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Questions and Answers
Which repair mechanism is most likely activated in response to extensive DNA damage, functioning as a last-ditch effort to maintain cell viability?
Which repair mechanism is most likely activated in response to extensive DNA damage, functioning as a last-ditch effort to maintain cell viability?
- Single-strand repair
- Error-prone repair
- Repair system of last resort (correct)
- Direct repair
What is the primary role of bacterial transformation in horizontal gene transfer?
What is the primary role of bacterial transformation in horizontal gene transfer?
- Transfer of plasmids via pili
- Direct cell-to-cell transfer of DNA
- Uptake of naked DNA from the environment (correct)
- Transfer of DNA via a bacteriophage
What is the outcome of a nonsense mutation?
What is the outcome of a nonsense mutation?
- Insertions or deletions that cause a shift in the reading frame.
- A mutation that codes for the same amino acid.
- A base-pair substitution that results in a codon that codes for a different amino acid.
- A mutation that results in a premature stop codon. (correct)
How do simplest transposons differ from complex transposons?
How do simplest transposons differ from complex transposons?
What is the fundamental role of transposase?
What is the fundamental role of transposase?
What role does the CAP-cAMP complex play in the lac operon?
What role does the CAP-cAMP complex play in the lac operon?
Under what conditions is the trp operon most likely to be repressed?
Under what conditions is the trp operon most likely to be repressed?
Which characteristic defines cells described as ‘competent’ in the context of horizontal gene transfer?
Which characteristic defines cells described as ‘competent’ in the context of horizontal gene transfer?
How do regulatory RNAs (such as miRNAs) influence gene expression?
How do regulatory RNAs (such as miRNAs) influence gene expression?
How does a riboswitch regulate translation?
How does a riboswitch regulate translation?
Flashcards
Transposons
Transposons
Segments of DNA that can move from one location to another in the same or different molecule, sometimes resulting in frameshift mutations.
Simple transposons
Simple transposons
Simplest transposons. Have no more than two inverted repeats and a gene for transposase.
Mutagens
Mutagens
Radiation, chemical mutagens, nucleotide analogs, and nucleotide-altering chemicals.
Mutants
Mutants
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Genetic Recombination
Genetic Recombination
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Horizontal gene transfer
Horizontal gene transfer
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Transformation
Transformation
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Transduction
Transduction
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Mutation
Mutation
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Point mutations
Point mutations
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Study Notes
The Poisson Process
- A counting process, ${N(t): t \geq 0}$, with rate $\lambda > 0$.
- $N(0) = 0$.
- It has independent increments.
- The number of events in any interval of length $t$ follows a Poisson distribution with mean $\lambda t$.
Poisson Distribution Formula
- For all $s, t \geq 0$:
- $P(N(t+s) - N(s) = n) = e^{-\lambda t} \frac{(\lambda t)^n}{n!}$, for $n = 0, 1, \dots$
Poisson Process Properties
- If ${N(t): t \geq 0}$ is a Poisson process with rate $\lambda$:
- $E[N(t)] = \lambda t$
- $Var[N(t)] = \lambda t$
Interarrival Times
- Interarrival times are independent and identically distributed exponential random variables with parameter $\lambda$.
- If the interarrival times of a counting process are independent and identically distributed exponential random variables with parameter $\lambda$, then the counting process is a Poisson process with rate $\lambda$.
Splitting Theorem
- Events of a Poisson process (rate $\lambda$) are classified as either type 1 (probability $p$) or type 2 (probability $1-p$), independently.
- $N_1(t)$ and $N_2(t)$ represent the number of type 1 and type 2 events in $[0, t]$, respectively.
- $N_1(t)$ and $N_2(t)$ are independent Poisson processes with rates $\lambda p$ and $\lambda(1-p)$, respectively.
Algorithmic Game Theory
- The study of mathematical models of strategic interactions among rational agents.
Game Theory Applications
- Found in social science, logic, systems science, and computer science.
- It originally addressed zero-sum games but now applies to a wide range of behavioral relations for decision making in humans, animals, and computers.
Non-Cooperative Game Definition
- A finite set of players $N = {1, 2,..., n}$
- For each player $i \in N$, a finite set of possible strategies $S_i = {s_{i1}, s_{i2},..., s_{ik}}$
- For each player $i \in N$, a utility function $u_i : S_1 \times S_2 \times... \times S_n \rightarrow \mathbb{R}$
Utility Function
- $u_i$ represents the payoff or benefit that player $i$ receives when the players choose the strategies $s_1 \in S_1, s_2 \in S_2,..., s_n \in S_n$.
- The utility function can be written as $u_i(s_1, s_2,..., s_n)$.
Prisoner's Dilemma
- Two suspects are arrested and offered a deal:
- Confess and the other doesn't: Confessor goes free, the other gets 10 years.
- Both confess: Each gets 5 years.
- Neither confesses: Each gets 1 year.
- The utility function:
Suspect 2 Confesses | Suspect 2 Does Not Confess | |
---|---|---|
Suspect 1 Confesses | (-5, -5) | (0, -10) |
Suspect 1 Does Not Confess | (-10, 0) | (-1, -1) |
Nash Equilibrium Definition
- A set of strategies, one for each player, where no player has an incentive to unilaterally change their strategy.
- $(s_1^, s_2^,..., s_n^*)$ such that for every player $i \in N$ and strategy $s_i \in S_i$:
- $u_i(s_1^, s_2^,..., s_i^,..., s_n^) \geq u_i(s_1^, s_2^,..., s_i,..., s_n^*)$
Prisoner's Dilemma Nash Equilibrium
- Both players confess, because if either player knows the other will confess, their best option is to confess as well.
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