100 results on '"Jennifer Brooke"'
Search Results
2. Adequate racial and ethnic representation in cancer clinical trial enrollment: Real-world evidence from an NCI-designated cancer center in a minority-majority county.
- Author
-
Dayyani, Farshid, Mahadevan, Aditya, Azizi, Armon, Valerin, Jennifer Brooke, Mar, Nataliya, Jeyakumar, Deepa, and Lee, Frank
- Published
- 2025
- Full Text
- View/download PDF
3. Safety, efficacy, and on-treatment circulating tumor DNA (ctDNA) changes from a phase 1 study of RMC-6236, a RAS(ON) multi-selective, tri-complex inhibitor, in patients with RAS mutant pancreatic ductal adenocarcinoma (PDAC).
- Author
-
Garrido-Laguna, Ignacio, Wolpin, Brian M., Park, Wungki, Azad, Nilofer Saba, Spira, Alexander I., Starodub, Alexander, Sommerhalder, David, Punekar, Salman Rafi, Herzberg, Benjamin, Barve, Minal A., Pelster, Meredith, Valerin, Jennifer Brooke, Hecht, Joel R, Vora, Rashmi, Hegde, Aparna Madhukeshwar, Gustafson, Clay, Tao, Lin, Kar, Sumit, Lin, Kevin K., and Hong, David S.
- Published
- 2025
- Full Text
- View/download PDF
4. Overcoming racial and ethnic disparities in clinical trial enrollment real world evidence from an NCI-Designated Cancer Center in a minority majority county.
- Author
-
Lee, Frank, primary, Valerin, Jennifer Brooke, additional, and Dayyani, Farshid, additional
- Published
- 2024
- Full Text
- View/download PDF
5. CALOTRITON: A convective boundary layer height estimation algorithm from UHF wind profiler data
- Author
-
Alban Philibert, Marie Lothon, Julien Amestoy, Pierre-Yves Meslin, Solène Derrien, Yannick Bezombes, Bernard Campistron, Fabienne Lohou, Antoine Vial, Guylaine Canut-Rocafort, Joachim Reuder, and Jennifer Brooke
- Abstract
Long series of observation of the atmospheric dynamics and composition are collected at the French Pyrenean Platform for the Observation of the Atmosphere (P2OA). Planetary boundary layer depth is a key variable of the climate system, but it remains difficult to estimate and analyse statistically by use of long series. In order to obtain reliable estimates of the convective boundary layer height (Zi) and to allow long-term series analyses, a new restitution algorithm, named CALOTRITON, has been developed, based on the observations of a Ultra High Frequency (UHF) wind profiler radar from P2OA, with the help of other instruments for evaluation. Zi estimates are based on the principle that the top of the convective boundary layer is associated with both a marked inversion and a decrease of turbulence. Those two criteria are respectively manifested by larger radar reflectivity and smaller vertical velocity Doppler spectral width. With this in mind, we introduce a new UHF- deduced dimensionless parameter which weights the air refractive index coefficient with the inverse of vertical velocity standard deviation to the power x. We then search for the most appropriate local maxima of this parameter for Zi estimates, with defined criteria and constraints, like temporal continuity. Given that Zi should correspond to fair weather cloud base height, we use ceilometer data to optimize our choice of the power x, and find that x = 3 gives the best comparisons/results. The estimates of Zi by CALOTRITON are evaluated using different Zi estimates deduced from radiosounding, according to different definitions. The comparison shows excellent results with a regression coefficient of up to 0.96 and a root mean square error of 80 m, close to the vertical resolution of the UHF of 75 m, when conditions are optimal. In more complex situations, that is when the atmospheric vertical structure is itself particularly ambiguous, secondary retrievals allow us to identify potential thermal internal boundary layers or residual layers, and help to qualify the Zi estimations. Frequent estimate errors are nevertheless observed when Zi is below the UHF first reliable gate, but also at the end of the day, when the boundary layer begins its transition to a stable nighttime boundary layer.
- Published
- 2023
6. Phase 1 dose-finding trial of cabozantinib (cabo) and trifluridine/tipiracil (FDT/TPI) in metastatic colorectal carcinoma (mCRC).
- Author
-
Dayyani, Farshid, primary, Balangue, Jasmine, additional, Valerin, Jennifer Brooke, additional, Zell, Jason A., additional, Taylor, Thomas H, additional, and Cho, May Thet, additional
- Published
- 2023
- Full Text
- View/download PDF
7. Observations and numerical weather forecasts of land‐surface and boundary‐layer evolution during an unusually dry spring at a site in central England
- Author
-
Jennifer Brooke and Simon R. Osborne
- Subjects
Surface (mathematics) ,Buoyancy flux ,Atmospheric Science ,Boundary layer ,Evapotranspiration ,Environmental science ,Unified Model ,Spring (mathematics) ,Atmospheric sciences ,Water content - Published
- 2021
- Full Text
- View/download PDF
8. LIAISE campaign: Measuring and Modelling Evapotranspiration over Irrigated Terrain in a Semi-Arid Environment
- Author
-
Oscar Hartogensis, Aaron Boone, Mary-Rose Mangan, Joaquim Bellvert, Martin Best, Jennifer Brooke, Guylaine Canut-Rocafot, Joan Cuxart, Patrick Le Moigne, Josep Ramon Miro, Jan Polcher, Jeremy Price, and Pere Quintana Segui
- Abstract
The overall objective of the Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment (LIAISE) project is to improve the understanding of land-atmosphere and hydrology interactions in a semi-arid region characterized by strong surface heterogeneity owing to contrasts between the natural landscape and intensive, irrigated agriculture. It is known that irrigation can potentially impact the local atmospheric boundary layer (ABL) characteristics, thereby modifying near surface atmospheric conditions within and downwind of irrigated areas (e.g., Lawston et al., 2020) and potentially the recycling of precipitation. The understanding of the impact of anthropization and its representation in models have been inhibited due to a lack of consistent and extensive observations. In recent years, land surface and atmospheric observation capabilities have advanced while irrigated surfaces have been increasing, leading to a renewed need for dedicated field campaigns over contrasting (climate) regions.We present a summary of the LIAISE field campaign intensive phase between July 15–29 2021, which took place over the Catalan counties of Urgell and Pla d'Urgell within the Ebro basin in north-eastern Spain. LIAISE is located in a semi-arid hot, dry Mediterranean climate, with a very sharp delineation between a vast, nearly continuous intensively-irrigated region and the generally much more dry rain-fed zone to the east of the study domain. Intensive, spatially distributed surface-based and airborne measurements of the atmospheric boundary layer were made, along with intensive eco-physiological observations and remotely-sensed high spatial resolution mesoscale measures of surface variables from aircraft and unmanned aerial vehicles (UAVs). Two energy budget sites were extended with a network of soil moisture sensors since they were used to evaluate remote sensing data from aircraft. More than 30 institutions took part in the campaign covering a wide range of expertise and spatiotemporal scales in the methods involved, be it through modelling or measurements.In this contribution we will elaborate on the spatial and temporal scales involved in the processes of evapotranspiration. We will make a strong case for integrated approaches combining observation and modelling techniques to further develop our understanding of evapotranspiration. This will be illustrated with a case study using a mixed layer column model heavily guided and constrained by measurements.
- Published
- 2022
- Full Text
- View/download PDF
9. Preoperative evaluation of microvascular invasion with circulating tumour DNA in operable hepatocellular carcinoma
- Author
-
Ke Ye, Xin Yi, Jianjun Zhang, Jennifer Brooke Goldstein, Yaping Xu, Yanfang Guan, Xuefeng Xia, Lifeng Li, Qiongzhi He, Guo Long, Liang Xiao, Zhiming Wang, Dong Wang, Lianpeng Chang, Xi Hu, and Ledu Zhou
- Subjects
Liver Cancer ,Oncology ,medicine.medical_specialty ,Multivariate analysis ,medicine.medical_treatment ,microvascular invasion ,Tissue sample ,surgical management ,03 medical and health sciences ,hepatectomy ,0302 clinical medicine ,Internal medicine ,Medicine ,Risk factor ,Allele frequency ,Univariate analysis ,Hepatology ,business.industry ,ctDNA ,hepatocellular carcinoma ,medicine.disease ,Training cohort ,030220 oncology & carcinogenesis ,Hepatocellular carcinoma ,Original Article ,030211 gastroenterology & hepatology ,Hepatectomy ,business - Abstract
Background & Aims Microvascular invasion (MVI) is a critical prognostic factor for operable hepatocellular carcinoma (HCC). This study aimed to explore the performance of circulating tumour DNA (ctDNA) in evaluating MVI status preoperatively. Methods Seventy‐three HCC patients were enrolled and randomly divided into a training cohort and a validation cohort in a 2:1 ratio, and preoperative blood and surgical tissue samples were obtained. Genomic alterations were analysed using targeted deep sequencing with a 1021‐gene panel. Results In training cohort, 260 somatic mutations were identified in 40 blood samples (81.6%). CtDNA mutation was verified in paired tissue sample in 39 patients (97.5%). In univariate analysis, ctDNA allele frequency (AF) and largest tumour diameter were associated with the presence of MVI, but ctDNA AF was the only independent risk factor in multivariate analysis. With the cut‐off value of 0.83%, ctDNA AF determined the presence of MVI with the sensitivity of 89.7% and specificity of 80.0% in the training cohort, and the sensitivity of 78.6% and the specificity of 81.8% in the validation cohort. In preoperative evaluation, ctDNA AF, AFP level and BCLC staging were associated with recurrence‐free survival in both univariate and multivariate analysis. Conclusions CtDNA can serve as an independent risk factor of MVI for operable HCC and help determining precise treatment strategies. The integration of ctDNA in the management of operable HCC may achieve better clinical outcomes.
- Published
- 2020
- Full Text
- View/download PDF
10. Addressing the causes of large‐scale circulation error in the Met Office Unified Model
- Author
-
Annelize van Niekerk, T. D. Dunstan, Adrian Lock, M. J. Carvalho, Heather Rumbold, Martin Best, S. H. Derbyshire, D. M. H. Sexton, Keith D. Williams, Irina Sandu, and Jennifer Brooke
- Subjects
Atmospheric Science ,Circulation (fluid dynamics) ,Scale (ratio) ,Meteorology ,Environmental science ,Unified Model - Published
- 2020
- Full Text
- View/download PDF
11. Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment (LIAISE) Project: Overview of the Field Campaign intense phase
- Author
-
Aaron Boone, Martin Best, Joaquim Bellvert, Jennifer Brooke, Guylaine Canut-Rocafort, Joan Cuxart, Oscar Hartogensis, Josep Ramon Miro, Patrick LeMoigne, Jan Polcher, Jeremy Price, and Pere Quintana Segui
- Abstract
It is known that irrigation can impact the local atmospheric boundary layer characteristics, thereby modifying near surface atmospheric conditions within and downwind of irrigated areas and potentially the recycling of precipitation. The understanding of the impact of anthropization and its representation in models have been inhibited due to a lack of consistent and extensive observations, but in recent years, land surface and atmospheric observation capabilities have advanced. The overall objective of the Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment (LIAISE) project is to improve the understanding and prediction of land-atmosphere-hydrology interactions in a semi-arid region characterized by strong surface heterogeneity between the natural landscape and intensive agriculture. The study region is located over the Pla d’Urgell region within the Ebro basin in NE Spain. This area was selected since it is a breadbasket region: there are discussions underway to further expand this irrigated zone owing to its economic importance, but consensus of current climate projections predicts a significant warming and drying over this region in upcoming years. Thus there is an urgent need to improve the prediction of the potential changes to the regional water cycle since water resources are limited. Here we present an overview of the intense phase of the LIAISE observational campaign, which is part of the HYdrological cycles in the Mediterranean Experiment (HyMeX) phase 2, that took place in July, 2021 when land surface heterogeneity was at a maximum. A network of 7 stations provided continuous measurements of the surface energy and water budget components for multiple representative land cover types, including irrigated surfaces, along with detailed surface biophysical measurements from the leaf to field scale. Surface fluxes at the field scale were made using scintillometer configurations over 3 of the sites. Lower atmospheric measurements were obtained from tethered balloons, lidar, UHF profilers, frequent radio-sounding releases, UAVs and several aircraft. Finally, airborne instruments measured solar induced florescence, surface temperature over several spectral bands and soil moisture over a transect cutting across the rain-fed and irrigated areas. The main outcome of this project is to provide the underpinnings for improved models leading to better water resource impact studies for both the present and under future climate change.
