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10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes1 10/17/05 Genes & Genomes (formerly Gene Prediction - 1)

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1 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes1 10/17/05 Genes & Genomes (formerly Gene Prediction - 1)

2 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes2 Gene Prediction & Regulation Gene structure & regulation Eukaryotes vs prokaryotes Methods for predicting genes Predicting regulatory regions Predicting miRNAs & targets

3 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes3 Reading Assignment (for Mon) Mount Bioinformatics Chp 9 Gene Prediction & Regulation pp 361-385 Eukaryotic vs Prokaryotic Gene Structure Ck Errata: http://www.bioinformaticsonline.org/help/errata2.html http://www.bioinformaticsonline.org/help/errata2.html Brown Genomes 2 (NCBI textbooks online)NCBI textbooks online) Sect 7 Understanding a Genome Sequence - Overview http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=genomes.chapter.6601 Sect 7.1 Locating Genes in a Genome Sequence http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=genomes.section.6613

4 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes4 Reading Assignment (for Wed) Mount Bioinformatics Chp 9 Gene Prediction & Regulation pp 361-385 Predicting Promoters Ck Errata: http://www.bioinformaticsonline.org/help/errata2.html http://www.bioinformaticsonline.org/help/errata2.html Brown Genomes 2 (NCBI textbooks online)NCBI textbooks online) Sect 9 Overview: Assembly of Transcription Initiation Complex http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=genomes.chapter.7002 Sect 9.1-9.3 DNA binding proteins, Transcription initiation http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=genomes.section.7016

5 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes5 Eukaryotes vs Prokaryotes Eukaryotic cells are characterized by membrane-bound compartments, which are absent in prokaryotes. “Typical” human & bacterial cells drawn to scale. BIOS Scientific Publishers Ltd, 1999 Brown Fig 2.1

6 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes6 Central Dogma - “old” BIOS Scientific Publishers Ltd, 1999 Brown Fig 3.2a

7 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes7 Central Dogma - “new” BIOS Scientific Publishers Ltd, 1999 Brown Fig 3.2b

8 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes8 Central Dogma - “new” BIOS Scientific Publishers Ltd, 1999 Brown Fig 3.2b

9 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes9 Central Dogma - “new” BIOS Scientific Publishers Ltd, 1999 Brown Fig 3.2b

10 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes10 A very simple eukaryotic gene BIOS Scientific Publishers Ltd, 1999 Brown Fig 1.17

11 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes11 Comparison of Gene Structures BIOS Scientific Publishers Ltd, 1999 Brown Fig 2.2

12 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes12 Comparison of Gene Structures BIOS Scientific Publishers Ltd, 1999 Brown Fig 2.2

13 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes13 Comparison of Gene Structures BIOS Scientific Publishers Ltd, 1999 Brown Fig 2.2

14 10/17/05 D Dobbs ISU - BCB 444/544X: Genes & Genomes14 http://www.dnai.org/c/index.html DNA Interactive: "Genomes" A tutorial on genomic sequencing, gene structure, genes prediction Howard Hughes Medical Institute (HHMI) Cold Spring Harbor Laboratory (CSHL)

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