Larry T. Cook’s research while affiliated with University of Kansas and other places

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Publications (95)


Figure 1 | Kidney growth in the Consortium for Radiologic Imaging Studies of Polycystic Kidney Disease cohort, stratified by Irazabal class. Based on baseline age and height-adjusted total kidney volume (htTKV), patients were assigned to 1 of 5 Irazabal classes (A-E, color coded as shown). The htTKV values determined over the course of the study are plotted, with each line representing an individual patient.
Figure 2 | Trajectories of measured glomerular filtration rate (GFR) fitted to patients in each Irazabal class (A-E) in the Consortium for Radiologic Imaging Studies of Polycystic Kidney Disease study. Individual patient data are represented by gray dots connected by straight lines in different colors. The red curved lines represent the best fit to a polynomial mixed model.
Figure 3 | Summary plot of glomerular filtration rate (GFR) trajectories from the Consortium for Radiologic Imaging Studies of Polycystic Kidney Disease cohort, divided by Irazabal class, without imposing an arbitrary model. Data points represent mean (AE SEM) GFR for each 5-year range of age.
Figure 4 | Validation of the polynomial trajectory model in patients from the HALT study. Individual patient data from HALT study A are represented by straight lines in different colors. The predicted estimated glomerular filtration rate (GFR) trajectory for each Irazabal class, using the model developed with the Consortium for Radiologic Imaging Studies of Polycystic Kidney Disease cohort, is depicted by the superimposed red curved lines.
Figure 5 | Effect of gene type and test of mediation model. (a) Trajectories of glomerular filtration rate (GFR) estimated from modeling the entire Consortium for Radiologic Imaging Studies of Polycystic Kidney Disease cohort, using gene type as a predictor variable (model 1 in Table 3). (b) Diagram of unmediated model. (c) Diagram of mediated model. X, causal variable; Y, outcome variable; M, mediator variable. Path a represents the association between X and M, and path b represents the association between M and Y. Path c represents the association between X and Y (total effect), and path c' represents the association between X and Y after controlling for M (direct effect). The effect mediated by Irazabal class (c-c'), is called the indirect effect and is equal to the product of the coefficients, ab.

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Long-term trajectory of kidney function in autosomal-dominant polycystic kidney disease
  • Article
  • Full-text available

March 2019

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853 Reads

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76 Citations

Kidney International

Alan S.L. Yu

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William M. Bennett

Autosomal dominant polycystic kidney disease (ADPKD) is characterized by cyst and kidney growth, which is hypothesized to cause loss of functioning renal mass and eventually end-stage kidney disease. However, the time course of decline in glomerular filtration rate (GFR) is poorly defined. The Consortium for Radiologic Imaging Studies of Polycystic Kidney Disease study is a 14-year observational cohort study of 241 adults with ADPKD. As an estimate of the rate of kidney growth, participants were stratified into 5 subclasses based on baseline age and magnetic resonance imaging measurements of total kidney volume (TKV) according to the method of Irazabal. GFR trajectories spanning over four decades of life were reconstructed and fitted using mixed polynomial models, which were validated using data from the HALT-PKD study. GFR trajectories were nonlinear, with a period of relative stability in most participants, followed by accelerating decline. The shape and slope of these trajectories were strongly associated with baseline Irazabal class. Patients with PKD1 mutations had a steeper GFR decline than patients with PKD2 mutations or with no detected mutation, largely mediated by the effect of genotype on Irazabal class. Thus, GFR decline in ADPKD is nonlinear, and its trajectory throughout adulthood can be predicted from a single measurement of kidney volume. These models can be used for clinical prognostication, clinical trial design, and patient selection for clinical interventions. Our findings support a causal link between growth in kidney volume and GFR decline, adding support for the use of TKV as a surrogate endpoint in clinical trials.

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Table 1 . Change in total kidney volume, cyst count, and GFR
Figure 2. | Cyst distribution in MR scan sections. (A) Histogram from magnetic resonance imaging measurements of cyst count and diameter. Pattern of cyst distribution is similar among eight subjects. (B) Prevalence of cysts in midcoronal renal magnetic resonance sections of eight subjects. Arrow indicates that 50% of the diameter measurements were less than 5.2 mm.
Table 2 . Cyst counts and diameters determined in magnetic resonance and histology sections
Figure 3. | Microcysts within early-stage autosomal dominant polycystic kidney disease. Representative images of kidney sections from patients with early-stage autosomal dominant polycystic kidney disease (A, K215; B and C, K001; D, K106). Sections stained by (A) hematoxylin and eosin and (B–D) periodic acid-Schiff methods showed multiple cysts measuring less than 1 mm in diameter within otherwise relatively preserved parenchyma. The small cysts were present within both (A, C, and D) the cortex and (B) the medulla. Scale bar, 200 m m. 
Detected Renal Cysts Are Tips of the Iceberg in Adults with ADPKD

