Search

Your search keyword '"Li, Alexander"' showing total 446 results
Start Over Author "Li, Alexander" Publication Type Academic Journals
446 results on '"Li, Alexander"'

1. A multiomic atlas identifies a treatment-resistant, bone marrow progenitor-like cell population in T cell acute lymphoblastic leukemia

Author

Xu, Jason, Chen, Changya, Sussman, Jonathan H., Yoshimura, Satoshi, Vincent, Tiffaney, Pölönen, Petri, Hu, Jianzhong, Bandyopadhyay, Shovik, Elghawy, Omar, Yu, Wenbao, Tumulty, Joseph, Chen, Chia-hui, Li, Elizabeth Y., Diorio, Caroline, Shraim, Rawan, Newman, Haley, Uppuluri, Lahari, Li, Alexander, Chen, Gregory M., Wu, David W., Ding, Yang-yang, Xu, Jessica A., Karanfilovski, Damjan, Lim, Tristan, Hsu, Miles, Thadi, Anusha, Ahn, Kyung Jin, Wu, Chi-Yun, Peng, Jacqueline, Sun, Yusha, Wang, Alice, Mehta, Rushabh, Frank, David, Meyer, Lauren, Loh, Mignon L., Raetz, Elizabeth A., Chen, Zhiguo, Wood, Brent L., Devidas, Meenakshi, Dunsmore, Kimberly P., Winter, Stuart S., Chang, Ti-Cheng, Wu, Gang, Pounds, Stanley B., Zhang, Nancy R., Carroll, William, Hunger, Stephen P., Bernt, Kathrin, Yang, Jun J., Mullighan, Charles G., Tan, Kai, and Teachey, David T.

Published
2024
Full Text
View/download PDF

3. The genomic basis of childhood T-lineage acute lymphoblastic leukaemia

Author

Pölönen, Petri, Di Giacomo, Danika, Seffernick, Anna Eames, Elsayed, Abdelrahman, Kimura, Shunsuke, Benini, Francesca, Montefiori, Lindsey E., Wood, Brent L., Xu, Jason, Chen, Changya, Cheng, Zhongshan, Newman, Haley, Myers, Jason, Iacobucci, Ilaria, Li, Elizabeth, Sussman, Jonathan, Hedges, Dale, Hui, Yawei, Diorio, Caroline, Uppuluri, Lahari, Frank, David, Fan, Yiping, Chang, Yunchao, Meshinchi, Soheil, Ries, Rhonda, Shraim, Rawan, Li, Alexander, Bernt, Kathrin M., Devidas, Meenakshi, Winter, Stuart S., Dunsmore, Kimberly P., Inaba, Hiroto, Carroll, William L., Ramirez, Nilsa C., Phillips, Aaron H., Kriwacki, Richard W., Yang, Jun J., Vincent, Tiffaney L., Zhao, Yaqi, Ghate, Pankaj S., Wang, Jian, Reilly, Colleen, Zhou, Xin, Sanders, Mathijs A., Takita, Junko, Kato, Motohiro, Takasugi, Nao, Chang, Bill H., Press, Richard D., Loh, Mignon, Rampersaud, Evadnie, Raetz, Elizabeth, Hunger, Stephen P., Tan, Kai, Chang, Ti-Cheng, Wu, Gang, Pounds, Stanley B., Mullighan, Charles G., and Teachey, David T.