- Published
- 2022
- Full Text
- View/download PDF
12. Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment project (LIAISE): results for the 1st modelling inter-comparison
- Author
-
Maria A. Jimenez, Joan Cuxart, Antoni Grau, Aaron Boone, Sylvie Donier, Patrick Le Moigne, Josep R. Miro, Jordi More, Jennifer Brooke, Martin Best, Alessandro Tiesi, and Piero Malguzzi
- Abstract
Land surface-atmosphere interactions determine the atmospheric boundary layer (ABL) features, and in the case of semi-arid regions the water availability in the upper ground strongly conditions the surface energy balance and in general the observed dominant processes. In the Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment project (LIAISE, Boone et al. 2021), an observational campaign took place in the eastern Ebro river sub-basin between spring and fall 2021 to study the land/atmosphere interactions and the effect of the surface heterogeneities on the ABL in a semi-arid environment, enclosing a large irrigated area in summer. The combined analysis of the ground-based observations, ABL atmospheric measurements (including aircraft and remote-sensing data) and modelling is expected to improve the understanding of processes affecting exchange fluxes between the surface and the atmosphere, especially evapotranspiration, and to allow exploring the local and mesoscale circulations induced by the surface heterogeneities.A first mesoscale modelling inter-comparison for a summer event in the LIAISE area is intended to evaluate the performance of the participating models compared to the observations and explore the differences between them. Participant models are run at their standard configurations to evaluate the representation of the surface features in the numerical models and its impact in the organisation of the flow at lower levels. Besides, some sensitivity tests are made (initial and lateral boundary conditions, resolution or representation of the surface features, among others) to identify the importance of some model parameters in the model results.Four models participate in the inter-comparison: MesoNH, WRF, UKMO Unified Model and MOLOCH. They are run with similar horizontal (2km x 2km and 400m x 400m for the outer and inner domains) and vertical (2m at lower levels and stretched above) grid meshes. A 48-h integration is made between 16 and 18 July 2016 for a case under a high-pressure system centred over NW France, with well-developed thermally-driven circulations in the Ebro Basin. Sea breezes are found at the coast and seem to reach the basin after surmounting the mountain coastal range.Model results are validated using data from the surface stations of the Servei Meteorològic de Catalunya network (very dense in the studied region). It is found that each model has a different representation of the surface heterogeneities affecting the grid values of the surface fluxes. Nevertheless, the mesoscale circulations generated by the models are very close being the differences lying mostly at smaller scales, namely the ABL characteristics, the values of the exchange fluxes at the surface or the state of the surface and the soil. The challenge at this point is to relate the model biases to the particularities of the parameterisations and of the physiographic data bases used by each model. This model inter-comparison is expected to point improvements in the definitions of the setup of each model for a later phase, when the model simulations will be validated using observations from the recent LIAISE experimental field campaign.
- Published
- 2022
- Full Text
- View/download PDF
13. Phase 1 dose-finding trial of cabozantinib (cabo) and trifluridine/tipiracil (FDT/TPI) in metastatic colorectal carcinoma (mCRC)
- Author
-
Farshid Dayyani, Jasmine Balangue, Jennifer Brooke Valerin, Jason A. Zell, Thomas H Taylor, and May Thet Cho
- Subjects
Cancer Research ,Oncology - Abstract
98 Background: Salvage treatments for refractory mCRC are an unmet need. This study determined the safety and Recommended Phase 2 Dose (RP2D) of the multi-kinase inhibitor Cabo in combination with FDT/TPI in mCRC. Methods: Single institution investigator-initiated phase 1 study using 3+3 design. Patients (pts) with mCRC previously treated with a fluoropyrimidine, oxaliplatin, irinotecan and appropriate biologics were eligible. Cabo was given orally (p.o.) at 20 mg (dose level [DL] 0) or 40 mg (DL 1) daily on days 1-28, and FTD/TPI p.o. at 35 mg/m2 on days 1-5 and 8-12 every 28 days. Prophylactic growth factors were allowed. The primary endpoint was Dose Limiting Toxicity (DLT) at 28 days. Secondary endpoints included overall survival (OS), progression-free survival (PFS), objective response rate and CEA response. Results: 12 pts were enrolled. Median age 57 years (31-80), male (9/12), ECOG 0/1 = 7/5, Caucasian/Hispanic/Asian = 7/4/1. 3 pts were treated at DL 0 with no observed DLT. Another 9 pts (n = 6 pts to determine RPD2 and additional n = 3 pts in expansion) were treated at DL 1, none exhibiting a DLT. The most common any grade (G) treatment related adverse events (TRAE) were diarrhea (50%), nausea (42%), neutropenia (42%), fatigue (33%) and rash (25%). G3-4 TRAE in > 5% of patients were neutropenia (25%) and thrombocytopenia, hypokalemia, weight loss (each 8%). No serious TRAE or G5 were reported. The RP2D was determined to be DL 1. Median PFS and OS were 4.1 (95% CI 1.9-6.8) and 6.7 (95% CI 2.2-not evaluable) months, respectively. The disease control rate was 75%. 5/12 (42%) pts had a CEA decline > 30%. Conclusions: The combination of Cabo and FTD/TPI is feasible and tolerable and showed encouraging clinical activity in refractory mCRC. Additional pts are being enrolled at DL 1 and will be presented at the meeting. Clinical trial information: NCT04868773 .
- Published
- 2023
- Full Text
- View/download PDF
14. Distribution of immune-related adverse events (irAEs) across genitourinary (GU) malignancies.
- Author
-
Mar, Nataliya, primary, Slaught, Matthew, additional, Kaakour, Dalia, additional, Azizi, Armon, additional, and Valerin, Jennifer Brooke, additional
- Published
- 2022
- Full Text
- View/download PDF
15. Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment (LIAISE): 1st modelling intercomparison
- Author
-
Josep Ramon Miró, Maria A. Jiménez, Joan Cuxart, Jennifer Brooke, Patrick Le Moigne, S. Donier, Piero Malguzzi, Jordi Moré, Martin Best, Antoni Grau, Alessandro Tiesi, and Aaron Boone
- Subjects
Atmosphere ,Environmental science ,Atmospheric sciences ,Arid - Abstract
Land surface-atmosphere interactions determine the atmospheric boundary layer (ABL) features, and in the case of semi-arid regions the water availability in the upper ground strongly conditions the surface energy balance and in general the observed dominant processes. LIAISE (Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment, eastern Ebro sub-basin) is an observational campaign planned between spring and fall 2021 designed to study the land/atmosphere interactions and the effect of the surface heterogeneities on the ABL in a semi-arid environment enclosing a large irrigated area in summer.The combined analysis of the ground-based observations and ABL atmospheric measurements, including aircraft and remote-sensing data, is expected to improve the understanding of processes affecting exchange fluxes between the surface and the atmosphere, especially evapotranspiration, and to allow exploring the local and mesoscale circulations induced by the surface heterogeneities. In this sense, mesoscale simulations will be performed over the eastern Ebro sub-basin to contribute to this understanding while evaluating the representation of the surface features in the numerical models and its impact in the organisation of the flow at lower levels.A first mesoscale modelling inter-comparison for a 2016 summer event in the LIAISE area, is under progress, intended to evaluate the performance of the participating models compared to the observations and explore the differences between them, trying to understand the reasons behind them. In this initial phase the models are run at their standard configurations and the comparison is expected to allow improvements in the definitions of the setup of each model for a later phase.Four models participate in the inter-comparison: MesoNH, WRF, UKMO Unified Model and MOLOCH. They are run with similar horizontal (2km x 2km and 400m x 400m for the outer and inner domains) and vertical (2m at lower levels and stretched above) grid meshes and, in this first phase, using their default setup. A 48-h integration is made between 16 and 18 July 2016 for a case under a high-pressure system centred over NW France, with well developed thermally-driven circulations in the Ebro Basin. Sea breezes are found at the coast and seem to reach the basin after surmounting the mountain coastal range.Preliminary results show that each model has a different representation of the surface heterogeneities affecting the grid values of the surface fluxes. Nevertheless, the mesoscale circulations generated by them do not differ significantly between models, the differences lying mostly at smaller scales, namely the ABL characteristics, the values of the exchange fluxes at the surface or the state of the surface and the soil. The challenge at this point is to relate the observed differences to the particularities of the parameterisations and of the physiographic data bases used by each model.
