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Sites:

Foundations of Cryptography  - http://theory.lcs.mit.edu/~oded/frag.html  Oded Goldreich. A public domain book available on-line. Only partially completed.  Paul Garrett: Crypto and Number Theory  - http://www.math.umn.edu/~garrett/crypto/  Lecture notes for a course on cryptography and number theory.  Chaffing and Winnowing  - http://theory.lcs.mit.edu/~rivest/chaffing.txt  An interesting paper by Ron Rivest about providing confidentiality without encryption.  Index of Cryptography Papers Available Online  - http://www.counterpane.com/biblio/  A research tool for the cryptography community maintained by Counterpane Systems. Over 400 papers online.  Boolean Function Nonlinearity  - http://www.ciphersbyritter.com/JAVASCRP/NONLMEAS.HTM  A detailed discussion of cryptographic nonlinearity, what it means and how it is computed, with active JavaScript panels to perform the computation.  Bibliography on Secret Sharing Schemes  - http://www.cacr.math.uwaterloo.ca/~dstinson/ssbib.html  List maintained by Douglas Stinson and Ruizhong Wei.