Published
2024
Full Text
View/download PDF

5. Sequencing of 640,000 exomes identifies GPR75 variants associated with protection from obesity

Author

Akbari, Parsa, Gilani, Ankit, Sosina, Olukayode, Kosmicki, Jack A, Khrimian, Lori, Fang, Yi-Ya, Persaud, Trikaldarshi, Garcia, Victor, Sun, Dylan, Li, Alexander, Mbatchou, Joelle, Locke, Adam E, Benner, Christian, Verweij, Niek, Lin, Nan, Hossain, Sakib, Agostinucci, Kevin, Pascale, Jonathan V, Dirice, Ercument, Dunn, Michael, Center‡, Regeneron Genetics, Collaboration‡, DiscovEHR, Kraus, William E, Shah, Svati H, Chen, Yii-Der I, Rotter, Jerome I, Rader, Daniel J, Melander, Olle, Still, Christopher D, Mirshahi, Tooraj, Carey, David J, Berumen-Campos, Jaime, Kuri-Morales, Pablo, Alegre-Díaz, Jesus, Torres, Jason M, Emberson, Jonathan R, Collins, Rory, Balasubramanian, Suganthi, Hawes, Alicia, Jones, Marcus, Zambrowicz, Brian, Murphy, Andrew J, Paulding, Charles, Coppola, Giovanni, Overton, John D, Reid, Jeffrey G, Shuldiner, Alan R, Cantor, Michael, Kang, Hyun M, Abecasis, Goncalo R, Karalis, Katia, Economides, Aris N, Marchini, Jonathan, Yancopoulos, George D, Sleeman, Mark W, Altarejos, Judith, Della Gatta, Giusy, Tapia-Conyer, Roberto, Schwartzman, Michal L, Baras, Aris, Ferreira, Manuel AR, and Lotta, Luca A

Subjects
Biological Sciences, Biomedical and Clinical Sciences, Genetics, Nutrition, Prevention, Human Genome, Obesity, 2.1 Biological and endogenous factors, Metabolic and endocrine, Stroke, Oral and gastrointestinal, Animals, Body Mass Index, Exome, Genetic Variation, Humans, Mice, Mice, Knockout, Receptors, G-Protein-Coupled, Sequence Analysis, DNA, Weight Gain, Regeneron Genetics Center, DiscovEHR Collaboration, General Science & Technology
Abstract

Large-scale human exome sequencing can identify rare protein-coding variants with a large impact on complex traits such as body adiposity. We sequenced the exomes of 645,626 individuals from the United Kingdom, the United States, and Mexico and estimated associations of rare coding variants with body mass index (BMI). We identified 16 genes with an exome-wide significant association with BMI, including those encoding five brain-expressed G protein-coupled receptors (CALCR, MC4R, GIPR, GPR151, and GPR75). Protein-truncating variants in GPR75 were observed in ~4/10,000 sequenced individuals and were associated with 1.8 kilograms per square meter lower BMI and 54% lower odds of obesity in the heterozygous state. Knock out of Gpr75 in mice resulted in resistance to weight gain and improved glycemic control in a high-fat diet model. Inhibition of GPR75 may provide a therapeutic strategy for obesity.

Published
2021

6. Incidence and Risk Factors for Retinal Detachment and Retinal Tear after Cataract Surgery: IRIS® Registry (Intelligent Research in Sight) Analysis

Author

Lee, Aaron Y., Lee, Cecilia S., Van Gelder, Russ, Lorch, Alice, Miller, Joan W., Pershing, Suzann, Goldberg, Jeffrey, Morano, Michael J., Khan, M. Ali, Zhang, Qiang, Halfpenny, Colleen P., Wisner, Douglas M., Sharpe, James, Li, Alexander, Tomaiuolo, Maurizio, Haller, Julia A., Hyman, Leslie, and Ho, Allen C.

Published
2023
Full Text
View/download PDF

7. Open-Globe Injury Repairs in the American Academy of Ophthalmology IRIS® Registry 2014 – 2018: Incidence, Risk Factors, and Visual Outcomes

Author

Lee, Aaron Y., Lee, Cecilia S., Van Gelder, Russ, Lorch, Alice, Miller, Joan W., Pershing, Suzann, Goldberg, Jeffrey, Tomaiuolo, Maurizio, Woreta, Fasika A., Li, Alexander, Yonekawa, Yoshihiro, Zhang, Qiang (Ed), Sharpe, James E., Zafar, Sidra, Syed, Zeba A., Ramesh, Sathyadeepak, Lorch, Alice C., Hall, Nathan E., Shah, Ankoor S., Justin, Grant A., and Hyman, Leslie

