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Bae J, Mani KM, Zabrocka E, Cattell R, O'Grady B, Payne DL, Roberson JD, Ryu S, Prasanna P. Predictive Value of Pre-Treatment MRI Radiomics for Distant Brain Metastases Following Stereotactic Radiosurgery/Radiotherapy. Int J Radiat Oncol Biol Phys 2023; 117:e84. [PMID: 37786196 DOI: 10.1016/j.ijrobp.2023.06.835] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/04/2023]
Abstract
PURPOSE/OBJECTIVE(S) Local intracranial therapy for brain metastases (BM) has taken on particular importance as survival among metastatic patients improves. However, the development of distant BMs (DBMs) outside the treated area remains a stubborn problem for which canonical clinical features (age, histology, ECOG PS) have limited predictive capability. In this study, we hypothesized that MRI-based "radiomic" features (sub-visual cues extracted from diagnostic images) can accurately predict the time-to-DBM development (TTDD) on a retrospectively curated dataset of patients treated with stereotactic radiosurgery/radiotherapy (SRS/SRT). MATERIALS/METHODS We queried our treatment planning system for patients treated with brain SRS/SRT between 2014 and 2021, and curated the incidence/timing of DBMs manually. Pre-RT MRI sequences (T1 pre, T1 post, T2, and FLAIR) and planning data were obtained for each patient. MRI and CT simulations were co-registered using affine transformations, and regions of interest (ROIs) were identified based on contoured structures (GTV) and discrete isodose ranges (0-25%, 25-50%, 50-75%, 75%+). Radiomic features were extracted from these ROIs, and clinical features (ECOG PS, tumor volume, age) were recorded for baseline comparison. Features were selected using Wald test scores from univariate Cox proportional hazard (CPH) models. Multivariate CPH models were then trained to predict TTDD using combinations of selected features. Predictive capability was evaluated using concordance index (c-index) values. A radiomic risk score (RRS) was created to discriminate patients with low and high-risk for DBMs, and evaluated using a log-rank test. RESULTS A total of 105 patients were selected with a median follow up of 356 days. 53 patients developed DBMs (median time 118 days). Radiomic CPH models achieved a c-index of 0.63 compared to clinical baseline of 0.49. The combination of radiomic and clinical features achieved the highest c-index of 0.69. Overall, radiomic features with and without clinical features were able to stratify patients into low and high-risk groups with statistically significant differences in TTDD development (see Table 1). Clinical features alone were not significant. The most predictive radiomic features were identified within the T1 pre-contrast MRI from the 50-75% isodose regions, followed by T2 FLAIR/GTV and T2/GTV combinations. CONCLUSION Radiomic features from routine MR scans were more predictive of TTDD than baseline clinical features. The contribution from the 50-75% isodose region suggests importance within the peritumoral environment in addition to the tumor itself.
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Affiliation(s)
- J Bae
- Department of Biomedical Informatics, Stony Brook University Hospital, Stony Brook, NY
| | - K M Mani
- Department of Biomedical Informatics, Stony Brook University Hospital, Stony Brook, NY; Department of Radiation Oncology, Stony Brook University Hospital, Stony Brook, NY
| | - E Zabrocka
- Department of Radiation Oncology, Stony Brook University Hospital, Stony Brook, NY
| | - R Cattell
- Department of Radiation Oncology, Stony Brook University Hospital, Stony Brook, NY
| | - B O'Grady
- Department of Radiation Oncology, Stony Brook University Hospital, Stony Brook, NY
| | - D L Payne
- Department of Radiology, Stony Brook University Hospital, Stony Brook, NY
| | - J D Roberson
- Southeast Radiation Oncology Group, Charlotte, NC
| | - S Ryu
- Department of Radiation Oncology, Stony Brook University Hospital, Stony Brook, NY
| | - P Prasanna
- Department of Biomedical Informatics, Stony Brook University Hospital, Stony Brook, NY
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Noldner C, Bae J, Kartsonis W, Cattell R, Patel M, Pierce A, Sehgal G, Soff S, Ryu S, Czerwonka L, Prasanna P, Mani K. Pre-Radiation CT-Based Radiomic Features Predict Locoregional and Distant Failure in Locally Advanced Head and Neck Cancer. Int J Radiat Oncol Biol Phys 2022. [DOI: 10.1016/j.ijrobp.2022.07.1330] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
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Prasanna P, Rogers L, Lam TC, Cohen M, Siddalingappa A, Wolansky L, Pinho M, Gupta A, Hatanpaa KJ, Madabhushi A, Tiwari P. Disorder in Pixel-Level Edge Directions on T1WI Is Associated with the Degree of Radiation Necrosis in Primary and Metastatic Brain Tumors: Preliminary Findings. AJNR Am J Neuroradiol 2019; 40:412-417. [PMID: 30733252 DOI: 10.3174/ajnr.a5958] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2018] [Accepted: 12/13/2018] [Indexed: 11/07/2022]
Abstract