May 2012

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508 Reads

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37 Citations

Clinical Journal of the American Society of Nephrology

In autosomal dominant polycystic kidney disease, progressive renal enlargement secondary to expanding cysts is a hallmark. The total cyst load and range of cyst diameters are unknown. The purpose of this study was to quantify the total number and range of diameters of individual cysts in adults with preserved GFR. A retrospective, morphometric analysis of renal cyst number and diameter using magnetic resonance images from eight adult autosomal dominant polycystic kidney disease patients was performed at baseline and after 6.9 years. Cyst number and diameter were measured in microscopic sections of nephrectomy specimens from five different adults. The diameters of 1010 cysts ranged from 0.9 to 77.1 mm in baseline T2 magnetic resonance images, and the mean total number of cysts increased from 682 to 1002 in 6.9 years. However, magnetic resonance imaging detects only cysts above the lower limit of detection. In 405 cysts measured in nephrectomy specimens, 70% had diameters <0.9 mm. Cyst counts by magnetic resonance in eight subjects compared with histology revealed approximately 62 times more cysts below the limit of magnetic resonance imaging detection than above it. This study presents quantitative data indicating that renal cysts develop in a minority of renal tubules. Increased numbers detected by magnetic resonance imaging are caused primarily by cysts below detection at baseline enlarging to a detectable diameter over time. The broad range of diameters, with a heavy concentration of microscopic cysts, may be most appropriately explained by a formation process that operates continuously throughout life.


Evidence of Extraordinary Growth in the Progressive Enlargement of Renal Cysts

April 2010

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102 Reads

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76 Citations

Clinical Journal of the American Society of Nephrology

In autosomal dominant polycystic kidney disease, cysts derived from tubules are detected at birth by ultrasound (threshold for detection >7.0 mm); thus, fetal cyst growth rates must exceed 2300%/yr. In adults, the combined renal cyst component enlarges at approximately 12%/yr by growth of individual cysts. To explore this discrepancy, the growth rates of individual cysts were determined in adult polycystic kidneys. Diameter, volume, and growth rates of individual cysts were measured by magnetic resonance in 30 individual cysts in three adult patients over a span of 3 years. Results were confirmed in 22 cysts measured in five patients by computed tomography over a span of 11 years. Mean cyst diameters were 20.4 +/- 9.9 mm (range 7.1 to 40.5 mm) at baseline and 25.8 +/- 15.6 mm (range 7.8 to 49.6 mm) after 3 years. Mean cyst volumes, determined by manual segmentation and summation of magnetic resonance cross sections, were 8.7 +/- 12.9 cm(3) (0.3 to 43.3 cm(3)) and 24.2 +/- 66.3 cm(3) (0.3 to 364.8 cm(3)) after 3 years. Mean cyst growth rates ranged from 6.9 to 23.9%/yr; the maximum growth rate was 71.1%/yr, far less than required to develop a 7-mm diameter cyst in utero. Results were similar in 22 cysts examined by computed tomography. It was concluded that renal cysts detected by ultrasound in newborns must have grown at exuberant rates in utero; thereafter, expansion appears to proceed at much slower rates.


Determinants of renal volume in autosomal-dominant polycystic kidney disease

February 2008

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59 Reads

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108 Citations

Kidney International

The Consortium of Radiologic Imaging Studies of Polycystic Kidney Disease (CRISP) recently showed that renal enlargement in autosomal-dominant polycystic kidney disease mimicked exponential growth. We determined the effects of cyst initiation rate, total number, and growth rate on the time-dependent change of total cyst volume (TCV). Mathematical models with equations integrating cyst surface area, volume, and an invariant growth rate constant were used to compute the time-dependent change in volume of solitary and multiple cysts. Multiple expanding cysts increased TCV in an exponential-like pattern even when individual cysts formed at different rates or exhibited different but constant growth rates. TCV depended on the rate of cyst initiation and on the total number of cysts; however, the compounding effect of exponential-like growth was the most powerful determinant of long-term cyst expansion. Extrapolation of TCV data plots for individual subjects back to an age of 18 predicted TCV values within an established range. We conclude that cysts started early in life were the main contributor to eventual TCV while their growth rate primarily determined renal size; although the rate of formation and the ultimate number of cysts also contributed. The good fit between the exponential models and the extrapolated CRISP data indicates that the TCV growth rate is a defining trait for individual patients and may be used as a prognostic marker.