- Published
- 2021
- Full Text
- View/download PDF
16. An evaluation of surface meteorology and fluxes over the Iceland and Greenland Seas in ERA5 reanalysis: the impact of sea ice distribution
- Author
-
Jennifer Brooke, G. W. K. Moore, Annick Terpstra, Kjetil Våge, Denis E. Sergeev, Alexandra Weiss, Jørn Kristiansen, Robert S. Pickart, Chris Barrell, Ian A. Renfrew, T. Lachlan Cope, Irina Sandu, Christiane Duscha, Andrew D. Elvidge, John C. King, and Joachim Reuder
- Subjects
Atmospheric Science ,geography ,geography.geographical_feature_category ,010504 meteorology & atmospheric sciences ,Meteorology ,Buoy ,business.industry ,Marginal ice zone ,Distribution (economics) ,Unified Model ,Sensible heat ,Numerical weather prediction ,01 natural sciences ,Wind speed ,010305 fluids & plasmas ,13. Climate action ,0103 physical sciences ,Sea ice ,Environmental science ,business ,0105 earth and related environmental sciences - Abstract
The Iceland and Greenland Seas are a crucial region for the climate system, being the headwaters of the lower limb of the Atlantic Meridional Overturning Circulation. Investigating the atmosphere–ocean–ice processes in this region often necessitates the use of meteorological reanalyses—a representation of the atmospheric state based on the assimilation of observations into a numerical weather prediction system. Knowing the quality of reanalysis products is vital for their proper use. Here we evaluate the surface-layer meteorology and surface turbulent fluxes in winter and spring for the latest reanalysis from the European Centre for Medium-Range Weather Forecasts, i.e., ERA5. In situ observations from a meteorological buoy, a research vessel, and a research aircraft during the Iceland–Greenland Seas Project provide unparalleled coverage of this climatically important region. The observations are independent of ERA5. They allow a comprehensive evaluation of the surface meteorology and fluxes of these subpolar seas and, for the first time, a specific focus on the marginal ice zone. Over the ice-free ocean, ERA5 generally compares well to the observations of surface-layer meteorology and turbulent fluxes. However, over the marginal ice zone, the correspondence is noticeably less accurate: for example, the root-mean-square errors are significantly higher for surface temperature, wind speed, and surface sensible heat flux. The primary reason for the difference in reanalysis quality is an overly smooth sea-ice distribution in the surface boundary conditions used in ERA5. Particularly over the marginal ice zone, unrepresented variability and uncertainties in how to parameterize surface exchange compromise the quality of the reanalyses. A parallel evaluation of higher-resolution forecast fields from the Met Office's Unified Model corroborates these findings. publishedVersion
- Published
- 2021
17. A case-study of land–atmosphere coupling during monsoon onset in northern India
- Author
-
Jennifer Brooke, Andrew G. Turner, Steven J. Böing, Douglas J. Parker, Phil Harris, Emma J. Barton, Christopher M. Taylor, Ashis K. Mitra, Kieran M. R. Hunt, Danijel Belušić, A. Jayakumar, and R. Chawn Harlow
- Subjects
Monsoon of South Asia ,Atmospheric Science ,Climate Research ,Planetary boundary layer ,Mesoscale meteorology ,Weather forecasting ,Weather and climate ,Monsoon ,computer.software_genre ,Klimatforskning ,Meteorology and Climatology ,Aircraft observations ,convection ,Indian monsoon ,irrigation ,land–atmosphere coupling ,monsoon trough ,planetary boundary layer ,soil moisture ,Climatology ,Soil water ,Environmental science ,Monsoon trough ,computer - Abstract
This article presents a land–atmosphere case-study for a single day during monsoon onset, incorporating data from a research aircraft, satellite products and model outputs. The unique aircraft observations reveal temperature and humidity contrasts of up to 5 K and 4 g/kg in the planetary boundary layer induced by spatial variations in soil moisture. Both antecedent rain and irrigation were found to be drivers of this atmospheric variability. There is also evidence of soil moisture-induced mesoscale circulations above some surfaces. This is the first time such responses have been observed in situ over India. Soil moisture-driven temperature anomalies are larger than those found in previous observational studies in the African Sahel. Moreover, irrigation in the region is extensive, unlike in the Sahel, and has a similar atmospheric effect to antecedent rainfall. This implies that historical changes in irrigation practices are likely to have had an important influence on mesoscale processes within the Indian monsoon. We also examine evidence linking soil moisture and cloud formation. Above wetter soils we observed a suppression of shallow cloud, whilst the initiation of deep convection occurred mostly in areas affected by wet–dry soil moisture boundaries. To investigate the impact of soil moisture heterogeneity on large-scale wind flow, three model depictions of the day are assessed: the European Centre for Medium-Range Weather Forecasts ERA-Interim and ERA5 reanalyses, and a high-resolution (1.5 km) simulation generated using the Indian National Centre for Medium Range Weather Forecasting regional convection-permitting Unified Model. We find evidence indicating surface flux uncertainties in the models lead to ∼3.5 hPa anomalies in the monsoon trough. This does affect the simulation of monsoon circulation and rainfall. Better representation of mesoscale land–atmosphere coupling is likely to improve the depiction of convection within weather and climate models over India.
- Published
- 2020
- Full Text
- View/download PDF
18. Unexpected vertical structure of the Saharan Air Layer and giant dust particles during AER-D
- Author
-
Luke Orgill, Victor Estellés, Jennifer Brooke, Gary Lloyd, Debbie O'Sullivan, Martin Gallagher, Claire L. Ryder, and Franco Marenco
- Subjects
Termodinàmica atmosfèrica ,Atmospheric Science ,Marine boundary layer ,Saharan Air Layer ,010504 meteorology & atmospheric sciences ,Dust particles ,010502 geochemistry & geophysics ,Atmospheric sciences ,01 natural sciences ,lcsh:Chemistry ,Atmosphere ,Radiative Transfer ,Radiative transfer ,Dust transport ,Giant dust particles ,AER-D ,0105 earth and related environmental sciences ,Aerosol Optical Depth ,Lightning ,lcsh:QC1-999 ,Aerosol ,lcsh:QD1-999 ,Environmental science ,Shortwave ,lcsh:Physics - Abstract
The Saharan Air Layer (SAL) in the summertime eastern Atlantic is typically well mixed and 3–4 km deep, overlying the marine boundary layer (MBL). In this paper, we show experimental evidence that at times a very different structure can be observed. During the AERosol properties – Dust (AER-D) airborne campaign in August 2015, the typical structure described above was observed most of the time, and was associated with a moderate dust content yielding an aerosol optical depth (AOD) of 0.3–0.4 at 355 nm. In an intense event, however, an unprecedented vertical structure was observed close to the eastern boundary of the basin, displaying an uneven vertical distribution and a very large AOD (1.5–2), with most of the dust in a much lower level than usual (0.3–2 km). Estimated dust concentrations and column loadings for all flights during the campaign spanned 300–5500 and 0.8–7.5 g m−2, respectively. The shortwave direct radiative impact of the intense dust event has been evaluated to be as large as -260±30 and -120±15 W m−2 at the surface and top of atmosphere (TOA), respectively. We also report the correlation of this event with anomalous lightning activity in the Canary Islands. In all cases, our measurements detected a broad distribution of aerosol sizes, ranging from ∼0.1 to ∼80 µm (diameter), thus highlighting the presence of giant particles. Giant dust particles were also found in the MBL. We note that most aerosol models may miss the giant particles due to the fact that they use size bins up to 10–25 µm. The unusual vertical structure and the giant particles may have implications for dust transport over the Atlantic during intense events and may affect the estimate of dust deposited to the ocean. We believe that future campaigns could focus more on events with high aerosol load and that instrumentation capable of detecting giant particles will be key to dust observations in this part of the world.
- Published
- 2018
- Full Text
- View/download PDF
19. Aircraft and ground measurements of dust aerosols over the west African coast in summer 2015 during ICE-D and AER-D
- Author
-
Dantong Liu, Jonathan W. Taylor, Jonathan Crosier, Nicholas Marsden, Keith N. Bower, Gary Lloyd, Claire L. Ryder, Jennifer Brooke, Richard Cotton, Franco Marenco, Alan Blyth, Zhiqiang Cui, Victor Estelles, Martin Gallagher, Hugh Coe, and Tom W. Choularton
- Subjects
Aerosols ,Termodinàmica atmosfèrica ,lcsh:Chemistry ,lcsh:QD1-999 ,13. Climate action ,lcsh:Physics ,lcsh:QC1-999 - Abstract
During the summertime, dust from the Sahara can be efficiently transported westwards within the Saharan air layer (SAL). This can lead to high aerosol loadings being observed above a relatively clean marine boundary layer (MBL) in the tropical Atlantic Ocean. These dust layers can impart significant radiative effects through strong visible and IR light absorption and scattering, and can also have indirect impacts by altering cloud properties. The processing of the dust aerosol can result in changes in both direct and indirect radiative effects, leading to significant uncertainty in climate prediction in this region. During August 2015, measurements of aerosol and cloud properties were conducted off the coast of west Africa as part of the Ice in Cloud Experiment – Dust (ICE-D) and AERosol properties – Dust (AER-D) campaigns. Observations were obtained over a 4-week period using the UK Facility for Atmospheric Airborne Measurements (FAAM) BAe 146 aircraft based on Santiago Island, Cabo Verde. Ground-based observations were collected from Praia (14°57′ N, 23°29′ W; 100 m a.s.l.), also located on Santiago Island. The dust in the SAL was mostly sampled in situ at altitudes of 2–4 km, and the potential dust age was estimated by backward trajectory analysis. The particle mass concentration (at diameter d = 0.1–20 µm) decreased with transport time. Mean effective diameter (Deff) for supermicron SAL dust (d = 1–20 µm) was found to be 5–6 µm regardless of dust age, whereas submicron Deff (d = 0.1–1 µm) showed a decreasing trend with longer transport. For the first time, an airborne laser-induced incandescence instrument (the single particle soot photometer – SP2) was deployed to measure the hematite content of dust. For the Sahel-influenced dust in the SAL, the observed hematite mass fraction of dust (FHm) was found to be anti-correlated with the single scattering albedo (SSA, λ = 550 nm, for particles d FHm increased from 2.5 to 4.5 %, SSA decreased from 0.97 to 0.93 and the derived imaginary part (k) of the refractive index at 550 nm increased from 0.0015 to 0.0035. However, the optical properties of Sahara-influenced plumes (not influenced by the Sahel) were independent of dust age and hematite content with SSA ∼ 0.95 and k ∼ 0.0028. This indicates that the absorbing component of dust may be source dependent, or that gravitational settling of larger particles may lead to a higher fraction of more absorbing clay–iron aggregates at smaller sizes. Mie calculation using the measured size distribution and size-resolved refractive indices of the absorbing components (black carbon and hematite) reproduces the measured SSA to within ±0.02 for SAL dust by assuming a goethite ∕ hematite mass ratio of 2. Overall, hematite and goethite constituted 40–80 % of the absorption for particles d
- Published
- 2018
- Full Text
- View/download PDF
20. Can Microsatellite Status of Colorectal Cancer Be Reliably Assessed after Neoadjuvant Therapy?
- Author
-
Miguel A. Rodriguez-Bigas, Y. Nancy You, Ji Wu, William Wu, Paul Scheet, Eduardo Vilar, Maureen E. Mork, Scott Kopetz, Ester Borras, Patrick M. Lynch, Sarah A. Bannon, Jennifer Brooke Goldstein, Amanda Cuddy, Melissa W. Taggart, and Gita Masand
- Subjects
Adult ,Male ,0301 basic medicine ,congenital, hereditary, and neonatal diseases and abnormalities ,Cancer Research ,Pathology ,medicine.medical_specialty ,Colorectal cancer ,medicine.medical_treatment ,MLH1 ,DNA Mismatch Repair ,Polymerase Chain Reaction ,Article ,Mice ,03 medical and health sciences ,0302 clinical medicine ,Biomarkers, Tumor ,medicine ,Animals ,Humans ,Germ-Line Mutation ,Neoadjuvant therapy ,Aged ,Aged, 80 and over ,Chemotherapy ,business.industry ,Microsatellite instability ,Cancer ,Middle Aged ,HCT116 Cells ,medicine.disease ,Xenograft Model Antitumor Assays ,Neoadjuvant Therapy ,digestive system diseases ,Gene Expression Regulation, Neoplastic ,MSH6 ,030104 developmental biology ,Oncology ,030220 oncology & carcinogenesis ,Immunohistochemistry ,Female ,Microsatellite Instability ,Colorectal Neoplasms ,business - Abstract
Purpose: Determination of microsatellite instability (MSI) by PCR is the gold standard; however, IHC of mismatch repair (MMR) proteins is frequently performed instead. The reliability of these methods on postneoadjuvant therapy specimens is unknown. We examined the effect of neoadjuvant therapy on MSI results by PCR and IHC. Experimental design: A total of 239 colorectal cancers resected after neoadjuvant therapy were assessed for MSI with PCR and IHC. PCR and IHC results for matched paired pre- and posttreatment specimens were compared. In parallel, 2 isogenic cell lines conditioned for MMR functioning and 2 different patient-derived xenografts (PDXs) were exposed to chemotherapy, radiation, or both. We also examined whether establishment of PDXs induced MSI changes in 5 tumors. IHC and MSI were tested after treatment to assess for changes. Results: We identified paired pre- and posttreatment specimens for 37 patients: 2 with PCR only, 34 with IHC only, and 1 with both. All 3 patients with PCR had microsatellite stable pre- and posttreatment specimens. Of the 35 patients with IHC, 30 had intact MMR proteins in pre- and posttreatment specimens, 1 had equivocal MLH1 staining in the pretreatment and loss in the posttreatment specimen, and 4 had intact pretreatment MSH6 but variable posttreatment staining. In the experimental setting, no changes in MSI status were detected after treatment or tumor implantation in animals. Conclusions: Our findings show that the expression of MMR proteins, commonly MSH6, can change after neoadjuvant therapy and confirm PCR as the gold-standard test for MSI after neoadjuvant therapy. Clin Cancer Res; 23(17); 5246–54. ©2017 AACR.