BACKGROUND AND PURPOSE Co-occurrence of local anisotropic gradient orientations (COLLAGE) is a recently developed radiomic (computer extracted) feature that captures entropy (measures the degree of disorder) in pixel-level edge directions and was previously shown to distinguish predominant cerebral radiation necrosis from recurrent tumor on gadolinium-contrast T1WI. In this work, we sought to investigate whether COLLAGE measurements from posttreatment gadolinium-contrast T1WI could distinguish varying extents of cerebral radiation necrosis and recurrent tumor classes in a lesion across primary and metastatic brain tumors. MATERIALS AND METHODS On a total of 75 gadolinium-contrast T1WI studies obtained from patients with primary and metastatic brain tumors and nasopharyngeal carcinoma, the extent of cerebral radiation necrosis and recurrent tumor in every brain lesion was histopathologically defined by an expert neuropathologist as the following: 1) "pure" cerebral radiation necrosis; 2) "mixed" pathology with coexistence of cerebral radiation necrosis and recurrent tumors; 3) "predominant" (>80%) cerebral radiation necrosis; 4) predominant (>80%) recurrent tumor; and 5) pure tumor. COLLAGE features were extracted from the expert-annotated ROIs on MR imaging. Statistical comparisons of COLLAGE measurements using first-order statistics were performed across pure, mixed, and predominant pathologies of cerebral radiation necrosis and recurrent tumor using the Wilcoxon rank sum test. RESULTS COLLAGE features exhibited decreased skewness for patients with pure (0.15 ± 0.12) and predominant cerebral radiation necrosis (0.25 ± 0.09) and were statistically significantly different (P < .05) from those in patients with predominant recurrent tumors, which had highly skewed (0.42 ± 0.21) COLLAGE values. COLLAGE values for the mixed pathology studies were found to lie between predominant cerebral radiation necrosis and recurrent tumor categories. CONCLUSIONS With additional independent multisite validation, COLLAGE measurements might enable noninvasive characterization of the degree of recurrent tumor or cerebral radiation necrosis in gadolinium-contrast T1WI of posttreatment lesions.
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Affiliation(s)
- P Prasanna
- From the Department of Biomedical Engineering (P.P., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - L Rogers
- University Hospitals Case Medical Center (L.R., M.C., A.S., L.W., A.G.), Case Western Reserve School of Medicine, Cleveland, Ohio
| | - T C Lam
- Tuen Mun Hospital (T.C.L.), Tuen Mun, Hong Kong
| | - M Cohen
- University Hospitals Case Medical Center (L.R., M.C., A.S., L.W., A.G.), Case Western Reserve School of Medicine, Cleveland, Ohio
| | - A Siddalingappa
- University Hospitals Case Medical Center (L.R., M.C., A.S., L.W., A.G.), Case Western Reserve School of Medicine, Cleveland, Ohio
| | - L Wolansky
- University Hospitals Case Medical Center (L.R., M.C., A.S., L.W., A.G.), Case Western Reserve School of Medicine, Cleveland, Ohio
| | - M Pinho
- University of Texas Southwestern Medical Center (M.P., K.J.H.), Dallas, Texas
| | - A Gupta
- University Hospitals Case Medical Center (L.R., M.C., A.S., L.W., A.G.), Case Western Reserve School of Medicine, Cleveland, Ohio
| | - K J Hatanpaa
- University of Texas Southwestern Medical Center (M.P., K.J.H.), Dallas, Texas
| | - A Madabhushi
- From the Department of Biomedical Engineering (P.P., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - P Tiwari
- From the Department of Biomedical Engineering (P.P., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
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Ismail M, Hill V, Statsevych V, Huang R, Prasanna P, Correa R, Singh G, Bera K, Beig N, Thawani R, Madabhushi A, Aahluwalia M, Tiwari P. Shape Features of the Lesion Habitat to Differentiate Brain Tumor Progression from Pseudoprogression on Routine Multiparametric MRI: A Multisite Study. AJNR Am J Neuroradiol 2018; 39:2187-2193. [PMID: 30385468 DOI: 10.3174/ajnr.a5858] [Citation(s) in RCA: 48] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2018] [Accepted: 09/06/2018] [Indexed: 11/07/2022]
Abstract
BACKGROUND AND PURPOSE Differentiating pseudoprogression, a radiation-induced treatment effect, from tumor progression on imaging is a substantial challenge in glioblastoma management. Unfortunately, guidelines set by the Response Assessment in Neuro-Oncology criteria are based solely on bidirectional diametric measurements of enhancement observed on T1WI and T2WI/FLAIR scans. We hypothesized that quantitative 3D shape features of the enhancing lesion on T1WI, and T2WI/FLAIR hyperintensities (together called the lesion habitat) can more comprehensively capture pathophysiologic differences across pseudoprogression and tumor recurrence, not appreciable on diametric measurements alone. MATERIALS AND METHODS A total of 105 glioblastoma studies from 2 institutions were analyzed, consisting of a training (n = 59) and an independent test (n = 46) cohort. For every study, expert delineation of the lesion habitat (T1WI enhancing lesion and T2WI/FLAIR hyperintense perilesional region) was obtained, followed by extraction of 30 shape features capturing 14 "global" contour characteristics and 16 "local" curvature measures for every habitat region. Feature selection was used to identify most discriminative features on the training cohort, which were evaluated on the test cohort using a support vector machine classifier. RESULTS The top 2 most discriminative features were identified as local features capturing total curvature of the enhancing lesion and curvedness of the T2WI/FLAIR hyperintense perilesional region. Using top features from the training cohort (training accuracy = 91.5%), we obtained an accuracy of 90.2% on the test set in distinguishing pseudoprogression from tumor progression. CONCLUSIONS Our preliminary results suggest that 3D shape attributes from the lesion habitat can differentially express across pseudoprogression and tumor progression and could be used to distinguish these radiographically similar pathologies.
