L. E. Reichl, Gursoy Akguc, Anil Shaji, and Michael Snyder, Conduction and entanglement in nanometer-scale ballistic electron waveguides, Proceedings of the 20th symposium on Energy Engineering Science, Argonne National Laboratory, May 20-21, 2002

E. C. G. Sudarshan and Anil Shaji, Structure and parameterization of stochastic maps of density matrices, J. Phys. A. 36, 5073–5081 (2003). http://stacks.iop.org/JPhysA/36/5073. Also available at arXiv:quant-ph/0205051

Anil Shaji, Appendix to ‘The promise of quantum computing’ by E. C. G. Sudarshan, Current Science (India), 84, 511 (2003), http://www.ias.ac.in/currsci/feb252003/504.pdf

Anil Shaji and E. C. G. Sudarshan, Non-relativistic proofs of the spin-statistics connection, Available at arXiv:quant-ph/0306033

Gursoy Akguc, Linda Reichl, Anil Shaji and Michael Snyder, Bell States in a resonant waveguide network, Phys. Rev. A., 69 042303 (2004), http://link.aps.org/abstract/PRA/v69/e042303 Also published in the April 2004 issue of the virtual journal of quantum information, http://www.vjquantuminfo.org

Anil Shaji, The quantum Zeno effect: A solvable model for indirect pre-measurements, J. Phys. A: Math. Gen. 37:(46) 11285-11308 (Nov 2004): http://stacks.iop.org/0305-4470/37/11285.

Thomas F. Jordan, Anil Shaji and E. C. G. Sudarshan, Dynamics of initially entangled open quantum systems, Phys. Rev A 70, 052110 (Nov 2004).

Kavan Modi and Anil Shaji, Quantum Zeno and anti-Zeno effects in an unstable system with two bound states, Phys. Lett. A 368, 215-221 (2007); arXiv:quant-ph/0502075

Olga V. Manko, V. I. Manko, G. Marmo, Anil Shaji E. C. G. Sudarshan and F. Zaccaria, Partial positive scaling transform: a separability criterion, Phys. Lett. A 339, 194-206 (2005); arXiv:quant-ph/0502089

Anil Shaji and E. C. G. Sudarshan, Who's afraid of not completely positive maps?, Phys. Lett. A 341, 48-54 (2005)

Cesar Rodriguez, Anil Shaji and E. C. G. Sudarshan, Dynamics of Two Qubits: Purity Swapping and an Entanglement Optimization Protocol, arXiv:quant-ph/0504051

Thomas F. Jordan, Anil Shaji and E. C. G. Sudarshan, The Schrodinger picture for open quantum systems, Phys. Rev. A. 73, 012106 (2006); arXiv:quant-ph/0505123

Thomas F. Jordan, Anil Shaji and E. C. G. Sudarshan, Maps for Lorentz transformations of spin, Phys. Rev. A. 73, 032104 (2006); arXiv:quant-ph/0511067

Sergio Boixo, Carlton M. Caves, Animesh Datta and Anil Shaji, On decoherence in clock synchronization, Laser Physics 16, 1525 (2006) Special Issue on Quantum Information and Quantum Computation; arXiv:quant-ph/0605013

Thomas F. Jordan, Anil Shaji and E. C. G. Sudarshan, Lorentz transformations that entangle spin and entangle momenta, Phys. Rev. A 75 022101 (2007); arXiv:quant-ph/0608061

Animesh Datta, Steven T. Flammia, Anil Shaji and Carlton M. Caves, Doubly constrained bounds on the entanglement of formation, arXiv:quant-ph/0608086

Thomas F. Jordan, Anil Shaji and E. C. G. Sudarshan, One qubit almost completely reveals the dynamics of two, Phys. Rev. A 76 012101 (2007); arXiv:quant-ph/0611141

Animesh Datta, Steven T. Flammia, Anil Shaji and Carlton M. Caves, Constrained bounds on measures of entanglement, Phys. Rev. A 75 062117 (2007); arXiv:quant-ph/0612049

Anil Shaji, Sudarshan's non-relativistic approach to the spin-statistics connecton, Contribution to the proceedings of the Sudarshan - 7 Science Quests Conference, Austin, TX, November 2006.

Cesar A. Rodriguez, Kavan Modi, Aik-meng Kuah, Anil Shaji and E. C. G. Sudarshan, Completely Positive Maps and Classical Correlations, J. Phys. A: Math. Theor. 41, 205301 (2008) arXiv:quant-ph/0703022

Thomas F. Jordan, Anil Shaji and E. C. G. Sudarshan, Entanglement increase from local interactions and not completely positive maps, Phys. Rev. A 76, 022102 (2007): arXiv:0704.0461

Anil Shaji and Carlton M. Caves, Qubit metrology and decoherence, Phys. Rev. A 76, 032111 (2007): arXiv:0705.1002

Animesh Datta Anil Shaji and Carlton M. Caves, Quantum discord and the power of one qubit, Phys. Rev. Lett. 100, 050502 (2008): arXiv:0709.0548

Sergio Boixo, Animesh Datta, Steven T. Flammia, Anil Shaji Emilio Bagan and Carlton M. Caves, Quantum-limited metrology with product states, Phys. Rev. A 77, 012317 (2008): arXiv:0710.0285

Thomas F. Jordan, Anil Shaji and E. C. G. Sudarshan, A hazard of open quantum dynamics: Markov approximations encounter map domains, Phys. Rev. A 77, 032104 (2008): arXiv:0711.4370

Sergio Boixo, Animesh Datta, Matthew J. Davis, Steven T. Flammia, Anil Shaji and Carlton M. Caves, Quantum Metrology: Dynamics vs. Entanglement: arXiv:0805.2180 [submitted for publication]

Linda E. Reichl, Anil Shaji and, Robert Luter PHY 102M Laboratory in Physics : Manual 2004 ed., University of Texas at Austin (2003).

Edoardo Di Napoli and Anil Shaji, Conformal Field Theory with boundaries: The Cardy conditions, A report on the Cardy conditions and their importance for statistical systems and String Theory done as part of the requirements of the String Theory course at the University of Texas at Austin (2002).

E. C. G. Sudarshan and Anil Shaji, Note on Non-relativistic proof of the spin-statistics connection in the Galilean frame, arXiv:quant-ph/0409205 Reply to Puccini and Vucetich,(arXiv:quant-ph/0407208)

Anil Shaji, Dynamics of initially entangled open quantum systems [DISSERTATION] Submitted to the graduate school at the University of Texas at Austin (May 2005),

Anil Shaji Dynamics of initially entangled open quantum systems, Talk at the Department of Phyics, University of Texas at Austin, April 21 (2005).

Gusoy Akguc, Linda E. Reichl, Anil Shaji and Michael Snyder Bell States in a Resonant Quantum Waveguide Network, Persented at Nano-Night 2004, The University of Texas at Austin.