- Published
- 2017
- Full Text
- View/download PDF
21. Outcomes of phase I clinical trials for patients with advanced pancreatic cancer: update of the MD Anderson Cancer Center experience
- Author
-
Apostolia Maria Tsimberidou, Milind Javle, David R. Fogelman, Filip Janku, Ralph Zinner, Siqing Fu, Aung Naing, Vivek Subbiah, Daniel D. Karp, Sarina Anne Piha-Paul, Jennifer Brooke Goldstein, Gauri R. Varadhachary, Chad Tang, Kenneth R. Hess, Funda Meric-Bernstam, Robert A. Wolff, Jennifer J. Wheler, and David S. Hong
- Subjects
Gerontology ,medicine.medical_specialty ,medicine.medical_treatment ,pancreatic cancer ,chemotherapy ,Targeted therapy ,phase I trial ,03 medical and health sciences ,0302 clinical medicine ,Cancer Medicine ,Pancreatic cancer ,Radiation oncology ,Medicine ,030304 developmental biology ,0303 health sciences ,business.industry ,General surgery ,Cancer ,targeted therapy ,medicine.disease ,Gemcitabine ,3. Good health ,Clinical trial ,Oncology ,030220 oncology & carcinogenesis ,biomarker ,Erlotinib ,business ,Research Paper ,medicine.drug - Abstract
// Jennifer B. Goldstein 1 , Chad Tang 2 , Kenneth R. Hess 3 , David Hong 4 , Vivek Subbiah 4 , Filip Janku 4 , Siqing Fu 4 , Daniel D. Karp 4 , Aung Naing 4 , Apostolia Maria Tsimberidou 4 , Jennifer Wheler 4 , Ralph Zinner 4 , Milind Javle 5 , Gauri R. Varadhachary 5 , Robert A. Wolff 5 , David R. Fogelman 5 , Funda Meric-Bernstam 4 and Sarina A. Piha-Paul 4 1 Division of Cancer Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, USA 2 Department of Radiation Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA 3 Department of Biostatistics, The University of Texas MD Anderson Cancer Center, Houston, TX, USA 4 Department of Investigational Cancer Therapeutics, The University of Texas MD Anderson Cancer Center, Houston, TX, USA 5 Department of Gastrointestinal Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA Correspondence to: Jennifer B. Goldstein, email: jbgoldstein@mdanderson.org Keywords: pancreatic cancer, phase I trial, biomarker, chemotherapy, targeted therapy Received: November 02, 2016 Accepted: July 17, 2017 Published: August 03, 2017 ABSTRACT Background: In 2011, we reported the outcomes of pancreatic cancer (PC) patients enrolled in phase I trials at our institution from 2004 through 2009. At the time, gemcitabine and erlotinib were the only Food and Drug Administration-approved drugs for PC and median overall survival (OS) from consultation in the phase I clinic was 5 months. We sought to determine the impact of novel therapeutics on PC patients in phase I trials. Methods: We reviewed records of PC patients treated in phase I trials at our institution from January 2009 through December 2014. Survival was analyzed using the Kaplan-Meier method. Results: Ninety-five patients were identified. The median age was 61 years (range, 40-84), 59% were men, and 41% had stage IV disease. The median OS from consultation in the phase I clinic was 5.8 months (95% confidence interval [CI], 4.5-6.8), and the 1-year OS rate was 9% (95% CI, 4%-17%). Three patients had partial responses and 18 had stable disease ≥ 4 months. Conclusion: We observed no improvement in OS between PC patients enrolled in phase I trials in 2004-2009 and 2009-2015. To substantially improve OS in this challenging disease, improved patient selection and science-driven, innovative trial designs will be key.
- Published
- 2017
- Full Text
- View/download PDF
22. Evaluating the Met Office Unified Model land surface temperature in Global Atmosphere/Land 3.1 (GA/L3.1), Global Atmosphere/Land 6.1 (GA/L6.1) and limited area 2.2 km configurations
- Author
-
Mark Weeks, R. Chawn Harlow, Jennifer Brooke, John M. Edwards, Jean-Claude Thelen, Russell L. Scott, and Martin Best
- Subjects
010504 meteorology & atmospheric sciences ,lcsh:QE1-996.5 ,0211 other engineering and technologies ,02 engineering and technology ,Vegetation ,Numerical weather prediction ,Atmospheric sciences ,01 natural sciences ,lcsh:Geology ,Atmosphere ,Depth sounding ,Data assimilation ,Diurnal cycle ,Environmental science ,Moderate-resolution imaging spectroradiometer ,021101 geological & geomatics engineering ,0105 earth and related environmental sciences ,Orographic lift - Abstract
A limitation of the Met Office operational data assimilation scheme is that surface-sensitive infrared satellite sounding channels cannot be used during daytime periods where numerical weather prediction (NWP) model background land surface temperature (LST) biases are greater than 2 K in magnitude. The Met Office Unified Model (UM) has a significant cold LST bias in semi-arid regions when compared with satellite observations; a range of UM configurations were assessed with different model resolutions, land surface cover datasets and bare soil parameterisations. UM LST biases were evaluated at global resolution and in a limited area model (LAM) at a 2.2 km resolution over the SALSTICE (Semi-Arid Land Surface Temperature and IASI Calibration Experiment) experimental domain in south-eastern Arizona. This validation is in conjunction with eddy-covariance flux tower measurements. LST biases in the Global Atmosphere/Land 3.1 (GA/L3.1) configuration were largest in the mid-morning with respect to Moderate Resolution Imaging Spectroradiometer (MODIS) Terra (-13.6±2.8 K at the Kendall Grassland site). The diurnal cycle of LST in Global Atmosphere/Land 6.1 (GA/L6.1) showed a significant improvement relative to GA/L3.1 with the cold LST biases reduced to -1.4±2.7 K and -3.6±3.0 K for Terra and Aqua overpasses, respectively. The higher-resolution LAM showed added value over the global configurations. The spatial distribution of the LST biases relative to MODIS and the modelled bare soil cover fraction were found to be moderately correlated (0.61±0.08) during the daytime, which suggests that regions of cold LST bias are associated with low bare soil cover fraction. Coefficients of correlation with the shrub surface fractions followed the same trend as the bare soil cover fraction, although with a less significant correlation (0.36±0.09), and indicated that the sparse vegetation canopies in south-eastern Arizona are not well represented in UM ancillary datasets. The x component of the orographic slope was positively correlated with the LST bias (0.41±0.05 for MODIS Aqua) and identified that regions of cold model LST bias are found on easterly slopes, and regions of warm model LST bias are found on westerly slopes. An overestimate in the modelled turbulent heat and moisture fluxes at the eddy-covariance flux sites was found to be coincident with an underestimate in the ground heat flux.
- Published
- 2019
23. Land surface Interactions with the Atmosphere over the Iberian Semi-arid Environment (LIAISE) Project
- Author
-
Aaron Boone, Martin Best, Joan Cuxart, Jan Polcher, Quintana Seguí, P., Fabienne Lohou, Yves Tramblay, Mehrez Zribi, Clément Albergel, Sophie Bastin, Aurélien Bourdon, Jennifer Brooke, Guylaine Canut, C Calvet, J., Alain Dabas, Sylvie Donier, Fabien Gibert, Sébastien Garrigues, Martial Haeffelin, Lionel Jarlan, Olivier Merlin, Marie Lothon, Patrick Le Moigne, Simon Munier, Michel Le Page, Centre National de la Recherche Scientifique (CNRS), and Gibert, Fabien
- Subjects
[SDE] Environmental Sciences ,[SDE]Environmental Sciences ,ComputingMilieux_MISCELLANEOUS - Abstract
International audience
- Published
- 2019
24. The Effect of Presentation Level on the Gaps-In-Noise (GIN©) Test
- Author
-
Weihing, Jeffrey A., Musiek, Frank E., and Shinn, Jennifer Brooke
- Published
- 2007
25. Book review: Residential child and youth care in a developing world Volumes 1-4 By Tuhinul Islam and Leon Fulcher [Editors]
- Author
-
Jennifer Brooker
- Subjects
residential child and youth care ,developing world ,Social pathology. Social and public welfare. Criminology ,HV1-9960 - Abstract
Residential Child and Youth Care in a Developing World (2016 – 2020) is a unique insight into global residential child and youth care practice, which emphasises that the usually negative Western literature perspective that many of us read about is not the experience of the majority of those involved in care, whether as participants or workers. Rather, we are offered glimpses into residential care practices in geographies that are often unfamiliar and not often included in the surrounding discourse.
- Published
- 2023
- Full Text
- View/download PDF
26. Evaluation of biomass burning aerosols in the HadGEM3 climate model with observations from the SAMBBA field campaign
- Author
-
Eoghan Darbyshire, Mohit Dalvi, Nicolas Bellouin, Paulo Artaxo, Jennifer Brooke, Franco Marenco, Jim Haywood, Justin M. Langridge, Graham Mann, Kate Szpek, William T. Morgan, Ben Johnson, Karla M. Longo, Hugh Coe, and Jane Mulcahy
- Subjects
Atmospheric Science ,Angstrom exponent ,010504 meteorology & atmospheric sciences ,010501 environmental sciences ,Atmospheric sciences ,01 natural sciences ,7. Clean energy ,lcsh:Chemistry ,Organic matter ,Relative humidity ,Physics::Atmospheric and Oceanic Physics ,0105 earth and related environmental sciences ,chemistry.chemical_classification ,Single-scattering albedo ,15. Life on land ,lcsh:QC1-999 ,Aerosol ,AERONET ,chemistry ,lcsh:QD1-999 ,13. Climate action ,Particle-size distribution ,Environmental science ,Climate model ,lcsh:Physics - Abstract
We present observations of biomass burning aerosol from the South American Biomass Burning Analysis (SAMBBA) and other measurement campaigns, and use these to evaluate the representation of biomass burning aerosol properties and processes in a state-of-the-art climate model. The evaluation includes detailed comparisons with aircraft and ground data, along with remote sensing observations from MODIS and AERONET. We demonstrate several improvements to aerosol properties following the implementation of the Global Model for Aerosol Processes (GLOMAP-mode) modal aerosol scheme in the HadGEM3 climate model. This predicts the particle size distribution, composition, and optical properties, giving increased accuracy in the representation of aerosol properties and physical–chemical processes over the Coupled Large-scale Aerosol Scheme for Simulations in Climate Models (CLASSIC) bulk aerosol scheme previously used in HadGEM2. Although both models give similar regional distributions of carbonaceous aerosol mass and aerosol optical depth (AOD), GLOMAP-mode is better able to capture the observed size distribution, single scattering albedo, and Ångström exponent across different tropical biomass burning source regions. Both aerosol schemes overestimate the uptake of water compared to recent observations, CLASSIC more so than GLOMAP-mode, leading to a likely overestimation of aerosol scattering, AOD, and single scattering albedo at high relative humidity. Observed aerosol vertical distributions were well captured when biomass burning aerosol emissions were injected uniformly from the surface to 3 km. Finally, good agreement between observed and modelled AOD was gained only after scaling up GFED3 emissions by a factor of 1.6 for CLASSIC and 2.0 for GLOMAP-mode. We attribute this difference in scaling factor mainly to different assumptions for the water uptake and growth of aerosol mass during ageing via oxidation and condensation of organics. We also note that similar agreement with observed AOD could have been achieved with lower scaling factors if the ratio of organic carbon to primary organic matter was increased in the models toward the upper range of observed values. Improved knowledge from measurements is required to reduce uncertainties in emission ratios for black carbon and organic carbon, and the ratio of organic carbon to primary organic matter for primary emissions from biomass burning.
