Detection and localization of early- and late-stage cancers using platelet RNA

Cancer patients benefit from early tumor detection since treatment outcomes are more favorable for less advanced cancers. Platelets are involved in cancer progression and are considered a promising biosource for cancer detection, as they alter their RNA content upon local and systemic cues. We show that tumor-educated platelet (TEP) RNA-based blood tests enable the detection of 18 cancer types. With 99% specificity in asymptomatic controls, thromboSeq correctly detected the presence of cancer in two-thirds of 1,096 blood samples from stage I–IV cancer patients and in half of 352 stage I–III tumors. Symptomatic controls, including inflammatory and cardiovascular diseases, and benign tumors had increased false-positive test results with an average specificity of 78%. Moreover, thromboSeq determined the tumor site of origin in five different tumor types correctly in over 80% of the cancer patients. These results highlight the potential properties of TEP-derived RNA panels to supplement current approaches for blood-based cancer screening

Measuring spatial and temporal variation in surface moisture on a coastal beach with a near-infrared terrestrial laser scanner

Wind-alone predictions of aeolian sand deposition on the most seaward coastal dune ridge often exceed measured deposition substantially. Surface moisture is a major factor limiting aeolian transport on sandy beaches, but existing measurement techniques cannot adequately characterize the spatial and temporal distribution of surface moisture content. Here, we present a new method for detecting surface moisture at high temporal and spatial resolution using a near-infrared terrestrial laser scanner (TLS), the RIEGL VZ-400. Because this TLS operates at a wavelength (1550. nm) near a water absorption band, TLS reflectance is an accurate parameter to measure surface moisture over its full range. Five days of intensive laser scanning were performed on a Dutch beach to illustrate the applicability of the TLS. Gravimetric surface moisture samples were used to calibrate the relation between reflectance and surface moisture. Results reveal a robust negative relation for the full range of possible surface moisture contents (0%-25%), with a correlation-coefficient squared of 0.85 and a root-mean-square error of 2.7%. This relation holds between 20 and 60. m from the TLS. Within this distance the TLS typically produces O(106-107) data points, which we averaged into surface moisture maps with a 1. ×. 1. m resolution. This grid size largely removes small reflectance disturbances induced by, for example, footprints or tire tracks, while retaining larger scale moisture trends

Tide-induced variability in beach surface moisture: Observations and modelling

The moisture content ws of a beach surface strongly controls the availability of sand for aeolian transport. Our predictive capability of the spatiotemporal variability in ws, which depends to a large extent on water table depth, is, however, limited. Here we show that water table fluctuations and surface moisture content observed during a 10‐day period on a medium‐grained (365μm) planar (1:30) beach can be predicted well with the nonlinear Boussinesq equation extended to include run‐up infiltration and a soil–water retention curve under the assumption of hydrostatic equilibrium. On the intertidal part of the beach the water table is observed and predicted to continuously fall from the moment the beach surface emerges from the falling tide to just before it is submerged by the incoming tide. We find that on the lower 30% of the intertidal beach the water table remains within 0.1–0.2 m from the surface and that the sand is always saturated (ws≈20%, by mass). Higher up on the intertidal beach, the surface can dry to about 5% when the water table has fallen to 0.4–0.5 m beneath the surface. Above the high‐tide level the water table is always too deep (>0.5 m) to affect surface moisture and, without precipitation, the sand is dry (ws  <  5 − 8%). Because the water table depth on the emerged part of the intertidal beach increases with time irrespective of whether the (ocean) tide falls or rises, we find no need to include hysteresis (wetting and drying) effects in the surface‐moisture modelling. Model simulations suggest that at the present planar beach only the part well above mean sea level can dry sufficiently (ws  <  10%) for sand to become available for aeolian transport. ©2018 The Authors

Measuring spatial and temporal variation in surface moisture on a coastal beach with a near-infrared terrestrial laser scanner

