Crunchy-Cheesy Bean Bake

Name: Crunchy-Cheesy Bean Bake
Cuisine: American
Ingredients: INGREDIENTS; 6 tablespoons extra-virgin olive oil; ½ medium yellow onion, finely chopped; 2 garlic cloves, minced; Pinch of dried red pepper flakes; Kosher salt and freshly ground black pepper to taste; 1 heaping tablespoon tomato paste; 1 (14.5-ounce) can diced tomatoes; 1 tablespoon dried oregano; 3 cups cooked white beans, such as gigantes or cannellini, or 2 (15-ounce) cans, rinsed and drained; 1 cup panko bread crumbs; ¼ cup grated Parmesan cheese; Leaves from 3 fresh thyme sprigs; 5 thin slices fresh mozzarella (about 3 ounces)