- Published
- 2016
- Full Text
- View/download PDF
27. Cutaneous Metastasis of a Mucoepidermoid Carcinoma of the Pancreas: First Reported Case
- Author
-
Susan C. Abraham, Jennifer Brooke Goldstein, Rami N. Al-Rohil, Sarah E. Baldwin, Michael T. Tetzlaff, David R. Fogelman, Tamara G. Barnes, Sarina Anne Piha-Paul, and Prasamsa Pandey
- Subjects
Male ,Pathology ,medicine.medical_specialty ,Skin Neoplasms ,Time Factors ,Biopsy ,medicine.medical_treatment ,Dermatology ,Pathology and Forensic Medicine ,Lesion ,03 medical and health sciences ,Fatal Outcome ,Pancreatectomy ,0302 clinical medicine ,Mucoepidermoid carcinoma ,Pancreatic cancer ,Carcinoma ,medicine ,Humans ,Chemotherapy ,medicine.diagnostic_test ,Drug Substitution ,business.industry ,General Medicine ,Middle Aged ,medicine.disease ,Pancreatic Neoplasms ,stomatognathic diseases ,Hospice Care ,medicine.anatomical_structure ,Chemotherapy, Adjuvant ,030220 oncology & carcinogenesis ,Carcinoma, Mucoepidermoid ,030211 gastroenterology & hepatology ,medicine.symptom ,Tomography, X-Ray Computed ,business ,Pancreas - Abstract
Background Mucoepidermoid pancreatic cancer is a rare entity with only 8 cases reported in the literature. On review of the literature, the authors found that cutaneous metastases in pancreatic cancer are rare and have not been associated with the mucoepidermoid subtype. The authors present the first reported case of cutaneous metastasis in a patient with mucoepidermoid carcinoma of the pancreas. Case presentation A 50-year old white male with a metastatic invasive poorly differentiated mucoepidermoid carcinoma of the pancreas was found to have a slow growing lesion in the skin over his left upper quadrant while undergoing active therapy. The lesion was biopsied and the pathology was consistent with pancreatic origin sharing similar morphologic features when compared with the primary pancreactectomy specimen. Conclusions Mucoepidermoid pancreatic cancer is an exceedingly rare subtype of pancreatic cancer, with very little information regarding its diagnosis, treatment, and patterns of metastases. Here, the authors present the first reported case of cutaneous metastases of mucoepidermoid pancreatic cancer.
- Published
- 2016
- Full Text
- View/download PDF
28. A non-pregnant woman with elevated beta-HCG: A case of para-neoplastic syndrome in ovarian cancer
- Author
-
Prasamsa Pandey, Shannon N. Westin, Jennifer Brooke Goldstein, Nicole D. Fleming, and Sarina Anne Piha-Paul
- Subjects
Pregnancy test ,medicine.medical_specialty ,endocrine system ,Tumor heterogeneity ,Case Report ,Gastroenterology ,lcsh:Gynecology and obstetrics ,lcsh:RC254-282 ,Metastasis ,03 medical and health sciences ,0302 clinical medicine ,Ovarian cancer ,Ovarian carcinoma ,Internal medicine ,β-hCG heterophilic antibody ,medicine ,reproductive and urinary physiology ,lcsh:RG1-991 ,Gynecology ,030219 obstetrics & reproductive medicine ,Ectopic pregnancy ,business.industry ,urogenital system ,Obstetrics and Gynecology ,medicine.disease ,lcsh:Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,Neoplastic Syndrome ,Work-up ,Clinical trial ,Phantom hCG ,Oncology ,030220 oncology & carcinogenesis ,Paraneoplastic syndrome ,business ,hormones, hormone substitutes, and hormone antagonists - Abstract
There is a broad range of possible diagnoses for an elevated beta human chorionic gonadotropin (β-hCG) in the absence of intrauterine or ectopic pregnancy. When women of child bearing potential undergo evaluation for clinical trial, it is often unclear what course of evaluation to take when a pregnancy test is positive. We describe the clinical course of a patient with widely metastatic mucinous ovarian carcinoma with metastasis to the peritoneum, lymph nodes and liver. The patient was found to have a mildly elevated β-hCG during initial evaluation for clinical trial. Extensive work up for ectopic pregnancy, trophoblastic disease, and phantom β-hCG were negative. The patient's β-hCG levels continued to rise until initiation of therapy. She was treated on a phase I protocol with restaging scans revealing a partial response. The β-hCG was retested and declined in conjunction with her response, consistent with paraneoplastic β-hCG. Here, we propose a decision making algorithm to evaluate a patient with an elevated β-hCG undergoing assessment for clinical trial., Highlights • Evaluation of positive pregnancy test during clinical trial accrual is difficult. • We describe a case of a woman with metastatic ovarian cancer. • The patient was found to have an elevated β-hCG during clinical trial evaluation. • We propose a decision making algorithm to evaluate these patients.
- Published
- 2016
29. Reply to Reviewer 2
- Author
-
Jennifer Brooke
- Published
- 2019
- Full Text
- View/download PDF
30. Reply to Reviewer 1
- Author
-
Jennifer Brooke
- Published
- 2019
- Full Text
- View/download PDF
31. Germline DNA Sequencing Reveals Novel Mutations Predictive of Overall Survival in a Cohort of Patients with Pancreatic Cancer
- Author
-
Li Zhao, Michael J. Overman, Robert A. Wolff, Jennifer Brooke Goldstein, David R. Fogelman, Andrew Futreal, Xuemei Wang, Gauri R. Varadhachary, Milind Javle, Florencia McAllister, Rachna T. Shroff, and Yael Ghelman
- Subjects
0301 basic medicine ,Oncology ,Adult ,Male ,Cancer Research ,medicine.medical_specialty ,PALB2 ,Germline ,Cohort Studies ,03 medical and health sciences ,0302 clinical medicine ,Germline mutation ,CDKN2A ,Pancreatic cancer ,Internal medicine ,Antineoplastic Combined Chemotherapy Protocols ,medicine ,Biomarkers, Tumor ,Humans ,Genetic Predisposition to Disease ,Molecular Targeted Therapy ,CHEK2 ,Germ-Line Mutation ,Aged ,Aged, 80 and over ,business.industry ,BRCA1 Protein ,Cancer ,Sequence Analysis, DNA ,Middle Aged ,medicine.disease ,Prognosis ,Pancreatic Neoplasms ,Survival Rate ,030104 developmental biology ,030220 oncology & carcinogenesis ,Female ,business ,Fanconi Anemia Complementation Group N Protein ,ERCC4 - Abstract
Purpose: Family history of BRCA-related tumors may correlate with response to chemotherapy and overall survival (OS) in pancreatic cancer. The frequency of germline mutations has been reported in patients predominantly under the age of 60 or with strong family history. We examine the incidence of deleterious germline mutations and compare the chemotherapy responses and OS in an unselected group of patients with metastatic pancreatic cancer. Experimental Design: Patients with metastatic pancreatic cancer, who were seen at a single cancer center between 2010 and 2016, were included. Germline DNA was sequenced using a 263-gene panel to identify novel mutations (N = 133 MD Anderson cohort, N = 127 TCGA cohort). Chemotherapy response and OS were determined by review of medical records. Results: Deleterious germline mutations were identified in 26 of 133 patients (19.5%). Patients with DNA damage repair (DDR) gene mutations (ATM, BRCA1/2, CDKN2A, CHEK2, ERCC4, PALB2, n = 15) had an improved OS as compared with patients without (16.8 vs. 9.1 months, P = 0.03). Conversely, patients with other deleterious mutations had a trend toward worse OS. However, survival in the latter group was longer (P = NS) in those mutants initially treated with gemcitabine/nab-paclitaxel. A family history of multiple breast, ovarian, and pancreatic cancers was associated with DDR gene mutations and better survival. Conclusions: We have identified novel germline mutations that are prognostic for survival in patients with pancreatic cancer. We observe improved survival in patients with DDR gene mutations and worsened survival in patients with deleterious mutations in non-DDR genes.
- Published
- 2019
32. Interaction of convective organization with monsoon precipitation, atmosphere, surface and sea: The 2016 INCOMPASS field campaign in India
- Author
-
C. Reed, Sean Milton, Jonathan Evans, Muddu Sekhar, J. Kent, M. Smith, E. N. Rajagopal, John H. Marsham, Luis Garcia-Carreras, Ross Morrison, Jennifer Brooke, Mrudula Govindankutty, C. Chan, Rahul Nigam, B. K. Bhattacharya, D. MacLeod, H. C. Price, Danijel Belušić, A. Jayakumar, Dawood Desai, Geet George, A. Sattar, S. N. Tripathi, M. E. Brooks, Peter Willetts, Stuart Webster, Gill Martin, Ranju Madan, Christopher M. Taylor, Arathy Menon, Kieran M. R. Hunt, Ambrogio Volonté, B. New, D. Tiddeman, S. M. Rogers, Sandeep Pattnaik, S. J. Böing, Mithun Krishnan, Andrew G. Turner, Oliver Halliday, S. Bauguitte, Cathryn Fox, Justin M. Langridge, R. Carling, S. Rastall, G. Gratton, Jennifer K. Fletcher, Chandan Sarangi, Tirthankar Chakraborty, S. Devereau, G. Nott, Ashis K. Mitra, D. Anderson, S. Paleri, A. Wilson, G. S. Bhat, Jamie Trembath, J. Bowles, C. Woods, M. Pickering, R. C. Harlow, A. Woolley, Debbie O'Sullivan, Douglas J. Parker, and R. Smout-Day
- Subjects
Convection ,INCOMPASS ,Atmospheric Science ,Indian monsoon ,surface fluxes ,010504 meteorology & atmospheric sciences ,systematic model bias ,Field campaign ,observations ,tropical convection ,Monsoon ,Civil Engineering ,01 natural sciences ,010305 fluids & plasmas ,Atmosphere ,Meteorology and Climatology ,0103 physical sciences ,field campaign ,0105 earth and related environmental sciences ,Monsoon of South Asia ,Rain shadow ,Climatology ,BENGAL ,Environmental science ,Bay - Abstract
The INCOMPASS field campaign combines airborne and ground measurements of the 2016 Indian monsoon, towards the ultimate goal of better predicting monsoon rainfall. The monsoon supplies the majority of water in South Asia, but forecasting from days to the season ahead is limited by large, rapidly developing errors in model parametrizations. The lack of detailed observations prevents thorough understanding of the monsoon circulation and its interaction with the land surface: a process governed by boundary- layer and convective-cloud dynamics. INCOMPASS used the UK Facility for Airborne Atmospheric Measurements (FAAM) BAe-146 aircraft for the first project of this scale in India, to accrue almost 100 h of observations in June and July 2016. Flights from Lucknow in the northern plains sampled the dramatic contrast in surface and boundary-layer structures between dry desert air in the west and the humid environment over the northern Bay of Bengal. These flights were repeated in pre-monsoon and monsoon conditions. Flights from a second base at Bengaluru in southern India measured atmospheric contrasts from the Arabian Sea, over the Western Ghats mountains, to the rain shadow of southeast India and the south Bay of Bengal. Flight planning was aided by forecasts from bespoke 4 km convection-permitting limited-area models at the Met Office and India's NCMRWF. On the ground, INCOMPASS installed eddy- covariance flux towers on a range of surface types, to provide detailed measurements of surface fluxes and their modulation by diurnal and seasonal cycles. These data will be used to better quantify the impacts of the atmosphere on the land surface, and vice versa. INCOMPASS also installed ground instrumentation supersites at Kanpur and Bhubaneswar. Here we motivate and describe the INCOMPASS field campaign. We use examples from two flights to illustrate contrasts in atmospheric structure, in particular the retreating mid-level dry intrusion during the monsoon onset.