Wind-alone predictions of aeolian sand deposition on the most seaward coastal dune ridge often exceed measured deposition substantially. Surface moisture is a major factor limiting aeolian transport on sandy beaches, but existing measurement techniques cannot adequately characterize the spatial and temporal distribution of surface moisture content. Here, we present a new method for detecting surface moisture at high temporal and spatial resolution using a near-infrared terrestrial laser scanner (TLS), the RIEGL VZ-400. Because this TLS operates at a wavelength (1550. nm) near a water absorption band, TLS reflectance is an accurate parameter to measure surface moisture over its full range. Five days of intensive laser scanning were performed on a Dutch beach to illustrate the applicability of the TLS. Gravimetric surface moisture samples were used to calibrate the relation between reflectance and surface moisture. Results reveal a robust negative relation for the full range of possible surface moisture contents (0%-25%), with a correlation-coefficient squared of 0.85 and a root-mean-square error of 2.7%. This relation holds between 20 and 60. m from the TLS. Within this distance the TLS typically produces O(106-107) data points, which we averaged into surface moisture maps with a 1. ×. 1. m resolution. This grid size largely removes small reflectance disturbances induced by, for example, footprints or tire tracks, while retaining larger scale moisture trends

Tide-induced variability in beach surface moisture: Observations and modelling

The moisture content ws of a beach surface strongly controls the availability of sand for aeolian transport. Our predictive capability of the spatiotemporal variability in ws, which depends to a large extent on water table depth, is, however, limited. Here we show that water table fluctuations and surface moisture content observed during a 10‐day period on a medium‐grained (365μm) planar (1:30) beach can be predicted well with the nonlinear Boussinesq equation extended to include run‐up infiltration and a soil–water retention curve under the assumption of hydrostatic equilibrium. On the intertidal part of the beach the water table is observed and predicted to continuously fall from the moment the beach surface emerges from the falling tide to just before it is submerged by the incoming tide. We find that on the lower 30% of the intertidal beach the water table remains within 0.1–0.2 m from the surface and that the sand is always saturated (ws≈20%, by mass). Higher up on the intertidal beach, the surface can dry to about 5% when the water table has fallen to 0.4–0.5 m beneath the surface. Above the high‐tide level the water table is always too deep (>0.5 m) to affect surface moisture and, without precipitation, the sand is dry (ws  <  5 − 8%). Because the water table depth on the emerged part of the intertidal beach increases with time irrespective of whether the (ocean) tide falls or rises, we find no need to include hysteresis (wetting and drying) effects in the surface‐moisture modelling. Model simulations suggest that at the present planar beach only the part well above mean sea level can dry sufficiently (ws  <  10%) for sand to become available for aeolian transport. ©2018 The Authors

Observations of near-bed orbital velocities and small-scale bedforms on the Dutch lower shoreface

The lower shoreface, with water depths between about 8 and 20 m, forms the transition between the inner shelf and upper shoreface. Knowledge of the lower shoreface is essential, as it is – in many cases – the sediment source for the upper shoreface and beach. This paper presents new data of near-bed orbital velocities and small-scale bedforms at various depths and locations on the Dutch lower shoreface. Near-bed orbital velocities were beyond 1 m/s during high-energetic wave conditions. They increase with wave height and decrease with water depth, and can be reasonably well described by linear wave theory. Ripple heights range between 0.01−0.03 m and ripple lengths between 0.08−0.20 m. Ripple dimensions are controlled by wave mobility, with lower and shorter ripples for higher waves, and not so much by the currents. The Van Rijn (2007) formula generally overpredicts the ripple heights, and the variation with tidal currents in time. The measurements clearly indicate significant sediment mobility at the lower shoreface under higher wave events. It is yet unclear what this means for the net sand transport. This will depend on the subtle timing of sediment suspension, wave-mean currents and near-bed orbital velocities. It requires detailed modeling to determine lower shoreface net transport rates, and to unravel the controlling sand transport mechanisms

Observations of near-bed orbital velocities and small-scale bedforms on the Dutch lower shoreface

The lower shoreface, with water depths between about 8 and 20 m, forms the transition between the inner shelf and upper shoreface. Knowledge of the lower shoreface is essential, as it is – in many cases – the sediment source for the upper shoreface and beach. This paper presents new data of near-bed orbital velocities and small-scale bedforms at various depths and locations on the Dutch lower shoreface. Near-bed orbital velocities were beyond 1 m/s during high-energetic wave conditions. They increase with wave height and decrease with water depth, and can be reasonably well described by linear wave theory. Ripple heights range between 0.01−0.03 m and ripple lengths between 0.08−0.20 m. Ripple dimensions are controlled by wave mobility, with lower and shorter ripples for higher waves, and not so much by the currents. The Van Rijn (2007) formula generally overpredicts the ripple heights, and the variation with tidal currents in time. The measurements clearly indicate significant sediment mobility at the lower shoreface under higher wave events. It is yet unclear what this means for the net sand transport. This will depend on the subtle timing of sediment suspension, wave-mean currents and near-bed orbital velocities. It requires detailed modeling to determine lower shoreface net transport rates, and to unravel the controlling sand transport mechanisms

