life Estimation; 5.1. Datasets of mRNA Levels Over the Time; 5.2. Estimations of the Delay Before the Onset of the mRNA Exponential Decay; 5.3. Comparison of mRNA Half-Lives Estimated With and Without a Delay; 5.4. Correlation Between mRNA Half-Lives Estimated With and Without a Delay; 5.5. Influence of the Delay Extent
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8 |
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|a 5.6. Validation on RT-qPCR mRNA Quantification Datasets6. Concluding Remarks; Acknowledgments; References; Chapter Four: FASTBAC-Seq: Functional AnalysiS of Toxin-Antitoxin Systems in BACteria by Deep Sequencing; 1. Introduction; 2. Materials; 2.1. Molecular Biology Equipment; 2.2. General Equipment for Bacterial Cultures; 2.3. E. coli-Specific Equipment; 2.4. H. pylori-Specific Equipment; 2.5. Molecular Biology Reagents; 2.6. E. coli Strains and Cell Culture; 2.7. H. pylori Strains and Cell Culture
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| 650 |
|
0 |
|a Molecular genetics.
|
| 650 |
1 |
2 |
|a High-Throughput Nucleotide Sequencing
|x methods.
|0 (DNLM)D059014Q000379
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| 650 |
1 |
2 |
|a Sequence Analysis, RNA.
|0 (DNLM)D017423
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| 650 |
2 |
2 |
|a Genetics, Microbial.
|0 (DNLM)D005827
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| 650 |
2 |
2 |
|a Metagenomics
|x methods.
|0 (DNLM)D056186Q000379
|
| 650 |
2 |
2 |
|a Molecular Biology.
|0 (DNLM)D008967
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| 650 |
|
7 |
|a SCIENCE
|x Life Sciences
|x Evolution.
|2 bisacsh
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| 650 |
|
7 |
|a Molecular genetics.
|2 fast
|0 (OCoLC)fst01024797
|
| 655 |
|
4 |
|a Electronic books.
|
| 700 |
1 |
|
|a Carpousis, Agamemnon J.,
|e editor.
|
| 776 |
0 |
8 |
|i Print version:
|a High-density sequencing applications in microbial molecular genetics.
|b First edition.
|d Cambridge, MA : Academic Press, an imprint of Elsevier, 2018
|z 9780128159934
|w (OCoLC)1035514436
|
| 830 |
|
0 |
|a Methods in enzymology ;
|v v. 612.
|
| 856 |
4 |
0 |
|3 ScienceDirect
|u https://www.sciencedirect.com/science/bookseries/00766879/612
|z Full Text via HEAL-Link
|