- Published
- 2019
33. Evaluating the Met Office Unified Model Global Atmosphere/Land 3.1 (GA/L3.1) and Global Atmosphere/Land 6.1 (GA/L6.1) land surface temperature. Outcomes of the SALSTICE campaign
- Author
-
Russell L. Scott, Martin Best, Mark Weeks, R. Chawn Harlow, Jennifer Brooke, and John M. Edwards
- Subjects
Atmosphere ,Depth sounding ,Data assimilation ,Diurnal cycle ,Environmental science ,Vegetation ,Moderate-resolution imaging spectroradiometer ,Numerical weather prediction ,Atmospheric sciences ,Orographic lift - Abstract
A limitation of the Met Office operational data assimilation scheme is that surface-sensitive infrared satellite sounding channels cannot be used during daytime periods where Numerical Weather Prediction (NWP) model background land surface temperature (LST) biases are greater than 2 K. The Met Office Unified Model (UM) has a significant cold LST bias in semi-arid regions when compared with satellite observations. UM LST biases were evaluated at global resolution and in a Limited Area Models (LAM) at 2.2 km resolution over the SALSTICE (Semi-Arid Land Surface Temperature and IASI Calibration Experiment) experimental domain in southeastern Arizona. This validation is in conjunction with eddy-covariance flux tower measurements. LST biases in the Global Atmosphere/Land 3.1 (GA/L3.1) configuration were largest in the mid-morning with respect to Terra (−13.6 ± 2.8 K at the Kendall Grassland site). The diurnal cycle of LST in Global Atmosphere/Land 6.1 (GA/L6.1) showed a significant improvement relative to GA/L3.1. The higher resolution LAM showed added value over the global configurations. The spatial distribution of the LST biases relative to Moderate Resolution Imaging Spectroradiometer (MODIS) and the modelled bare soil cover fraction were found to be moderately correlated (0.61 ± 0.08) during the daytime, which suggests that regions of cold LST bias are associated with low bare soil cover fraction. Coefficients of correlation with the shrub surface fractions followed the same trend as the bare soil cover fraction although with a less significant correlation (0.36 ± 0.09), and indicate that the sparse vegetation canopies in southeastern Arizona are not well represented in UM ancillary datasets. The x-component of the orographic slope was positively correlated with the LST bias (0.35 ± 0.06) and identified that regions of cold model LST bias are found on easterly slopes and regions of warm model LST bias are found on westerly slopes. An overestimate in the modelled turbulent heat and moisture fluxes at the eddy-covariance flux sites was found to be coincident with an underestimate in the ground heat flux.
- Published
- 2018
- Full Text
- View/download PDF
34. Addressing adrenal incidentalomas (AIs): a snapshot of the investigation of AIs in a tertiary endocrine centre and the effect of implementing a local management pathway
- Author
-
Mohammed Rahman, Jennifer Brooke, Janet Lewis, Gala Gutierrez Buey, Anna Scholz, Carolyn Tang, Eleanor Gait-Carr, Andrew Lansdown, Ruth Ellis-Owen, and Aled Rees
- Subjects
medicine.medical_specialty ,business.industry ,medicine ,Snapshot (computer storage) ,Endocrine system ,Intensive care medicine ,business - Published
- 2018
- Full Text
- View/download PDF
35. Unusual vertical structure of the Saharan Air Layer and giant dust particles during AER-D
- Author
-
Franco Marenco, Claire Ryder, Victor Estellés, Debbie O'Sullivan, Jennifer Brooke, and Luke Orgill
- Abstract
The Saharan Air Layer (SAL) in the summertime Eastern Atlantic is typically well-mixed and 3–4 km deep, overlying the marine boundary layer (MBL). In this paper, we show experimental evidence that at times a very different structure can be observed. During the AER-D airborne campaign in August 2015, the typical structure described above was observed most of the times, and was associated with a moderate dust content yielding an Aerosol Optical Depth (AOD) of 0.3–0.4 at 355 nm. In an intense event, however, an unprecedented vertical structure was observed close to the Eastern boundary of the basin, displaying an uneven vertical distribution and a very large AOD (1.5–2), with most of the dust in a much lower level than usual (0.3–2 km). Estimated dust concentrations and column loadings spanned 300–5500 μg m−3 and 0.8–7.5 g m−2, respectively. The shortwave direct radiative impact of the intense dust event has been evaluated to be as large as −260 ± 30 and −120 ± 15 W m−2 at the surface and top of atmosphere, respectively. This event was also correlated with anomalous lightning activity in the Canary Islands. In all cases, our measurements detected a broad distribution of aerosol sizes, ranging from ~ 0.1 to ~ 80 μm (diameter), thus highlighting the presence of giant particles. Giant dust particles were also found in the MBL. We note that most aerosol models may miss the giant particles due to the fact that they use size bins up to 10–25 μm. The unusual vertical structure and the giant particles may have implications for dust transport over the Atlantic during intense events, and may affect the estimate of dust deposited to the Ocean. We believe that future campaigns should focus more on events with high aerosol load, and that instrumentation capable of detecting giant particles will be key to dust observations in this part of the world.
- Published
- 2018
- Full Text
- View/download PDF
36. High Prevalence of Hereditary Cancer Syndromes and Outcomes in Adults with Early-Onset Pancreatic Cancer
- Author
-
Lei Feng, Ester Borras, Jennifer Brooke Goldstein, P. Andrew Futreal, Sarah A. Bannon, Gauri R. Varadhachary, Maureen E. Mork, Florencia McAllister, Matthew H.G. Katz, Merve Hasanov, Maria Fernanda Montiel, David R. Fogelman, Anirban Maitra, Wenli Dong, and Eduardo Vilar
- Subjects
0301 basic medicine ,Oncology ,Male ,Cancer Research ,endocrine system diseases ,DNA Mutational Analysis ,DNA Mismatch Repair ,Germline ,Cohort Studies ,0302 clinical medicine ,Risk Factors ,Prevalence ,Medicine ,Age of Onset ,Medical History Taking ,Early onset ,Aged, 80 and over ,High prevalence ,medicine.diagnostic_test ,BRCA1 Protein ,Age Factors ,Middle Aged ,Hereditary Cancer Syndromes ,030220 oncology & carcinogenesis ,Cohort ,Female ,Carcinoma, Pancreatic Ductal ,Adult ,medicine.medical_specialty ,Pancreatic ductal adenocarcinoma ,Genetic counseling ,Genetic Counseling ,Article ,03 medical and health sciences ,Germline mutation ,Neoplastic Syndromes, Hereditary ,Pancreatic cancer ,Internal medicine ,Humans ,Genetic Predisposition to Disease ,Genetic testing ,Aged ,BRCA2 Protein ,business.industry ,Cancer ,Odds ratio ,medicine.disease ,Survival Analysis ,digestive system diseases ,Pancreatic Neoplasms ,030104 developmental biology ,business - Abstract
Introduction: We aimed to determine the prevalence and landscape of germline mutations among patients with young-onset pancreatic ductal adenocarcinoma (PDAC) as well as their influence in prognosis. Methods: Patients from two cohorts were studied, the high-risk cohort (HRC), which included 584 PDAC patients who received genetic counseling at The University of Texas MD Anderson Cancer Center, and a general cohort (GC) with 233 metastatic PDAC patients. We defined germline DNA sequencing on 13 known pancreatic cancer susceptibility genes. The prevalence and landscape of mutations were determined, and clinical characteristics including survival were analyzed. Results: A total of 409 patients underwent genetic testing (277 from HRC and 132 from GC). As expected, the HRC had higher prevalence of germline mutations compared with the GC: 17.3% versus 6.81%. The most common mutations in both cohorts were in BRCA1/2 and mismatch-repair (MMR) genes. Patients younger than 60 years old had significantly higher prevalence of germline mutations in both the HRC [odds ratios (OR), 1.93 ± 1.03–3.70, P = 0.039] and GC (4.78 ± 1.10–32.95, P = 0.036). Furthermore, PDAC patients with germline mutations in the GC had better overall survival than patients without mutations (HR, 0.44; 95% CI of HR, 0.25–0.76, P = 0.030). Discussion: Germline mutations are highly prevalent in patients with PDAC of early onset and can be predictive of better outcomes. Considering emerging screening strategies for relatives carrying susceptibility genes as well as impact on therapy choices, genetic counseling and testing should be encouraged in PDAC patients, particularly those of young onset. Cancer Prev Res; 11(11); 679–86. ©2018 AACR.
- Published
- 2018
37. Studies on mineral dust using airborne lidar, ground-based remote sensing, and in situ instrumentation
- Author
-
Eleni Marinou, Victor Estellés, Helen Smith, Debbie O'Sullivan, Emmanouil Proestakis, Claire L. Ryder, Vassilis Amiridis, Franco Marenco, Alexandra Tsekeri, Yaswant Pradhan, Sara Segura, Zbigniew Ulanowski, Jennifer Brooke, and Joelle Buxmann
- Subjects
In situ instrumentation ,Lidar ,010504 meteorology & atmospheric sciences ,Remote sensing (archaeology) ,Physics ,QC1-999 ,Creative commons ,Mineral dust ,010502 geochemistry & geophysics ,01 natural sciences ,License ,0105 earth and related environmental sciences ,Remote sensing - Abstract
In August 2015, the AER-D campaign made use of the FAAM research aircraft based in Cape Verde, and targeted mineral dust. First results will be shown here. The campaign had multiple objectives: (1) lidar dust mapping for the validation of satellite and model products; (2) validation of sunphotometer remote sensing with airborne measurements; (3) coordinated measurements with the CATS lidar on the ISS; (4) radiative closure studies; and (5) the validation of a new model of dustsonde.
- Published
- 2018
38. Reviving the Dead Zone: The Creation and Development of ambiguous gaps
- Author
-
Graham, Jennifer Brooke
- Subjects
Dance ,jazz ,creative process ,improvisation ,Bartenieff ,Laban - Abstract
After identifying a pattern of creating product-driven work and feeling deeply dissatisfied and limited as a result, dance artist Jen Graham committed herself to releasing habit, following her instincts, and trusting the process of unfolding to find a new creative process and create her Master’s thesis work, ambiguous gaps. Launching an investigation into the physical relationships between people through an exploration of the intersections of dance improvisation, jazz dance values, and the Laban/Bartenieff Movement System, Graham endeavored to illuminate the physical and metaphoric gaps which must be navigated to create, shift, and maintain connection. This text details her journey through inspiration, research, creation, performance, and reflection.