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Affiliation(s)
- M Ismail
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - V Hill
- Department of Neuroradiology (V.H., V.S.), Imaging Institute
| | - V Statsevych
- Department of Neuroradiology (V.H., V.S.), Imaging Institute
| | - R Huang
- Department of Radiology (R.H.), Brigham and Women's Hospital, Dana-Farber/Harvard Cancer Center, Boston, Massachusetts
| | - P Prasanna
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - R Correa
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - G Singh
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - K Bera
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - N Beig
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - R Thawani
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - A Madabhushi
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
| | - M Aahluwalia
- Brain Tumor and Neuro-Oncology Center (M.A.), Cleveland Clinic, Cleveland, Ohio
| | - P Tiwari
- From the Department of Biomedical Engineering (M.I., P.P., R.C., G.S., K.B., N.B., R.T., A.M., P.T.), Case Western Reserve University, Cleveland, Ohio
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Braman N, Prasanna P, Singh S, Beig N, Gilmore H, Etesami M, Bates D, Gallagher K, Bloch BN, Somlo G, Sikov W, Harris L, Plecha D, Varadan V, Madabhushi A. Abstract P4-02-06: Intratumoral and peritumoral MRI signatures of HER2-enriched subtype also predict pathological response to neoadjuvant chemotherapy in HER2+ breast cancers. Cancer Res 2018. [DOI: 10.1158/1538-7445.sabcs17-p4-02-06] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Abstract
Background: Applying the PAM50 classifier to targeted RNA-Sequencing data allows HER2+ tumors to be sub-categorized into intrinsic breast cancer subtypes. HER2+ breast cancers belonging to the HER2-enriched [HER2-E] subtype exhibit the highest rate of response to neoadjuvant therapy with combination of HER2-blockade and chemotherapy, as well as dual-HER2 blockade alone. A non-invasive predictor of PAM50 subtype from clinical dynamic contrast-enhanced MRI [DCE-MRI] could provide valuable clinical guidance in the treatment of HER2+ breast cancer. In this work, we identify a set of computer-extracted heterogeneity features computed within the lesion and its surrounding peritumoral region capable of distinguishing HER2-E from other HER2+ breast cancers [Non-HER2-E]. We then demonstrate that this imaging signature of HER2-E is also predictive of pathological complete response [pCR] in an independent HER2+ testing set, consistent with the HER2-E subtype's elevated response to HER2-targeted therapy.
Methods: The training set consisted of 42 HER2+ patients with both 1.5 or 3 T DCE-MRI and targeted RNA sequencing collected prior to neoadjuvant treatment from a multicenter trial [BrUOG 211B, n=35] and The Cancer Genome Atlas-Breast Cancer project [TCGA-BRCA, n=7]. Intrinsic subtypes were assigned by unsupervised hierarchical clustering of the PAM50 gene set. 19 patients were determined to belong to the HER2-E subtype, while the remaining 23 represented non-HER2-E subtypes [19 HER2-Luminal, 4 HER2-basal]. Lesion boundaries were annotated by an expertly trained radiologist and expanded to 5 annular peritumoral regions in 3 mm increments out to a maximum radius of 15 mm. Computer-extracted heterogeneity features were computed voxelwise within intratumoral and peritumoral regions by first order statistics. A top HER2-E-associated feature from each region was identified by Wilcoxon feature selection and used to train a diagonal linear discriminant analysis [DLDA] classifier to predict HER2-E in a 3-fold cross-validation setting. This classifier was then applied to pCR prediction from DCE-MRI in a testing set of 28 HER2+ patients with available post neoadjuvant chemotherapy surgical specimens at one institution. 16 patients achieved pCR (ypT0/is), while the remainder had partial or no response (non-pCR).
Results: A combination of heterogeneity features within the intratumoral region and annular peritumoral regions out to 12 mm from the tumor yielded optimal results within the training set, with an average HER2-E prediction AUC of .77 +/- .03. When applied to response prediction in an independent testing set, this HER2-E classifier was predictive of pCR (AUC = .72).