Cost Of Managing Digital Diagnostic Images For A 614 Bed Hospital

January 2003

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28 Reads

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5 Citations

Journal of Digital Imaging

The cost of recording and archiving digital diagnostic imaging data is presented for a Radiology Department serving a 614 bed University-Hospital with a large outpatient population. Digital diagnostic imaging modalities include computed tomography, nuclear medicine, ultrasound, and digital radiography. The archiving media include multiformat video film recordings, magnetic tapes, and disc storage. The estimated cost per patient for the archiving of digital diagnostic imaging data is presented.


Noise reduction strategies in freehand elasticity imaging

November 2002

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33 Reads

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5 Citations

Proceedings of the IEEE Ultrasonics Symposium

We are developing a clinical ultrasonic imaging system for real-time estimation and display of tissue elastic properties. We have demonstrated that real-time feedback of elasticity images is essential for obtaining high-quality data (consecutive images with high spatial coherence). The key element to successful scanning is real-time visual feedback which guides the patient positioning and compression direction. Our data have clearly demonstrated nonlinearity in the strain properties of different tissue types. We have also demonstrated that a comparison of the area of a breast lesion observed in strain images versus B-mode images is a sensitive criterion for differentiating malignant from benign tumors. Frame-to-frame variability in strain images somewhat degrades the ability to observe these phenomena. Three strategies for reducing frame-to-frame strain image noise are described. The combination of these post-processing strategies provides a significant improvement in the quality of long sequences of strain images.


In vivo real-time freehand elasticity imaging

February 2002

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9 Reads

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6 Citations

We are developing a system for real-time estimation and display of tissue elastic properties using a clinical ultrasonic imaging system. Results in phantoms are in excellent agreement with that predicted with finite element analysis. Results in volunteer patients have shown that high quality elasticity images are easily obtained in vivo in breast and thyroid pathologies. The key element to successful scanning is real-time visual feedback which guides the patient positioning and compression direction. Results show that the frame-to-frame changes in strain image contrast appear to be unique to specific lesion types. In addition, the size of a lesion displayed in a strain image, relative to that in a standard B-mode image, is about the same for benign lesions but the size is considerably larger for malignant lesions. The observations will likely significantly improve the discrimination of radiologically indeterminant lesions.



Experimental results of real‐time freehand elasticity imaging

May 2001

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1 Read

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11 Citations

The Journal of the Acoustical Society of America

A system for high?speed calculation of tissue elastic properties using a clinical ultrasonic imaging system will be presented. The hypothesis driving this development is that real?time feedback of elasticity images is essential in obtaining high?quality data (consecutive images with high spatial coherence). Extensive experience with laboratory fixtures and off?line processing of elasticity data showed that problems occurring in data acquisition often resulted in poor elasticity image quality. The delay in observing the resulting images, due to off?line processing, resulted in slow progress in developing experimental techniques and signal processing strategies. When high?quality data were obtained, high contrast?to?noise images were available. Initial experience with real?time freehand elasticity imaging shows that images with similar high contrast to noise can be obtained. Results in volunteer patients have shown that high?quality elasticity images are easily obtained in vivo for a variety of breast pathologies, and the changes in breast tumor elasticity during the course of chemotherapy can be monitored. Video of real?time elasticity imaging will demonstrate the ease with which these results are obtained. [We are grateful for the support by USAMRAA DAMD17?00?1?0596, Siemens Medical Systems, and NSF BES?9708221.]


Citations (53)


... While 50% of patients progress to ESKD by their sixth decade of life, the decline in eGFR typically occurs rapidly later in adulthood due to initial compensatory glomerular hyperfiltration. While eGFR is an established marker of kidney function, it alone has not shown to reliably assess ADPKD burden nor prognosticate outcomes [15][16][17]. ...

Reference:

Data driven approach to characterize rapid decline in autosomal dominant polycystic kidney disease
Long-term trajectory of kidney function in autosomal-dominant polycystic kidney disease

Kidney International

... The applications of three-dimensional reconstruction are numerous and varied: they extend from medicine [2], geography to the shipbuilding. In medicine, generally in the biomedical, reconstruction addresses the areas: anatomy [3]- [4], electron microscopy and confocal [5], radiology [6], of surgery, cell biology, etc... 3D reconstruction is particularly popular in microscopy. ...

THREE-DIMENSIONAL RECONSTRUCTION FROM SERIAL SECTIONS FOR MEDICAL APPLICATIONS.
  • Citing Article
  • January 1981

... Eur J Echocardiography, Vol. 1, issue 1, March 2000 underestimates true volume of a chamber enclosed by a convex surface, such as the atrial wall, by assuming straight lines between surface points. However, the underestimation of volume is insignificant as shown by extensive previous validations [21,25] . To minimize this underestimation, our system employs 180 points per boundary to reconstruct the subtended volume. ...