- Published
- 2018
- Full Text
- View/download PDF
39. Supplementary material to 'Aircraft and ground measurements of dust aerosols over the West Africa coast in summer 2015 during ICE-D and AER-D'
- Author
-
Dantong Liu, Jonathan W. Taylor, Jonathan Crosier, Nicholas Marsden, Keith N. Bower, Gary Lloyd, Claire L. Ryder, Jennifer Brooke, Richard Cotton, Franco Marenco, Alan Blyth, Zhiqiang Cui, Victor Estelles, Martin Gallagher, Hugh Coe, and Tom W. Choularton
- Published
- 2017
- Full Text
- View/download PDF
40. Prognostic Significance of Tumor-Infiltrating Lymphocytes in Patients With Pancreatic Ductal Adenocarcinoma Treated With Neoadjuvant Chemotherapy
- Author
-
Matthew H.G. Katz, Jason B. Fleming, Anirban Maitra, Ignacio I. Wistuba, Hua Wang, Huamin Wang, Daniel M. Halperin, Jeffrey E. Lee, Nazila Hejazi, Robert A. Wolff, Jennifer Brooke Goldstein, Jorge Blando, Asif Rashid, Gauri R. Varadhachary, Jaime Rodriguez-Canales, and Reza Nejati
- Subjects
0301 basic medicine ,Oncology ,Adult ,Male ,medicine.medical_specialty ,Endocrinology, Diabetes and Metabolism ,medicine.medical_treatment ,Disease-Free Survival ,Article ,Pancreaticoduodenectomy ,03 medical and health sciences ,0302 clinical medicine ,Endocrinology ,Lymphocytes, Tumor-Infiltrating ,Internal medicine ,Pancreatic cancer ,Internal Medicine ,Carcinoma ,medicine ,Humans ,Neoadjuvant therapy ,Aged ,Aged, 80 and over ,Chemotherapy ,Hepatology ,business.industry ,Tumor-infiltrating lymphocytes ,Hazard ratio ,Middle Aged ,medicine.disease ,Prognosis ,Combined Modality Therapy ,Confidence interval ,Neoadjuvant Therapy ,Pancreatic Neoplasms ,030104 developmental biology ,Chemotherapy, Adjuvant ,030220 oncology & carcinogenesis ,Immunohistochemistry ,Female ,business ,Carcinoma, Pancreatic Ductal - Abstract
OBJECTIVES The aim of this study was to examine tumor-infiltrating lymphocytes (TILs) and their prognostic value in patients with pancreatic ductal adenocarcinoma (PDAC) after neoadjuvant therapy. METHODS Intratumoral CD4, CD8, and FOXP3 lymphocytes were examined by immunohistochemistry using a computer-assisted quantitative analysis in 136 PDAC patients who received neoadjuvant therapy and pancreaticoduodenectomy. The results were correlated with clinicopathological parameters and survival. RESULTS High CD4 TILs in treated PDAC were associated with high CD8 TILs (P = 0.003), differentiation (P = 0.04), and a lower frequency of recurrence (P = 0.02). Patients with high CD4 TILs had longer disease-free survival and overall survival (OS) than did patients with low CD4 TILs (P < 0.01). The median OS of patients with a high CD8/FOXP3 lymphocyte ratio (39.5 [standard deviation, 6.1] months) was longer than that of patients with a low CD8/FOXP3 lymphocyte ratio (28.3 [standard deviation, 2.3] months; P = 0.01). In multivariate analysis, high CD4 TILs were an independent prognostic factor for disease-free survival (hazard ratio, 0.49; 95% confidence interval, 0.30-0.81; P = 0.005) and OS (hazard ratio, 0.54; 95% confidence interval, 0.33-0.89; P = 0.02). CONCLUSIONS High level of CD4 lymphocytes is associated with tumor differentiation and lower recurrence and is an independent prognostic factor for survival in PDAC patients treated with neoadjuvant therapy.
- Published
- 2017
41. Multicenter retrospective analysis of metastatic colorectal cancer (CRC) with high-level microsatellite instability (MSI-H)
- Author
-
Scott Kopetz, Jeanne Tie, Jennifer Brooke Goldstein, Jayesh Desai, Ben Tran, Peter Gibbs, Shu Fen Wong, Eduardo Vilar, Hui-Li Wong, Russell Broaddus, Joe Ensor, and Michael J. Overman
- Subjects
Adult ,Male ,Proto-Oncogene Proteins B-raf ,Oncology ,congenital, hereditary, and neonatal diseases and abnormalities ,medicine.medical_specialty ,Colorectal cancer ,Mutation, Missense ,Kaplan-Meier Estimate ,Young Adult ,Internal medicine ,medicine ,Adjuvant therapy ,Humans ,Progression-free survival ,neoplasms ,Aged ,Proportional Hazards Models ,Retrospective Studies ,Aged, 80 and over ,business.industry ,Liver Neoplasms ,nutritional and metabolic diseases ,Microsatellite instability ,Retrospective cohort study ,Original Articles ,Hematology ,Middle Aged ,Prognosis ,medicine.disease ,Combined Modality Therapy ,Chemotherapy regimen ,digestive system diseases ,Oxaliplatin ,Irinotecan ,Treatment Outcome ,Multivariate Analysis ,Female ,Microsatellite Instability ,Colorectal Neoplasms ,business ,medicine.drug - Abstract
The microsatellite instability-high (MSI-H) phenotype, present in 15% of early colorectal cancer (CRC), confers good prognosis. MSI-H metastatic CRC is rare and its impact on outcomes is unknown. We describe survival outcomes and the impact of chemotherapy, metastatectomy, and BRAF V600E mutation status in the largest reported cohort of MSI-H metastatic colorectal cancer (CRC).A retrospective review of 55 MSI-H metastatic CRC patients from two institutions, Royal Melbourne Hospital (Australia) and The University of Texas MD Anderson Cancer Center (United States), was conducted. Statistical analyses utilized Kaplan-Meier method, Log-rank test, and Cox proportional hazards models.Median age was 67 years (20-90), 58% had poor differentiation, and 45% had stage IV disease at presentation. Median overall survival (OS) from metastatic disease was 15.4 months. Thirteen patients underwent R0/R1 metastatectomies, with median OS from metastatectomy 33.8 months. Thirty-one patients received first-line systemic chemotherapy for metastatic disease with median OS from the start of chemotherapy 11.5 months. No statistically significant difference in progression-free survival or OS was seen between fluoropyrimidine, oxaliplatin, or irinotecan based chemotherapy. BRAF V600E mutation was present in 14 of 47 patients (30%). BRAF V600E patients demonstrated significantly worse median OS; 10.1 versus 17.3 months, P = 0.03. In multivariate analyses, BRAF V600E mutants had worse OS (HR 4.04; P = 0.005), while patients undergoing metastatectomy (HR 0.11; P =0.001) and patients who initially presented as stage IV disease had improved OS (HR 0.27; P = 0.003).Patients with MSI-H metastatic CRC do not appear to have improved outcomes. BRAF V600E mutation is a poor prognostic factor in MSI-H metastatic CRC.
- Published
- 2014
- Full Text
- View/download PDF
42. High prevalence of hereditary cancer syndromes and outcomes in adults with early-onset pancreatic cancer.
- Author
-
Montiel, Maria Fernanda, primary, Bannon, Sarah A., additional, Goldstein, Jennifer Brooke, additional, Mork, Maureen E, additional, Quesada, Pompeyo Rafael, additional, Dong, Wenli, additional, Feng, Lei, additional, Borras, Ester, additional, Maitra, Anirban, additional, Varadhachary, Gauri R., additional, Katz, Matthew H. G., additional, Futreal, Andrew, additional, Fogelman, David R., additional, Vilar-Sanchez, Eduardo, additional, and McAllister, Florencia, additional
- Published
- 2018
- Full Text
- View/download PDF
43. AMG 900, pan-Aurora kinase inhibitor, preferentially inhibits the proliferation of breast cancer cell lines with dysfunctional p53
- Author
-
Anne Lise Børresen-Dale, Amrita J. Desai, Dylan Conklin, Judy Dering, Ondrej Kalous, Lee Anderson, Mark A. Eckardt, Teodora Kolarova, Richard S. Finn, Dennis J. Slamon, Ming Lu, Jennifer Brooke Goldstein, Charles Ginther, and Anita Langerød
- Subjects
Cyclin-Dependent Kinase Inhibitor p21 ,Cancer Research ,DNA Copy Number Variations ,DNA Mutational Analysis ,Aurora inhibitor ,Gene Expression ,Antineoplastic Agents ,Apoptosis ,Breast Neoplasms ,Biology ,medicine.disease_cause ,Cell Line, Tumor ,medicine ,Aurora Kinase B ,Humans ,Aurora Kinase C ,Aurora Kinase A ,Cell Proliferation ,Mutation ,Kinase ,Cell Cycle ,Cancer ,medicine.disease ,In vitro ,Oncology ,Cell culture ,Immunology ,Cancer research ,Phthalazines ,Female ,Drug Screening Assays, Antitumor ,Tumor Suppressor Protein p53 ,Immortalised cell line - Abstract
Aurora kinases play important roles in cell division and are frequently overexpressed in human cancer. AMG 900 is a novel pan-Aurora kinase inhibitor currently being tested in Phase I clinical trials. We aimed to evaluate the in vitro activity of AMG 900 in a panel of 44 human breast cancer and immortalized cell lines and identify predictors of response. AMG 900 inhibited proliferation at low nanomolar concentrations in all cell lines tested. Response was further classified based on the induction of lethality. 25 cell lines were classified as highly sensitive (lethality at 10 nM of AMG 900 10 %), 19 cell lines as less sensitive to AMG 900 (lethality at 10 nM of AMG 900 10 %). Traditional molecular subtypes of breast cancer did not predict for this differential response. There was a weak association between AURKA amplification and response to AMG 900 (response ratio = 2.53, p = 0.09). mRNA expression levels of AURKA, AURKB, and AURKC and baseline protein levels of Aurora kinases A and B did not significantly associate with response. Cell lines with TP53 loss of function mutations (RR = 1.86, p = 0.004) and low baseline p21 protein levels (RR = 2.28, p = 0.0004) were far more likely to be classified as highly sensitive to AMG 900. AMG 900 induced p53 and p21 protein expression in cell lines with wt TP53. AMG 900 caused the accumulation of cells with4 N DNA content in a majority of cell lines independently of sensitivity and p53 status. AMG 900 induced more pronounced apoptosis in highly sensitive p53-dysfunctional cell lines. We have found that AMG 900 is highly active in breast cancer cell lines and that TP53 loss of function mutations as well as low baseline expression of p21 protein predict strongly for increased sensitivity to this compound in vitro.
- Published
- 2013
- Full Text
- View/download PDF
44. The Cirrus Coupled Cloud-Radiation Experiment-II
- Author
-
Jonathan Murray, Stuart Fox, Sebastian O’Shea, Jenna Thornton, Jamie Trembath, Jacob Fugal, Juliet Pickering, Cathryn Fox, Jennifer Brooke, Chawn Harlow, Keith Bower, Joseph Ulanowski, Anthony Baran, Helen Brindley, Georg Ritter, and Alan Last
- Subjects
Microphysics ,Meteorology ,business.industry ,Environmental science ,Cirrus ,Cloud computing ,Radiation ,business ,Field campaign - Abstract
A cirrus study has been undertaken during the second Cirrus Cloud-Radiation Experiment field campaign based in Prestwick, Scotland. We report on a case study describing the radiation and microphysics measurements and cloud modelling work.