Conclusions: Computer-extracted heterogeneity features calculated within the tumor and the surrounding peritumoral environment on DCE-MRI were able to distinguish the HER2-E PAM50 intrinsic subtype from other HER2+ breast cancers. HER2-E was characterized by elevated expression of intratumoral and peritumoral heterogeneity features, indicating a more disordered imaging phenotype within and around the tumor. Additional independent validation of these findings is needed.
Citation Format: Braman N, Prasanna P, Singh S, Beig N, Gilmore H, Etesami M, Bates D, Gallagher K, Bloch BN, Somlo G, Sikov W, Harris L, Plecha D, Varadan V, Madabhushi A. Intratumoral and peritumoral MRI signatures of HER2-enriched subtype also predict pathological response to neoadjuvant chemotherapy in HER2+ breast cancers [abstract]. In: Proceedings of the 2017 San Antonio Breast Cancer Symposium; 2017 Dec 5-9; San Antonio, TX. Philadelphia (PA): AACR; Cancer Res 2018;78(4 Suppl):Abstract nr P4-02-06.
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Affiliation(s)
- N Braman
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - P Prasanna
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - S Singh
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - N Beig
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - H Gilmore
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - M Etesami
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - D Bates
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - K Gallagher
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - BN Bloch
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - G Somlo
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - W Sikov
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - L Harris
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - D Plecha
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - V Varadan
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
| | - A Madabhushi
- Case Western Reserve University, Cleveland, OH; Case Comprehensive Cancer Center, Cleveland, OH; National Institutes of Health; Boston Medical Center, Boston, MA; City of Hope Beckman Research Institute and Medical Center, Duarte, CA; Brown University, Providence, RI
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Pramod Kumar GN, Kanchan T, Atreya A, Prasanna P, Balaraman R. Ornamental Shrubs-A Cause of Fatal Poisoning. Toxicol Int 2017. [DOI: 10.22506/ti/2017/v24/i1/149046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022] Open
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Tiwari P, Prasanna P, Wolansky L, Pinho M, Cohen M, Nayate AP, Gupta A, Singh G, Hatanpaa KJ, Sloan A, Rogers L, Madabhushi A. Computer-Extracted Texture Features to Distinguish Cerebral Radionecrosis from Recurrent Brain Tumors on Multiparametric MRI: A Feasibility Study. AJNR Am J Neuroradiol 2016; 37:2231-2236. [PMID: 27633806 DOI: 10.3174/ajnr.a4931] [Citation(s) in RCA: 77] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2016] [Accepted: 07/16/2016] [Indexed: 11/07/2022]
Abstract
BACKGROUND AND PURPOSE Despite availability of advanced imaging, distinguishing radiation necrosis from recurrent brain tumors noninvasively is a big challenge in neuro-oncology. Our aim was to determine the feasibility of radiomic (computer-extracted texture) features in differentiating radiation necrosis from recurrent brain tumors on routine MR imaging (gadolinium T1WI, T2WI, FLAIR). MATERIALS AND METHODS A retrospective study of brain tumor MR imaging performed 9 months (or later) post-radiochemotherapy was performed from 2 institutions. Fifty-eight patient studies were analyzed, consisting of a training (n = 43) cohort from one institution and an independent test (n = 15) cohort from another, with surgical histologic findings confirmed by an experienced neuropathologist at the respective institutions. Brain lesions on MR imaging were manually annotated by an expert neuroradiologist. A set of radiomic features was extracted for every lesion on each MR imaging sequence: gadolinium T1WI, T2WI, and FLAIR. Feature selection was used to identify the top 5 most discriminating features for every MR imaging sequence on the training cohort. These features were then evaluated on the test cohort by a support vector machine classifier. The classification performance was compared against diagnostic reads by 2 expert neuroradiologists who had access to the same MR imaging sequences (gadolinium T1WI, T2WI, and FLAIR) as the classifier. RESULTS On the training cohort, the area under the receiver operating characteristic curve was highest for FLAIR with 0.79; 95% CI, 0.77-0.81 for primary (n = 22); and 0.79, 95% CI, 0.75-0.83 for metastatic subgroups (n = 21). Of the 15 studies in the holdout cohort, the support vector machine classifier identified 12 of 15 studies correctly, while neuroradiologist 1 diagnosed 7 of 15 and neuroradiologist 2 diagnosed 8 of 15 studies correctly, respectively. CONCLUSIONS Our preliminary results suggest that radiomic features may provide complementary diagnostic information on routine MR imaging sequences that may improve the distinction of radiation necrosis from recurrence for both primary and metastatic brain tumors.