Observations of near-bed orbital velocities and small-scale bedforms on the Dutch lower shoreface

The lower shoreface, with water depths between about 8 and 20 m, forms the transition between the inner shelf and upper shoreface. Knowledge of the lower shoreface is essential, as it is – in many cases – the sediment source for the upper shoreface and beach. This paper presents new data of near-bed orbital velocities and small-scale bedforms at various depths and locations on the Dutch lower shoreface. Near-bed orbital velocities were beyond 1 m/s during high-energetic wave conditions. They increase with wave height and decrease with water depth, and can be reasonably well described by linear wave theory. Ripple heights range between 0.01−0.03 m and ripple lengths between 0.08−0.20 m. Ripple dimensions are controlled by wave mobility, with lower and shorter ripples for higher waves, and not so much by the currents. The Van Rijn (2007) formula generally overpredicts the ripple heights, and the variation with tidal currents in time. The measurements clearly indicate significant sediment mobility at the lower shoreface under higher wave events. It is yet unclear what this means for the net sand transport. This will depend on the subtle timing of sediment suspension, wave-mean currents and near-bed orbital velocities. It requires detailed modeling to determine lower shoreface net transport rates, and to unravel the controlling sand transport mechanisms

Observations of near-bed orbital velocities and small-scale bedforms on the Dutch lower shoreface

The lower shoreface, with water depths between about 8 and 20 m, forms the transition between the inner shelf and upper shoreface. Knowledge of the lower shoreface is essential, as it is – in many cases – the sediment source for the upper shoreface and beach. This paper presents new data of near-bed orbital velocities and small-scale bedforms at various depths and locations on the Dutch lower shoreface. Near-bed orbital velocities were beyond 1 m/s during high-energetic wave conditions. They increase with wave height and decrease with water depth, and can be reasonably well described by linear wave theory. Ripple heights range between 0.01−0.03 m and ripple lengths between 0.08−0.20 m. Ripple dimensions are controlled by wave mobility, with lower and shorter ripples for higher waves, and not so much by the currents. The Van Rijn (2007) formula generally overpredicts the ripple heights, and the variation with tidal currents in time. The measurements clearly indicate significant sediment mobility at the lower shoreface under higher wave events. It is yet unclear what this means for the net sand transport. This will depend on the subtle timing of sediment suspension, wave-mean currents and near-bed orbital velocities. It requires detailed modeling to determine lower shoreface net transport rates, and to unravel the controlling sand transport mechanisms

Observations of near-bed orbital velocities and small-scale bedforms on the Dutch lower shoreface

The lower shoreface, with water depths between about 8 and 20 m, forms the transition between the inner shelf and upper shoreface. Knowledge of the lower shoreface is essential, as it is – in many cases – the sediment source for the upper shoreface and beach. This paper presents new data of near-bed orbital velocities and small-scale bedforms at various depths and locations on the Dutch lower shoreface. Near-bed orbital velocities were beyond 1 m/s during high-energetic wave conditions. They increase with wave height and decrease with water depth, and can be reasonably well described by linear wave theory. Ripple heights range between 0.01−0.03 m and ripple lengths between 0.08−0.20 m. Ripple dimensions are controlled by wave mobility, with lower and shorter ripples for higher waves, and not so much by the currents. The Van Rijn (2007) formula generally overpredicts the ripple heights, and the variation with tidal currents in time. The measurements clearly indicate significant sediment mobility at the lower shoreface under higher wave events. It is yet unclear what this means for the net sand transport. This will depend on the subtle timing of sediment suspension, wave-mean currents and near-bed orbital velocities. It requires detailed modeling to determine lower shoreface net transport rates, and to unravel the controlling sand transport mechanisms