Poisson Process: Definition, Properties, and Theorems

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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?

  • 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?

  • 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?

  • 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?

<p>Simplest transposons contain no more than two inverted repeats and a gene for transposase, while complex transposons contain one or more genes not connected with transposition. (D)</p> Signup and view all the answers

What is the fundamental role of transposase?

<p>To facilitate the movement of DNA segments within a genome (B)</p> Signup and view all the answers

What role does the CAP-cAMP complex play in the lac operon?

<p>It enhances the transcription of the lac operon by binding to an enhancer sequence upstream of the operon. (B)</p> Signup and view all the answers

Under what conditions is the trp operon most likely to be repressed?

<p>When tryptophan levels are high, leading to the activation of a repressor protein that binds to the operator. (A)</p> Signup and view all the answers

Which characteristic defines cells described as ‘competent’ in the context of horizontal gene transfer?

<p>The presence of alterations in the cell wall and cytoplasmic membrane that allow DNA to enter. (D)</p> Signup and view all the answers

How do regulatory RNAs (such as miRNAs) influence gene expression?

<p>By binding to complementary mRNA sequences to inhibit translation (A)</p> Signup and view all the answers

How does a riboswitch regulate translation?

<p>By altering the shape of mRNA in response to a metabolite, affecting translation. (B)</p> Signup and view all the answers

Flashcards

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

Simplest transposons. Have no more than two inverted repeats and a gene for transposase.

Mutagens

Radiation, chemical mutagens, nucleotide analogs, and nucleotide-altering chemicals.

Mutants

Descendants of a cell that does not repair a mutation

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Genetic Recombination

Exchange of nucleotide sequences between homologous sequences that often occurs.

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Horizontal gene transfer

Donor cell which contributes part of genome to recipient cell

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Transformation

Taking up DNA directly from the environment

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Transduction

Transfer of DNA from one bacteria to another bacteria by way of bacteriophage

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Mutation

Change in the nucleotide base sequence of a genome, rare events.

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Point mutations

One base pair is affected. This includes substitutions and frameshift 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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