VOLUME AND SURFACE AREA ESTIMATORS.
  • Citing Article
  • January 1981

Automedica

... Elastography methods can reveal different mechanical properties such as viscosity or Poisson's ratio, but imaging elastic properties of the tissue is the most-widely used technique (Szabo, 2014). Elastography has been used in imaging breast (Garra et al., 1997;Hall et al., 2001;Doyley et al., 2001;Uniyal et al., 2015) and prostate cancer (Lorenz et al., 1999) as well as investigation of liver health (Qiu et al., 2018;Chen et al., 2017) and surgical treatment of liver cancer (Rivaz et al., 2014(Rivaz et al., , 2009Yang et al., 2014;Frulio and Trillaud, 2013). ...

Experimental results of real‐time freehand elasticity imaging
  • Citing Article
  • May 2001

The Journal of the Acoustical Society of America

... For example, in Christiansen and Sederberg's algorithm [61, the triangular patches are sequentially created by choosing the shortest of two possible edges defining a patch. In Cook and Batnitsky's algorithm [7], the tiles are constructed in such a way that their orientation is as close as possible to the orientation of the line joining the centroids of the two contours. Other heuristic algorithms have been proposed by Cook [8] and Ganapathy [9]. ...

Three-Dimensional Reconstruction From Serial Sections For Medical Applications
  • Citing Conference Paper
  • October 1981

Proceedings of SPIE - The International Society for Optical Engineering

... The less expensive, higher volume but longer retrieval times of magneto-optical disks 23 and tape 24 were used in larger longterm permanent archives. To minimize cost and optimize performance, the use of the hierarchical storage management schema proposed by Dwyer et al. 25 was adopted by many to orchestrate movement of studies. 26 Lossless compression was used to combat the continued increase in imaging volume and study size [27][28][29][30] and to speed transmission across the slower networks of the day. ...

A Study Of Archiving Requirements For A Radiology Department
  • Citing Conference Paper
  • September 1985

Proceedings of SPIE - The International Society for Optical Engineering

... For instance, in extant research convolutional neural network (CNN) [25], and support vector machine (SVM) [26] have been applied to analyze videos on Raspberry Pi model 3 (ARM ® v8), while human activity recognition was achieved on the ESP32 device utilizing logistic regression (LR) [27,28]. Additionally, image recognition was performed using CNN [29], SVM [30], and CNN [31] on STM32F401RE (ARM ® Cortex ® -M4), Raspberry Pi model 3 (ARM ® v8), and Motorola 68HC11 devices. Constrained IoT devices are thus capable of running a spectrum of ML and DL algorithms, encompassing supervised, unsupervised, and reinforcement learning techniques [32]. ...

Bioelasticity imaging:II. Spatial resolution
  • Citing Article
  • April 2000

Proceedings of SPIE - The International Society for Optical Engineering

... There were many research efforts geared toward reducing the estimation errors [22][23][24][25][26][27]. Among them, some noteworthy methods are the signal stretching technique that expands the post-compression echo signal by a factor corresponding to the amount of the compression to reduce the The spatial resolution of strain imaging depends on the data window length and is less than several mm [28]. The lower limit on the achievable spatial resolution when imaging the human body is considered to be 2 mm. ...

Spatial resolution in elasticity imaging with ultrasound
  • Citing Article
  • January 2000

Proceedings of the IEEE Ultrasonics Symposium

... Two-dimensional displacement estimators provide reliable displacements (axial and lateral components) demanded by vascular elastography (Korukonda and Doyley 2012;Maurice et al. 2004) and blood flow estimation (Ekroll et al. 2013;Udesen et al. 2008). Additionally, researchers have reported that 2-D displacement estimators reduce the variance incurred when estimating the axial component of displacement (Cook et al. 2004). Two factors have dissuaded researchers from employing 2-D estimators in elastography: (i) the high computation burden, and (ii) the lack of an established framework for predicting how factors influence performance. ...

A comparison of one-dimensional and two-dimensional kernels for tracking two-dimensional motion in ultrasound echo dat
  • Citing Article
  • May 2003

Ultrasound in Medicine & Biology

... Multiple types of workstations were designed and built: diagnostic stations for radiology, clinical specialist review stations, and low-cost stations to meet the needs of referring clinicians. [39][40][41] Modality mini-PACS 42,43 were built and some still exist today [e.g., ultrasound systems (US)]. PACS displays were placed in other care environments [e.g., intensive care units (ICUs) and operating rooms (ORs)] 44 in addition to radiology reading rooms. ...

Experience with high-resolution digital gray-scale display systems
  • Citing Article
  • August 1990

Proceedings of SPIE - The International Society for Optical Engineering