Published
2023
Full Text
View/download PDF

10. Censored Quantile Regression Forest

Author

Li, Alexander Hanbo and Bradic, Jelena

Subjects
stat.ML, cs.LG, econ.EM, stat.ME
Abstract

Random forests are powerful non-parametric regression method but are severelylimited in their usage in the presence of randomly censored observations, andnaively applied can exhibit poor predictive performance due to the incurredbiases. Based on a local adaptive representation of random forests, we developits regression adjustment for randomly censored regression quantile models.Regression adjustment is based on new estimating equations that adapt tocensoring and lead to quantile score whenever the data do not exhibitcensoring. The proposed procedure named censored quantile regression forest,allows us to estimate quantiles of time-to-event without any parametricmodeling assumption. We establish its consistency under mild modelspecifications. Numerical studies showcase a clear advantage of the proposedprocedure.

Published
2020

11. The Impact of Device Innovation on Clinical Outcomes in Expander-based Breast Reconstruction.

Author

Momeni, Arash, Li, Alexander Y, Tsai, Jacqueline, Wan, Derrick, Karin, Mardi R, and Wapnir, Irene L

Abstract

Staged expander-based breast reconstruction represents the most common reconstructive modality in the United States. The introduction of a novel tissue expander with an integrated drain (Sientra AlloX2) holds promise to further improve clinical outcomes.MethodsPatients who underwent immediate expander-based pre-pectoral breast reconstruction were identified. Two cohorts were created, that is, patients who underwent placement of a conventional tissue expander [133MX (Allergan)] (Group 1) versus AlloX2 (Sientra) (Group 2). The study endpoint was successful completion of expansion with the objective being to investigate differences in outcome following expander placement.ResultsFifty-eight patients underwent 99 breast reconstructions [Group 1: N = 24 (40 breasts) versus Group 2: N = 34 (59 breast)]. No differences were noted for age (P = 0.586), BMI (P = 0.109), history of radiation (P = 0.377), adjuvant radiotherapy (P = 1.00), and overall complication rate (P = 0.141). A significantly longer time to drain removal was noted in Group 1 (P < 0.001). All patients with postoperative infection in Group 1 required surgical treatment versus successful washout of the peri-prosthetic space via the AlloX2 drain port in 3 of 5 patients in Group 2 (P = 0.196). Furthermore, both cases of seroma in Group 1 required image-guided drainage versus in-office drainage via the AlloX2 drain port in 1 patient in Group 2 (P =0.333).ConclusionThe unique feature of the AlloX2 provides surgeons easy access to the peri-prosthetic space without altering any of the other characteristics of a tissue expander. This resulted in a reduced time to drain removal and facilitated management of postoperative seroma and infection.

Published
2019

13. Genetic inactivation of zinc transporter SLC39A5 improves liver function and hyperglycemia in obesogenic settings.

Author

Shek Man Chim, Howell, Kristen, Dronzek, John, Weizhen Wu, Van Hout, Cristopher, Ferreira, Manuel A. R., Bin Ye, Li, Alexander, Brydges, Susannah, Arunachalam, Vinayagam, Marcketta, Anthony, Locke, Adam E., Bovijn, Jonas, Verweij, Niek, De, Tanima, Lotta, Luca, Mitnaul, Lyndon, LeBlanc, Michelle, Center, Regeneron Genetics, and Carey, David J.

Published
2024
Full Text
View/download PDF

14. Ferroptosis as a novel form of regulated cell death: Implications in the pathogenesis, oncometabolism and treatment of human cancer

Author

Pu, Feifei, Chen, Fengxia, Zhang, Zhicai, Shi, Deyao, Zhong, Binlong, Lv, Xiao, Tucker, Andrew Blake, Fan, Jiaming, Li, Alexander J., Qin, Kevin, Hu, Daniel, Chen, Connie, Wang, Hao, He, Fang, Ni, Na, Huang, Linjuan, Liu, Qing, Wagstaff, William, Luu, Hue H., Haydon, Rex C., Shen, Le, He, Tong-Chuan, Liu, Jianxiang, and Shao, Zengwu

Published
2022
Full Text
View/download PDF

16. Genome-wide analysis provides genetic evidence that ACE2 influences COVID-19 risk and yields risk scores associated with severe disease