- Published
- 2016
- Full Text
- View/download PDF
45. Abstract 2916: The clonal evolution of glioblastoma
- Author
-
Goldstein, Jennifer Brooke, primary, Ezhilarasan, Ravesanker, additional, Jaffari, Mona, additional, Carugo, Alessandro, additional, Draetta, Giulio, additional, Verhaak, Roeland, additional, Seth, Sahil, additional, Sulman, Erik, additional, and Futreal, Phillip Andrew, additional
- Published
- 2017
- Full Text
- View/download PDF
46. Characterization of germline genomic alterations in familial pancreas cancer.
- Author
-
Goldstein, Jennifer Brooke, primary, Zhao, Li, additional, Javle, Milind M., additional, Overman, Michael J., additional, Shroff, Rachna T., additional, Varadhachary, Gauri R., additional, Wolff, Robert A., additional, Futreal, Phillip Andrew, additional, and Fogelman, David R., additional
- Published
- 2017
- Full Text
- View/download PDF
47. The art of natality : Virginia Woolf's and Kathe Kollwitz's aesthetics of becoming
- Author
-
Jennifer Brooke Goldberg
- Subjects
Aesthetics ,media_common.quotation_subject ,Modern literature ,Art history ,Art ,Creativity ,media_common - Published
- 2015
- Full Text
- View/download PDF
48. Advances in understanding mineral dust and boundary layer processes over the Sahara from Fennec aircraft observations
- Author
-
Sebastian Engelstaedter, Franco Marenco, John H. Marsham, Servanne Chevaillier, Aurélien Bourdon, James Banks, Harald Sodemann, M. Bart, Martin C. Todd, Cyrille Flamant, Angela Dean, Christopher S. Allen, Ellie Highwood, J. Kent, Paola Formenti, Debbie O'Sullivan, Claire L. Ryder, James B. McQuaid, Richard Washington, Jennifer Brooke, Luis Garcia-Carreras, Allan Woolley, James Dorsey, Kerstin Schepanski, Kate Szpek, Douglas J. Parker, Cécile Kocha, Jonathan Crosier, Helen Brindley, Phil Rosenberg, Eoghan Darbyshire, Carolina Cavazos-Guerra, Victor Estellés, James Trembath, Natural Environment Research Council (NERC), Department of Meteorology [Reading], University of Reading (UOR), School of Earth and Environment [Leeds] (SEE), University of Leeds, National Centre for Atmospheric Science [Leeds] (NCAS), TROPO - LATMOS, Laboratoire Atmosphères, Milieux, Observations Spatiales (LATMOS), Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS), School of Geography and the Environment [Oxford] (SoGE), University of Oxford [Oxford], Space and Atmospheric Physics Group [London], Blackett Laboratory, Imperial College London-Imperial College London, Department of Geography [Brighton], University of Sussex, United Kingdom Met Office [Exeter], Departamento de Física Fundamental y Experimental, Electrónica y Sistemas, Universidad de La Laguna [Tenerife - SP] (ULL), Laboratoire Interuniversitaire des Systèmes Atmosphériques (LISA (UMR_7583)), Institut national des sciences de l'Univers (INSU - CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Université Paris-Est Créteil Val-de-Marne - Paris 12 (UPEC UP12)-Centre National de la Recherche Scientifique (CNRS), Institute for Atmospheric and Climate Science [Zürich] (IAC), Eidgenössische Technische Hochschule - Swiss Federal Institute of Technology [Zürich] (ETH Zürich), Department of Geography [Cambridge, UK], University of Cambridge [UK] (CAM), Service des Avions Français Instrumentés pour la Recherche en Environnement (SAFIRE), Centre National de la Recherche Scientifique (CNRS)-Météo France-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES), National Centre for Atmospheric Science [Manchester] (NCAS), University of Manchester [Manchester], Facility for Airborne Atmospheric Measurements ([Cranfield] (FAAM), Natural Environment Research Council (NERC)-Natural Environment Research Council (NERC), University of Oxford, Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Météo-France, School of Geography and the Environment [Oxford], Université Paris-Est Créteil Val-de-Marne - Paris 12 (UPEC UP12)-Institut national des sciences de l'Univers (INSU - CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), Eidgenössische Technische Hochschule - Swiss Federal Institute of Technology in Zürich [Zürich] (ETH Zürich), and Institut national des sciences de l'Univers (INSU - CNRS)-Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)
- Subjects
Atmospheric Science ,010504 meteorology & atmospheric sciences ,Meteorology ,Planetary boundary layer ,CONVECTIVE SYSTEM ,Environmental Sciences & Ecology ,AEROSOL OPTICAL-PROPERTIES ,Mineral dust ,010502 geochemistry & geophysics ,Atmospheric sciences ,01 natural sciences ,COARSE MODE ,lcsh:Chemistry ,Haboob ,Dust storm ,0201 Astronomical and Space Sciences ,Meteorology & Atmospheric Sciences ,Satellite imagery ,SOUTHERN MOROCCO ,0105 earth and related environmental sciences ,[PHYS.PHYS.PHYS-AO-PH]Physics [physics]/Physics [physics]/Atmospheric and Oceanic Physics [physics.ao-ph] ,GB ,Science & Technology ,HEAT LOW ,AIRBORNE OBSERVATIONS ,RETRIEVAL PRODUCTS ,Ozone depletion ,lcsh:QC1-999 ,PARTICLE-SIZE ,AERONET ,Boundary layer ,lcsh:QD1-999 ,13. Climate action ,[SDU.STU.CL]Sciences of the Universe [physics]/Earth Sciences/Climatology ,Physical Sciences ,WEST-AFRICAN MONSOON ,Environmental science ,0401 Atmospheric Sciences ,NORTH-ATLANTIC OCEAN ,Life Sciences & Biomedicine ,lcsh:Physics ,Environmental Sciences - Abstract
The Fennec climate programme aims to improve understanding of the Saharan climate system through a synergy of observations and modelling. We present a description of the Fennec airborne observations during 2011 and 2012 over the remote Sahara (Mauritania and Mali) and the advances in the understanding of mineral dust and boundary layer processes they have provided. Aircraft instrumentation aboard the UK FAAM BAe146 and French SAFIRE (Service des Avions Français Instrumentés pour la Recherche en Environnement) Falcon 20 is described, with specific focus on instrumentation specially developed for and relevant to Saharan meteorology and dust. Flight locations, aims and associated meteorology are described. Examples and applications of aircraft measurements from the Fennec flights are presented, highlighting new scientific results delivered using a synergy of different instruments and aircraft. These include (1) the first airborne measurement of dust particles sizes of up to 300 microns and associated dust fluxes in the Saharan atmospheric boundary layer (SABL), (2) dust uplift from the breakdown of the nocturnal low-level jet before becoming visible in SEVIRI (Spinning Enhanced Visible Infra-Red Imager) satellite imagery, (3) vertical profiles of the unique vertical structure of turbulent fluxes in the SABL, (4) in situ observations of processes in SABL clouds showing dust acting as cloud condensation nuclei (CCN) and ice nuclei (IN) at −15 °C, (5) dual-aircraft observations of the SABL dynamics, thermodynamics and composition in the Saharan heat low region (SHL), (6) airborne observations of a dust storm associated with a cold pool (haboob) issued from deep convection over the Atlas Mountains, (7) the first airborne chemical composition measurements of dust in the SHL region with differing composition, sources (determined using Lagrangian backward trajectory calculations) and absorption properties between 2011 and 2012, (8) coincident ozone and dust surface area measurements suggest coarser particles provide a route for ozone depletion, (9) discrepancies between airborne coarse-mode size distributions and AERONET (AERosol Robotic NETwork) sunphotometer retrievals under light dust loadings. These results provide insights into boundary layer and dust processes in the SHL region – a region of substantial global climatic importance.
- Published
- 2015
- Full Text
- View/download PDF
49. Fitting control theoretic smoothing splines to very large data sets
- Author
-
Emerson, Jennifer Brooke, Aulisa, Eugenio, Drager, Lance D., Martin, Clyde F., and Ghosh, Bijoy K.
- Subjects
Control theoretic smoothing splines ,Large data sets - Abstract
In this dissertation we present several methods for fitting control theoretic splines to large data sets. In addition, we also present a method for fitting control theoretic splines to data sets containing position and derivative data. Applying control theoretic splines to a data set requires the inversion of matrices whose dimensions are the same as the number of data points in the data set. Methods for reducing the dimensions of the matrices are necessary if one wishes to fit a control theoretic spline to a large data set. Partitioning a data set or randomly selecting a small number of data points from the original set allow for the necessary reduction. Once the reduction is made there are several options for finding the optimal control function and optimal smoothed data needed to calculate the control theoretic spline.
- Published
- 2015
50. Abstract 2916: The clonal evolution of glioblastoma
- Author
-
Alessandro Carugo, Roeland Verhaak, Giulio Draetta, P.A. Futreal, Mona Jaffari, Ravesanker Ezhilarasan, Jennifer Brooke Goldstein, Erik P. Sulman, and Sahil Seth
- Subjects
Cancer Research ,Oncology ,Cancer research ,medicine ,Biology ,medicine.disease ,Somatic evolution in cancer ,Glioblastoma - Abstract
Background: Glioblastoma (GBM) is an aggressive cancer that often recurs despite multimodal therapy. Median survival is 12-15 months. Genomic profiling studies have shown marked tumor heterogeneity with distinct mutations among treated and untreated samples. The Cancer Genome Atlas (TCGA), revealed that mutations in TP53, CDKN2A, PTEN, EGFR and NF1 are predominant in untreated tumors. Of 19 patients who progressed on therapy, seven samples were hypermutated with mutations in mismatch repair proteins, mainly MSH6. We proposed to use the Cellecta Lentiviral-based tagging library, a novel model system to assess the role of intratumor heterogeneity (ITH) in the presumptive tumor-initiating fraction of primary GBM and in the development of resistance to temozolomide (TMZ). From a pool of 30,000,000 barcodes, the system enables the genetic integration of a unique barcode sequence into each cell. Each barcode can be quantitatively tracked via next-generation sequencing, allowing for dynamic monitoring of the subclonal architecture. Methods: GSC 272 and 627 (sensitive and resistant to TMZ) were derived from core biopsies of GBM patients. Cells were transduced with a lentiviral vector containing luciferase. Cells were expanded and infected with the Cellecta Lentiviral library. Multiplicity of infection was determined. Transduced cells were injected into B6.Cg-Foxn1nu/J mice brains using a guide screw system. Half of the mice were treated with TMZ via gavage at two weeks. Brain tumors were removed and total DNA was extracted. Barcode inserts were amplified and the Illumina Sequencing platform was used for barcode quantification. Additionally, whole exome sequencing was performed to assess mutation status. Results: Confirmation of luciferase signal has been performed using a Luciferase Reporter Assay. Multiplicity of infection was found to be 0.15 and 1 for GSC 6-27 and 272 respectively. Initial methylation studies showed GSC 272 to have methylation of MGMT while GSC 627 did not. There was no difference in OS in the TMZ Resistant (GSC 627) untreated vs. treated cohort (with a median OS of 55 days in both groups (N= 23 vs 25 respectively, P= 0.563). TMZ Sensitive (GSC 272) untreated mice did not survive as long as the treated cohort (N= 24 vs. 25, Median OS 43 vs. 206 days, P= 4.61e-09). Barcode and whole exome sequencing results is currently being analyzed. Conclusions: The Cellecta lentiviral tagging system is an innovative way to track ITH and clonal evolution in glioblastoma orthotopic models. We hope to discover novel insights into TMZ treatment response and resistance. Citation Format: Jennifer Brooke Goldstein, Ravesanker Ezhilarasan, Mona Jaffari, Alessandro Carugo, Giulio Draetta, Roeland Verhaak, Sahil Seth, Erik Sulman, Phillip Andrew Futreal. The clonal evolution of glioblastoma [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2017; 2017 Apr 1-5; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2017;77(13 Suppl):Abstract nr 2916. doi:10.1158/1538-7445.AM2017-2916
- Published
- 2017
- Full Text
- View/download PDF
Catalog
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.