You can Attach() a subscription then Remove() it - note, we're not using Add() here, just Attach, so effectively we're telling EF that we know the object is attached in the store, and asking it to behave as if that were true.
var db = new TopicDBEntities();
var topic = db.Topics.FirstOrDefault(x => x.TopicId == 1);
// Get the subscription you want to delete
var subscription = db.Subscriptions.FirstOrDefault(x => x.SubscriptionId == 2);
topic.Subscriptions.Attach(subscription); // Attach it (the ObjectContext now 'thinks' it belongs to the topic)
topic.Subscriptions.Remove(subscription); // Remove it
db.SaveChanges(); // Flush changes
This whole exchange, including getting the original topic from the database sends these 3 queries to the database:
SELECT TOP (1)
[Extent1].[TopicId] AS [TopicId],
[Extent1].[Description] AS [Description]
FROM [dbo].[Topic] AS [Extent1]
WHERE 1 = [Extent1].[TopicId]
SELECT TOP (1)
[Extent1].[SubscriptionId] AS [SubscriptionId],
[Extent1].[Description] AS [Description]
FROM [dbo].[Subscription] AS [Extent1]
WHERE 2 = [Extent1].[SubscriptionId]
exec sp_executesql N'delete [dbo].[TopicSubscriptions]
where (([TopicId] = @0) and ([SubscriptionId] = @1))',N'@0 int,@1 int',@0=1,@1=2
so it's not pulling all the subscriptions at any point.
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