There is no support for traditional ACID database transactions in MongoDB regardless of what you put on top of it. This is not an issue with Mongoose or Express.js, it's a characteristic of MongoDB.
MongoDB supports atomic operations which means that saving to a collection is guaranteed to succeed completely or fail, in other words you won't get partial updates to a single document in a collection. But there is no support for multi-updates in a single transaction.
http://docs.mongodb.org/manual/faq/fundamentals/#does-mongodb-support-transactions