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Affiliation(s)
- P Tiwari
- From the Department of Biomedical Engineering (P.T., P.P., G.S., A.M.), Case Western Reserve University, Cleveland, Ohio
| | - P Prasanna
- From the Department of Biomedical Engineering (P.T., P.P., G.S., A.M.), Case Western Reserve University, Cleveland, Ohio
| | - L Wolansky
- University Hospitals Case Medical Center (A.P.N., A.G., L.W., M.C., A.S., L.R.), Cleveland, Ohio
| | - M Pinho
- University of Texas Southwestern Medical Center (M.P., K.J.H.), Dallas, Texas
| | - M Cohen
- University Hospitals Case Medical Center (A.P.N., A.G., L.W., M.C., A.S., L.R.), Cleveland, Ohio
| | - A P Nayate
- University Hospitals Case Medical Center (A.P.N., A.G., L.W., M.C., A.S., L.R.), Cleveland, Ohio
| | - A Gupta
- University Hospitals Case Medical Center (A.P.N., A.G., L.W., M.C., A.S., L.R.), Cleveland, Ohio
| | - G Singh
- From the Department of Biomedical Engineering (P.T., P.P., G.S., A.M.), Case Western Reserve University, Cleveland, Ohio
| | - K J Hatanpaa
- University of Texas Southwestern Medical Center (M.P., K.J.H.), Dallas, Texas
| | - A Sloan
- University Hospitals Case Medical Center (A.P.N., A.G., L.W., M.C., A.S., L.R.), Cleveland, Ohio
| | - L Rogers
- University Hospitals Case Medical Center (A.P.N., A.G., L.W., M.C., A.S., L.R.), Cleveland, Ohio
| | - A Madabhushi
- From the Department of Biomedical Engineering (P.T., P.P., G.S., A.M.), Case Western Reserve University, Cleveland, Ohio
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Prasanna P. TU-H-BRB-04: Radiation Countermeasures and the NCI Radiation Research Program. Med Phys 2016. [DOI: 10.1118/1.4957621] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Tiwari P, Prasanna P, Rogers L, Wolansky L, Cohen M, Madabhushi A. NI-76 * COMPUTER EXTRACTED ORIENTED TEXTURE FEATURES ON T1-GADOLINIUM MRI FOR DISTINGUISHING RADIATION NECROSIS FROM RECURRENT BRAIN TUMORS. Neuro Oncol 2014. [DOI: 10.1093/neuonc/nou264.74] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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Tiwari P, Prasanna P, Jiang B, Barnholtz-Sloan J, Sloan A, Ostrom Q, Madabhushi A. NI-75 * QUANTITATIVE TEXTURE DESCRIPTORS ON BASELINE-MRI CAN PREDICT PATIENT SURVIVAL IN NEWLY DIAGNOSED GLIOBLASTOMA MULTIFORME PATIENTS. Neuro Oncol 2014. [DOI: 10.1093/neuonc/nou264.73] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
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Sharma VM, Adi Seshu KV, Vamsee Krishna C, Prasanna P, Chandra Sekhar V, Venkateswarlu A, Rajagopal S, Ajaykumar R, Deevi DS, Rao Mamidi NVS, Rajagopalan R. Novel 6,7-diphenyl-2,3,8,8a-tetrahydro-1H-indolizin-5-one analogues as cytotoxic agents. Bioorg Med Chem Lett 2003; 13:1679-82. [PMID: 12729640 DOI: 10.1016/s0960-894x(03)00263-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
A series of 6,7-diphenyl-2,3,8,8a-tetrahydro-1H-indolizin-5-one analogues were synthesized and evaluated for cytotoxic activity against eight human cancer cell lines. Compounds 18, 21, 28, 29, 30 and 31 showed cytotoxic activity with GI(50) values in the range of 2.1-8.1 microM concentration. Among these, compounds 21 and 28 exhibited good pharmacokinetic properties. These compounds were further evaluated for their in vivo efficacy in modified hollow fibre assay (HFA).
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Affiliation(s)
- Vedula M Sharma
- Discovery Chemistry, Dr. Reddy's Laboratories, Discovery Research, Miyapur, Hyderabad, 500 050, India.
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Sharma VM, Prasanna P, Seshu KVA, Renuka B, Rao CVL, Kumar GS, Narasimhulu CP, Babu PA, Puranik RC, Subramanyam D, Venkateswarlu A, Rajagopal S, Kumar KBS, Rao CS, Mamidi NVSR, Deevi DS, Ajaykumar R, Rajagopalan R. Novel indolo[2,1-b]quinazoline analogues as cytostatic agents: synthesis, biological evaluation and structure-activity relationship. Bioorg Med Chem Lett 2002; 12:2303-7. [PMID: 12161121 DOI: 10.1016/s0960-894x(02)00431-6] [Citation(s) in RCA: 123] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
In our endeavor to design and synthesize novel anticancer agents, a new series of indoloquinazoline compounds were prepared and tested initially for anticancer activity in vitro against a panel of human cancer cell lines. Most of these compounds exhibited cytotoxic activity in in vitro screens. Compounds were selected and further evaluated using a modified Hollow Fiber Assay for their preliminary in vivo activity against 12 cell lines implanted in the subcutaneous and intraperitoneal compartments in mice. The results indicate that these compounds may constitute a new class of anticancer agents.
