Компьютерный анализ конформационных и физико-химических особенностей функциональных сайтов геномной ДНК эукариот
Диссертация
Разработанная система SITECON обеспечивает возможность выявления значимых консервативных контекстно-зависимых конформационных и физико-химических особенностей ДНК функциональных сайтов на основе анализа выборок последовательностей этих сайтов. Используемый системой метод выявления особенностей ДНК может использоваться для анализа разнообразных сайтов в геномах эукариот. Выявленные характеристики… Читать ещё >
Содержание
- Актуальность проблемы
- Цели и задачи исследования
- Научная новизна
- Научная и практическая ценность
- Публикации
- Структура работы
- Благодарности
- Вклад автора
- Принятые сокращения
- ГЛАВА 1. ОБЗОР ЛИТЕРАТУРЫ
- 1. 1. Особенности структурно-функциональной организации геномной ДНК
- 1. 1. 1. Общие сведения о структуре двойной спирали ДНК
- 1. 1. 2. Конформационные и физико-химические контекстно-зависимые свойства ДНК
- 1. 1. 3. Контекстно-зависимые конформационные и физико-химические свойства ДНК как особый тип кода, значимого для функционирования геномов
- 1. 2. Регуляция транскрипции генов эукариот. Транскрипционные факторы и топоизомераза
- 1. 2. 1. Структурно-функциональная организация 5'-регуляторных районов, контролирующих транскрипцию генов эукариот
- 1. 2. 2. Классификация транскрипционных факторов
- 1. 2. 3. Основные типы ДНК-связывающих доменов транскрипционных факторов
- 1. 2. 3. 1. ДНК-связывающий домен типа спираль-поворот — спираль
- 1. 2. 3. 2. ДНК-связывающий домен, координированный ионами цинка
- 1. 2. 3. 3. ДНК-связывающий домен, обогащенный положительно заряженными аминокислотными остатками
- 1. 2. 3. 4. Домен типа ß--скэффолд
- 1. 2. 4. Конформация ДНК в комплексах с транскрипционными факторами
- 1. 2. 5. ДНК топоизомераза
- 1. 3. Компьютерные методы распознавания функциональных последовательностей ДНК
- 1. 3. 1. Метод консенсуса
- 1. 3. 2. Метод весовых матриц
- 1. 3. 3. Метод скрытых Марковских цепей и байесовские сети
- 1. 3. 4. Метод дискриминантного анализа
- 1. 3. 5. Метод конформационных параметров: система B-DNA Video
- 1. 3. 6. Метод статистического потенциала
- 1. 3. 7. Статистические характеристики, используемые для сравнения точности методов распознавания
- 1. 3. 8. Метод филогенетического футпринтинга
- 1. 1. Особенности структурно-функциональной организации геномной ДНК
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