Author

Horowitz, Julie E., Kosmicki, Jack A., Damask, Amy, Sharma, Deepika, Roberts, Genevieve H. L., Justice, Anne E., Banerjee, Nilanjana, Coignet, Marie V., Yadav, Ashish, Leader, Joseph B., Marcketta, Anthony, Park, Danny S., Lanche, Rouel, Maxwell, Evan, Knight, Spencer C., Bai, Xiaodong, Guturu, Harendra, Sun, Dylan, Baltzell, Asher, Kury, Fabricio S. P., Backman, Joshua D., Girshick, Ahna R., O’Dushlaine, Colm, McCurdy, Shannon R., Partha, Raghavendran, Mansfield, Adam J., Turissini, David A., Li, Alexander H., Zhang, Miao, Mbatchou, Joelle, Watanabe, Kyoko, Gurski, Lauren, McCarthy, Shane E., Kang, Hyun M., Dobbyn, Lee, Stahl, Eli, Verma, Anurag, Sirugo, Giorgio, Ritchie, Marylyn D., Jones, Marcus, Balasubramanian, Suganthi, Siminovitch, Katherine, Salerno, William J., Shuldiner, Alan R., Rader, Daniel J., Mirshahi, Tooraj, Locke, Adam E., Marchini, Jonathan, Overton, John D., Carey, David J., Habegger, Lukas, Cantor, Michael N., Rand, Kristin A., Hong, Eurie L., Reid, Jeffrey G., Ball, Catherine A., Baras, Aris, Abecasis, Gonçalo R., and Ferreira, Manuel A. R.

Published
2022
Full Text
View/download PDF

17. Boosting in the Presence of Outliers: Adaptive Classification With Nonconvex Loss Functions

Author

Li, Alexander Hanbo and Bradic, Jelena

Subjects
Boosting, Breakdown point, Classification, Influence function, Nonconvexity, Robustness, stat.ML, cs.AI, cs.LG, math.ST, stat.ME, stat.TH, Statistics, Econometrics, Demography, Statistics & Probability
Abstract

This paper examines the role and efficiency of the non-convex loss functionsfor binary classification problems. In particular, we investigate how to designa simple and effective boosting algorithm that is robust to the outliers in thedata. The analysis of the role of a particular non-convex loss for predictionaccuracy varies depending on the diminishing tail properties of the gradient ofthe loss -- the ability of the loss to efficiently adapt to the outlying data,the local convex properties of the loss and the proportion of the contaminateddata. In order to use these properties efficiently, we propose a new family ofnon-convex losses named $\gamma$-robust losses. Moreover, we present a newboosting framework, {\it Arch Boost}, designed for augmenting the existing worksuch that its corresponding classification algorithm is significantly moreadaptable to the unknown data contamination. Along with the Arch Boostingframework, the non-convex losses lead to the new class of boosting algorithms,named adaptive, robust, boosting (ARB). Furthermore, we present theoreticalexamples that demonstrate the robustness properties of the proposed algorithms.In particular, we develop a new breakdown point analysis and a new influencefunction analysis that demonstrate gains in robustness. Moreover, we presentnew theoretical results, based only on local curvatures, which may be used toestablish statistical and optimization properties of the proposed Arch boostingalgorithms with highly non-convex loss functions. Extensive numericalcalculations are used to illustrate these theoretical properties and revealadvantages over the existing boosting methods when data exhibits a number ofoutliers.

