Enhanced control over femtosecond lasers (pulse shaping or pulse train modulation) improves contrast in tissue imaging. Pump-probe applications to melanoma diagnosis and cross phase modulation measurement in transparent tissues will be presented.Molecular imaging-the use of chemical signatures to image function instead of merely structure-promises to enable a new generation of clinical modalities that can revolutionize both diagnosis and treatment. In optics, our lab developed femtosecond pulse shaping two decades ago; today we know that the "killer application" is to access intrinsic nonlinear signatures that were not previously observable in tissue, such as excited state absorption, ground state depletion, and cross phase modulation. [1]. These methods permit high resolution imaging in scattering media, without any requirement that the imaging target generate fluorescence or other conventional light signatures.Our principal focus has been to improve biological imaging [2]; for example, we have uniquely identified a variety of biological targets and differentiated between eumelanin and pheomelanin in pigmented skin lesions to improve melanoma diagnosis. An interesting and important feature of melanin is its high stability-for example, eulemanin from 160 million year old fossils produces the same pump-probe decay as modern eumelanin [3]. This means that retrospective studies of decades-old patient samples, where diagnosis can be correlated with patient outcome, as possible with fixed tissue samples, whereas most genetic or immunohistochemical markers would be degraded and unusable. Here we use this approach by correlating eumelanin imaging with sentinel node biopsy to evaluate tumor aggressiveness, which could revolutionize melanoma diagnosis by improving the pathology "gold standard." We show that the approach could alsoimprove diagnosis both of ocular and vulvar melanoma, where simple incision (the "when in doubt, cut it out" approach) is less attractive in questionable cases.We have also shown that cross phase modulation, the nonlinear equivalent of phase contrast imaging, extends detection of transparent species even in scattering tissue [4,5]. The sources of contrast is typically the optical Kerr effect, which can differ by orders of magnitude in different transparent materials, and this contrast correlates with structural features. Traditionally, such effects are measured by their associated beam lensing, using methods such as the Z-scan, but this is not possible in the presence of any significant scattering. In contrast, femtosecond pulse shaping approaches permit robust measurement in an imaging geometry.