Depending on the environment of the acceleration processes for ultra-high energy cosmic rays, photons and neutrinos may be produced by interactions in the sources. If so, observations of gamma-rays or neutrinos could pinpoint the sources. This paper reviews some aspects of the search for photons and neutrinos from possible sources of ultra-high energy cosmic rays. Both photons and neutrinos are potential tracers of sites of cosmic-ray acceleration because, being neutral, they are not deviated by intervening magnetic fields. Photons are plentiful, but their interpretation is complicated by interactions in the sources and spectral modifications due to cascading in transit. In addition, their origin can be from radiation by electrons as well as from decay of neutral pions. In contrast, high-energy neutrinos would directly imply acceleration of hadrons. Because they interact only weakly, neutrinos are not distorted by interactions in the sources, but for the same reason they are hard to detect. Photons and neutrinos provide complementary types of information about cosmic-ray sources, but they both indicate underlying acceleration of charged particles. It is therefore natural to select known sources of TeV gamma-rays as potential sources of neutrinos. It is useful to distinguish two ways of producing gamma-rays and neutrinos: at the sources of ultra-high energy cosmic rays (UHECR) and during propagation through the cosmos. In the first case, the observed spectra of the neutral messengers ( and ν) depend on the source spectrum, on cosmic evolution of the sources and on conditions inside or near the acceleration region. Cosmogenic neutrinos and photons produced during propagation of UHECR depend on the injected spectrum as a function of energy and red shift, but not on conditions at the sources. It is generally assumed that the highest energy cosmic rays are accelerated in extra-galactic sources, and that the transition from the lower energy population of galactic cosmic rays occurs somewhere between 0.3 and 3EeV. Protons and nuclei with energies above 30EeV begin to suffer significant energy losses during propagation from sources more distant than a few hundred Mpc. Ten EeV, being below the suppression energy, but above the transition region is a suitable energy around which to estimate the energy content of the cosmic rays from extra-galactic sources. The observed energy flux at 10EeV by HiRes (1) and Telescope Array (2 )i s
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