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Affiliation(s)
- Vedula M Sharma
- Discovery Chemistry (Natural Products), Dr. Reddy's Research Foundation, Miyapur, Hyderabad, India.
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Samid D, Hudgins WR, Shack S, Liu L, Prasanna P, Myers CE. Phenylacetate and phenylbutyrate as novel, nontoxic differentiation inducers. Adv Exp Med Biol 1998; 400A:501-5. [PMID: 9547596 DOI: 10.1007/978-1-4615-5325-0_67] [Citation(s) in RCA: 41] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Phenylacetate and analogs represent a new class of pleiotropic growth regulators that alter tumor cell biology by affecting gene expression at both the transcriptional and post transcriptional levels. Based on these findings, NaPA and NaPB entered clinical trials at the National Cancer Institute. Ongoing phase I studies with NaPA, involving adults with prostate and brain cancer, have confirmed that therapeutic levels can be achieved with no significant toxicities, and provide preliminary evidence for benefit to patients with advanced disease (Thibault et al., submitted).
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Affiliation(s)
- D Samid
- Clinical Pharmacology Branch, National Cancer Institute, Bethesda, MD 20892, USA
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Shack S, Miller A, Liu L, Prasanna P, Thibault A, Samid D. Vulnerability of multidrug-resistant tumor cells to the aromatic fatty acids phenylacetate and phenylbutyrate. Clin Cancer Res 1996; 2:865-72. [PMID: 9816242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/09/2023]
Abstract
Cytotoxic chemotherapies often give rise to multidrug resistance, which remains a major problem in cancer management. In pursuit of alternative treatments for chemoresistant tumor cells, we tested the response of multidrug-resistant (MDR) tumor cell lines to the aromatic fatty acids phenylacetate (PA) and phenylbutyrate (PB), two differentiation inducers currently in clinical trials. Both compounds induced cytostasis and maturation of multidrug-resistant breast, ovarian, and colon carcinoma cells with no significant effect on cell viability. In contrast to their poor response to doxorubicin, the MDR cells were generally more sensitive to growth arrest by PA and PB than their parental counterparts. The aromatic fatty acids, like the differentiation-inducing aliphatic fatty acid butyrate, up-regulated mdr-1 gene expression. However, while butyrate increased multidrug resistance, PA and PB potentiated the cytotoxic activity of doxorubicin against MDR cells. The latter was associated with time-dependent declines in glutathione levels and in the activity of superoxide dismutase, catalase, glutathione peroxidase, glutathione reductase, and glutathione S-transferase, the antioxidant enzymes implicated in cell resistance to free radical-based therapies. Taken together, our in vitro data indicate that PA and PB, differentiation inducers of the aromatic fatty acid class, may provide an alternative approach to the treatment of MDR tumors.
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Affiliation(s)
- S Shack
- Clinical Pharmacology Branch, National Cancer Institute, Bethesda, Maryland 20892, USA
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Prasanna P, Thibault A, Liu L, Samid D. Lipid metabolism as a target for brain cancer therapy: synergistic activity of lovastatin and sodium phenylacetate against human glioma cells. J Neurochem 1996; 66:710-6. [PMID: 8592143 DOI: 10.1046/j.1471-4159.1996.66020710.x] [Citation(s) in RCA: 76] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Malignant gliomas, the most common form of primary brain tumors, are highly dependent on the mevalonate (MVA) pathway for the synthesis of lipid moieties critical to cell replication. Human glioblastoma cells were found to be uniquely vulnerable to growth arrest by lovastatin, a competitive inhibitor of the enzyme regulating MVA synthesis, 3-hydroxy-3-methylglutaryl coenzyme A reductase. The sodium salt of phenylacetic acid (NaPA), an inhibitor of MVA-pyrophosphate decarboxylase, the enzyme that controls MVA use, acted synergistically with lovastatin to suppress malignant growth. When used at pharmacologically attainable concentrations, the two compounds induced profound cytostasis and loss of malignant properties such as invasiveness and expression of the transforming growth factor-beta 2 gene, coding for a potent immunosuppressive cytokine. Supplementation with exogenous ubiquinone, an end product of the MVA pathway, failed to rescue the cells, suggesting that decreased synthesis of intermediary products are responsible for the antitumor effects observed. In addition to blocking the MVA pathway, lovastatin alone and in combination with NaPA increased the expression of the peroxisome proliferator-activated receptor, a transcription factor implicated in the control of lipid metabolism, cell growth, and differentiation. Our results indicate that targeting lipid metabolism with lovastatin, used alone or in combination with the aromatic fatty acid NaPA, may offer a novel approach to the treatment of malignant gliomas.