Published
2018

19. ANGPTL7, a therapeutic target for increased intraocular pressure and glaucoma

Author

Praveen, Kavita, Patel, Gaurang C., Gurski, Lauren, Ayer, Ariane H., Persaud, Trikaladarshi, Still, Matthew D., Miloscio, Lawrence, Van Zyl, Tavé, Di Gioia, Silvio Alessandro, Brumpton, Ben, Krebs, Kristi, Åsvold, Bjørn Olav, Chen, Esteban, Chavali, Venkata R. M., Fury, Wen, Gudiseva, Harini V., Hyde, Sarah, Jorgenson, Eric, Lefebvre, Stephanie, Li, Dadong, Li, Alexander, Mclninch, James, Patel, Brijeshkumar, Rabinowitz, Jeremy S., Salowe, Rebecca, Schurmann, Claudia, Seidelin, Anne-Sofie, Stahl, Eli, Sun, Dylan, Teslovich, Tanya M., Tybjærg-Hansen, Anne, Willer, Cristen, Waldron, Scott, Walley, Sabrina, Yang, Hua, Zaveri, Sarthak, Hu, Ying, Hveem, Kristian, Melander, Olle, Milani, Lili, Stender, Stefan, O’Brien, Joan M., Jones, Marcus B., Abecasis, Gonçalo R., Cantor, Michael N., Weyne, Jonathan, Karalis, Katia, Economides, Aris, Della Gatta, Giusy, Ferreira, Manuel A., Yancopoulos, George D., Baras, Aris, Romano, Carmelo, and Coppola, Giovanni

Published
2022
Full Text
View/download PDF

20. Exome sequencing and analysis of 454,787 UK Biobank participants

Author

Backman, Joshua D., Li, Alexander H., Marcketta, Anthony, Sun, Dylan, Mbatchou, Joelle, Kessler, Michael D., Benner, Christian, Liu, Daren, Locke, Adam E., Balasubramanian, Suganthi, Yadav, Ashish, Banerjee, Nilanjana, Gillies, Christopher E., Damask, Amy, Liu, Simon, Bai, Xiaodong, and Hawes, Alicia

Subjects
Exome sequencing -- Methods, Genetic variation -- Identification and classification, Gene banks -- Usage, Environmental issues, Science and technology, Zoology and wildlife conservation
Abstract

A major goal in human genetics is to use natural variation to understand the phenotypic consequences of altering each protein-coding gene in the genome. Here we used exome sequencing.sup.1 to explore protein-altering variants and their consequences in 454,787 participants in the UK Biobank study.sup.2. We identified 12 million coding variants, including around 1 million loss-of-function and around 1.8 million deleterious missense variants. When these were tested for association with 3,994 health-related traits, we found 564 genes with trait associations at P [less than or equal to] 2.18 × 10.sup.-11. Rare variant associations were enriched in loci from genome-wide association studies (GWAS), but most (91%) were independent of common variant signals. We discovered several risk-increasing associations with traits related to liver disease, eye disease and cancer, among others, as well as risk-lowering associations for hypertension (SLC9A3R2), diabetes (MAP3K15, FAM234A) and asthma (SLC27A3). Six genes were associated with brain imaging phenotypes, including two involved in neural development (GBE1, PLD1). Of the signals available and powered for replication in an independent cohort, 81% were confirmed; furthermore, association signals were generally consistent across individuals of European, Asian and African ancestry. We illustrate the ability of exome sequencing to identify gene-trait associations, elucidate gene function and pinpoint effector genes that underlie GWAS signals at scale. Whole-exome sequencing analysis of 454,787 individuals in the UK Biobank is used to examine the association of protein-coding variants with nearly 4,000 health-related traits, identifying 564 distinct genes with significant trait associations., Author(s): Joshua D. Backman [sup.1] , Alexander H. Li [sup.1] , Anthony Marcketta [sup.1] , Dylan Sun [sup.1] , Joelle Mbatchou [sup.1] , Michael D. Kessler [sup.1] , Christian Benner [...]

Published
2021
Full Text
View/download PDF

21. THz Imaging System for in vivo Human Cornea

Author

Sung, Shijun, Selvin, Skyler, Bajwa, Neha, Chantra, Somporn, Nowroozi, Bryan, Garritano, James, Goell, Jacob, Li, Alexander D, Deng, Sophie X, Brown, Elliott R, Grundfest, Warren S, and Taylor, Zachary D

Subjects
Communications Engineering, Engineering, Atomic, Molecular and Optical Physics, Physical Sciences, Biomedical Imaging, Bioengineering, Eye Disease and Disorders of Vision, 4.1 Discovery and preclinical testing of markers and technologies, Detection, screening and diagnosis, Eye, Biological and medical imaging, clinical instruments, medical diagnostics, terahertz (THz) imaging of cornea, THz imaging of cornea, Optical Physics, Electrical and Electronic Engineering, Communications engineering, Atomic, molecular and optical physics
Abstract

