Let $f(X)\in\mathbb{Q}[X]$ be integer-valued (i.e., $f(k)\in\mathbb{Z}$ for all $k\in\mathbb{Z}$). If $f(X)$ is of degree $n$, then $f(X)=\sum_{i=0}^n\,A_i\,\binom{X}{i}$ for some $A_0,A_1,\ldots,A_n\in\mathbb{Z}$. If the modified content $\tilde{C}(f)$ of $f$ is defined to be the gcd of all the $A_i$'s, then $\tilde{C}(f)$ is precisely the gcd of all $f(k)$ for $k\in\mathbb{Z}$.
In Andre Nicolas's first example, $X^2+X=0\binom{X}{0}+2\binom{X}{1}+2\binom{X}{2}$ so that $\gcd(0,2,2)=2$ is the gcd of all $k^2+k$ with $k\in\mathbb{Z}$. For the second one, $X^3-X=0\binom{X}{0}+0\binom{X}{1}+6\binom{x}{2}+6\binom{X}{3}$ so that $\gcd(0,0,6,6)=6$ is the gcd of all $k^3-k$ with $k\in\mathbb{Z}$.
I believe that this is also true. Let $S$ be an infinite subset of $\mathbb{Z}$ such that, for every prime $p\in\mathbb{N}$, integer $r>0$, and $j\in\left\{0,1,2,\ldots,p^r-1\right\}$, there exists $s\in S$ such that $s\equiv j\pmod{p^r}$. Then, $\tilde{C}(f)$ is also the gcd of all $f(k)$ for $k\in S$.
Why do I need the ridiculous requirement on $S$? First, it is clear that $S$ should be infinite for the gcd to be established for every integer-valued polynomial in $\mathbb{Q}[X]$. Then, it follows that, for any $j\in\mathbb{Z}$, $\gcd(S-j)=1$, otherwise $f(X)=X-j$ is a counterexample. This implies that $\gcd(S-S)=1$. However, this is still not enough (originally, I thought $\gcd(S-S)=1$ would be sufficient as mentioned in some of the comments below). If there exist a prime $p\in\mathbb{N}$, an integer $r>0$, and $j\in\left\{0,1,2,\ldots,p^r-1\right\}$ such that $s\not\equiv j\pmod{p^r}$ for all $s\in S$, then we may assume that $j=p^r-1$ and consider $f(X)=\binom{X}{p^r-1}$. In this case, $\tilde{C}(f)=1$ but it is easily seen by Lucas's Theorem that $p$ divides $f(k)$ for all $k\in S$. Hence, $s\equiv j\pmod{p^r}$ must have a solution $s\in S$ in order to satisfy the condition that $\tilde{C}(f)$ is the gcd of $f(k)$ for $k\in S$.