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Affiliation(s)
- P Prasanna
- Clinical Pharmacology Branch, National Cancer Institute, Bethesda, Maryland, USA
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Prasanna P, Shack S, Wilson VL, Samid D. Phenylacetate in chemoprevention: in vitro and in vivo suppression of 5-aza-2'-deoxycytidine-induced carcinogenesis. Clin Cancer Res 1995; 1:865-71. [PMID: 9816056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/09/2023]
Abstract
Differentiation inducers selected for their low cytotoxic and genotoxic potential could be of major value in chemoprevention and maintenance therapy. We focus here on phenylacetate, a naturally occurring plasma component recently shown to affect the growth and differentiation of established neoplasms in experimental models. The ability of phenylacetate to prevent carcinogenesis by the chemotherapeutic hypomethylating drug 5-aza-2'-deoxycytidine (5AzadC) was tested in vitro and in mice. Transient exposure of immortalized, but poorly tumorigenic ras-transformed 4C8 fibroblasts to 5AzadC resulted in neoplastic transformation manifested by loss of contact inhibition of growth, acquired invasiveness, and increased tumorigenicity in athymic mice. The latter was associated with elevation in ras expression and a decline in collagen biosynthesis. These profound phenotypic and molecular changes were prevented by a simultaneous treatment with phenylacetate. Protection from 5AzadC carcinogenesis by phenylacetate was: (a) highly efficient despite DNA hypomethylation by both drugs, (b) free of cytotoxic and genotoxic effects, (c) stable after treatment was discontinued, and (d) reproducible in vivo. Whereas athymic mice bearing 4C8 cells developed fibrosarcomas following a single i.p. injection with 5AzadC, tumor development was significantly inhibited by systemic treatment with nontoxic doses of phenylacetate. Phenylacetate and its precursor suitable for oral administration, phenylbutyrate, may thus represent a new class of chemopreventive agents, the efficacy and safety of which should be further evaluated.
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Affiliation(s)
- P Prasanna
- Clinical Pharmacology Branch, Division of Cancer Treatment, National Cancer Institute, Bethesda, Maryland 20892, USA
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Fibach E, Prasanna P, Rodgers GP, Samid D. Enhanced fetal hemoglobin production by phenylacetate and 4-phenylbutyrate in erythroid precursors derived from normal donors and patients with sickle cell anemia and beta-thalassemia. Blood 1993; 82:2203-9. [PMID: 7691251] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
Abstract
In both sickle cell (SS) anemia and beta-thalassemia (beta-thal), an increase in fetal hemoglobin (HbF) ameliorates the clinical symptoms of the underlying disease. Several pharmacologic agents have been used to elevate HbF levels in adults; however, concerns regarding adverse effects of the prevailing drugs raise an urgent need for other agents capable of stimulating HbF production. We show here that sodium phenylacetate (NaPA) and its precursor, sodium 4-phenylbutyrate (NaPB), can enhance HbF production in cultured erythroid progenitor derived from normal donors and patients with SS anemia or beta-thal, when used at pharmacologic concentrations. Treatment resulted in (1) reduced cell proliferation, (2) elevated hemoglobin (Hb) content per cell (mean cellular Hb [MCH]), and (3) an increased proportion of HbF produced, associated with elevated levels of gamma-globin mRNA. Moreover, the active phenyl-fatty acids, with NaPA as a prototype, potentiated HbF induction by other drugs of clinical interest, including hydroxyurea (HU), sodium butyrate, and 5-azacytidine (5AzaC). Efficacy could be further enhanced by introducing chlorine substituents at the phenyl ring to increase drug lipophilicity. Our findings indicate that NaPA and NaPB, both already proven safe and effective in treatment of children with urea cycle disorders, might benefit also patients with severe hemoglobinopathies. The two-phase liquid culture procedure used in this study should prove valuable in further studies exploring the mechanisms of HbF induction by these agents, and might provide an assay to predict patient response in the clinical setting.
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Affiliation(s)
- E Fibach
- Department of Hematology, Hadassah University Hospital, Jerusalem, Israel
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Samid D, Yeh A, Prasanna P. Induction of erythroid differentiation and fetal hemoglobin production in human leukemic cells treated with phenylacetate. Blood 1992; 80:1576-81. [PMID: 1381630] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
There is considerable interest in identifying nontoxic differentiation inducers for the treatment of various malignant and nonmalignant blood disorders, including inborn beta-chain hemoglobinopathies. Using the human leukemic K562 cell line as a model, we explored the efficacy of phenylacetate, an amino acid derivative with a low toxicity index when administered to humans. Treatment of K562 cultures with pharmacologically attainable concentrations of phenylacetate resulted in erythroid differentiation, evident by the reduced growth rate and increased hemoglobin production. The effect was time- and dose-dependent, further augmented by glutamine starvation (phenylacetate is known to deplete circulating glutamine in vivo), and reversible upon cessation of treatment. Molecular analysis showed that phenylacetate induced gamma globin gene expression with subsequent accumulation of the fetal form of hemoglobin (HbF). Interestingly, the addition of phenylacetate to antitumor agents of clinical interest, eg, hydroxyurea and 5-azacytidine, caused superinduction of HbF biosynthesis. The results suggest that phenylacetate, used alone or in combination with other drugs, might offer a safe and effective new approach to treatment of some hematopoietic neoplasms and severe hemoglobinopathies.
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Affiliation(s)
- D Samid
- Clinical Pharmacology Branch, National Cancer Institute, Bethesda, MD 20892
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Abstract
The products formed in the metabolism of 3-methylcholanthrylene (3MCE), either in the presence or in the absence of an epoxide hydrolase inhibitor, 3,3,3-trichloropropylene 1,2-oxide (TCPO), with an NADPH-regenerating system and liver microsomes from 3-methylcholanthrene (3MC)-treated male Sprague-Dawley rats were separated by reversed-phase and normal-phase HPLC. The metabolites were characterized by UV-visible absorption spectral analysis, and by comparing their retention times on reversed-phase and normal-phase HPLC with authentic 3MC derivatives whenever available. In addition to 3MC trans-1,2-diol, 3MC-1-one, and 3MC-2-one reported earlier by other investigators, 3-hydroxymethylcholanthrylene (3-OHMCE), 3-OHMCE trans-11,12-dihydrodiol, 3MCE trans-11,12-dihydrodiol, 3MCE trans-9, 10-dihydrodiol. 9- and 10-hydroxy-3MCE. 3MC-2-one trans-9,10-dihydrodiol, and a chemically unstable 3MCE 1,2-epoxide were identified as metabolites of 3MCE. 3MC cis-1,2-diol, a previously reported metabolite of 3MCE, was not detectable. In the presence of TCPO, metabolites that have been identified include 3-OHMCE, 3-OHMCE 11,12-epoxide. 3MCE 11,12-epoxide, 3MC-2-one, 3MC-1-one, 9-hydroxy-3MCE, 10-hydroxy-3MCE, and an unstable metabolic intermediate 3MCE 1,2-epoxide. The results suggest that 3MCE 1,2-epoxide, 3MCE 9,10-diol-7,8-epoxide, and 3MC-2-one 9,10-diol-7,8-epoxide may be involved in the metabolic activation of 3MCE to carcinogenic form.
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Affiliation(s)
- S K Yang
- Department of Pharmacology, F. Edward Hébert School of Medicine, Uniformed Services University of the Health Sciences, Bethesda, MD 20814-4799
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Prasanna P, Jacobs MM, Yang SK. Selenium inhibition of benzo[a]pyrene, 3-methylcholanthrene, and 3-methylcholanthrylene mutagenicity in Salmonella typhimurium strains TA98 and TA100. Mutat Res 1987; 190:101-5. [PMID: 3547113 DOI: 10.1016/0165-7992(87)90039-x] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Selenium (Se) decreased the mutagenicity of benzo[a]pyrene (BP), 3-methylcholanthrene (3MC), and 3-methylcholanthrylene (3MCE) in Salmonella typhimurium strains TA98 and TA100. Metabolism of BP, 3MC and 3MCE to mutagens was accomplished with the liver S9 fraction from Aroclor 1254-treated male Sprague-Dawley rats. Exposure of the bacteria to 4 nmoles BP, 10 nmoles 3MC, or 10 nmoles 3MCE in the presence of S9, and up to 200 nmoles Se as Na2SeO3 resulted in decreased mutagenicities up to 39, 66 and 60% of their respective control activities without Se in TA98 and up to 46, 52 and 64% of their respective control activities without Se in TA100. Se (200 nmoles) alone was not mutagenic in strains TA98 or TA100 with or without S9. BP, 3MC and 3MCE were not mutagenic in either strain without S9. None of the tested concentrations of BP, 3MC, 3MCE and Se were cytotoxic. Assays of the aryl hydrocarbon hydroxylase (AHH) activity in the S9 preparation revealed decreased AHH activity with increase in Se concentration. The decreased mutagenicity and AHH activity were Se (as Na2SeO3) dependent and could not be duplicated by sulfur (S as Na2SO3). Inhibition of AHH activity by Se provides an explanation of the mechanism of Se inhibition of BP, 3MC and 3MCE mutagenicities in S. typhimurium TA98 and TA100.
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Prasanna P, Holmlund CE. Identification in Tetrahymena pyriformis of 3-hydroxy-3-methyl glutaryl coenzyme a lyase: its purification and properties. Int J Biochem 1987; 19:385-9. [PMID: 3109974 DOI: 10.1016/0020-711x(87)90013-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The major HMG-CoA utilizing enzyme activity in T. pyriformis has been determined to be HMG-CoA lyase. The enzyme was purified 32-fold to a specific activity of 431 units/mg from a mitochondrial fraction. Sephacryl S-200 chromatography gave an estimated molecular weight of 50,000 daltons for the HMG-CoA lyase. SDS gel electrophoresis revealed two bands stained by Coomassie Blue--a major band of 50,000 daltons and a minor band of 25,000 daltons. The latter is believed to be an impurity in the preparation. The enzyme has a pH optimum of 9.0, is stimulated slightly by sulfhydryl reagents, and requires a divalent cation for maximum activity. The KM for HMG-CoA is 15 microM.
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