Terahertz (THz) imaging of corneal tissue water content (CTWC) is a proposed method for early, accurate detection and study of corneal diseases. Despite promising results from ex vivo and in vivo cornea studies, interpretation of the reflectivity data is confounded by the contact between corneal tissue and rigid dielectric window used to flatten the imaging field. This work develops a novel imaging system and image reconstruction methods specifically for nearly spherical targets such as human cornea. A prototype system was constructed using a 650 GHz multiplier source and Schottky diode detector. Resolution and imaging field strength measurement from characterization targets correlate well with those predicted by the quasioptical theory and physical optics analysis. Imaging experiments with corneal phantoms and ex vivo corneas demonstrate the hydration sensitivity of the imaging system and reliable measurement of CTWC. We present successful acquisition of non-contact THz images of in vivo human cornea, and discuss strategies for optimizing the imaging system design for clinical use.

Published
2018

22. Biallelic BRCA Loss and Homologous Recombination Deficiency in Nonbreast/Ovarian Tumors in Germline BRCA1/2 Carriers

Author

Wineland, Dylane, Le, Anh N., Hausler, Ryan, Kelly, Gregory, Barrett, Emanuel, Desai, Heena, Wubbenhorst, Bradley, Pluta, John, Bastian, Paul, Symecko, Heather, DʼAndrea, Kurt, Doucette, Abigail, Gabriel, Peter, Reiss, Kim A., Nayak, Anupma, Feldman, Michael, Domchek, Susan M., Nathanson, Katherine L., Maxwell, Kara N., Mansfield, Adam J., Locke, Adam, Poindexter, Afiya, Shuldiner, Alan, Li, Alexander, Lopez, Alexander, Hawes, Alicia, Averitt, Amelia, Damask, Amy, Deubler, Andrew, Ziyatdinov, Andrey, Marcketta, Anthony, Verma, Anurag, Moscati, Arden, Ayer, Ariane, Baras, Aris, Economides, Aris, Ghosh, Arkopravo, Brock, Ashlei, Kloter, Ashley, Rasool, Ayesha, Guvenek, Aysegul, Ye, Bin, Zhang, Blair, Boutkov, Boris, Forsythe, Caitlin, Sidore, Carlo, Paulding, Charles, Beechert, Christina, Gillies, Christopher, Morse, Colleen, Li, Dadong, Rader, Daniel J., Liu, Daren, Sharma, Deepika, Stahl, Eli, Jorgenson, Eric, Fuller, Erin D., Chen, Esteban, Maxwell, Evan K., Vadivieso, Fred, Tzoneva, Gannie, Hindy, George, Mitra, George, Coppola, Giovanni, Eom, Gisu, Abecasis, Goncalo, Kang, Hyun Min, Kosmicki, Jack, Hernandez, Jaimee, Freudenberg, Jan, Mighty, Jason, Staples, Jeffrey C., Reid, Jeffrey G., Mbatchou, Joelle, Weaver, JoEllen, Overton, John D., Bovijn, Jonas, Marchini, Jonathan, Dunn, Joseph, Backman, Joshua, Rodriguez-Flores, Juan, Siminovitch, Katherine, Sun, Kathie, Praveen, Kavita, Hu-Sain, Khadijah, Manoochehri, Kia, Watanabe, Kyoko, Gurski, Lauren, Dobbyn, Lee, Morrel, Linda, Widom, Louis, Lotta, Luca A., Habegger, Lukas, Mitnaul, Lyndon J., Pradhan, Manasi, Kapoor, Manav, Ferreira, Manuel Allen Revez, Jones, Marcus B., Padilla, Maria Sotiropoulos, Risman, Marjorie, Haas, Mary, Ritchie, Marylyn D., Orelus, Max, Livingstone, Meghan, Cantor, Michael, Feldman, Michael D., Kessler, Michael, Lattari, Michael, LeBlanc, Michelle G., Riaz, Moeen, Nafde, Mona, Rana, Nadia, Lin, Nan, Haubein, Ned, Verweij, Niek, Banerjee, Nilanjana, Nishtala, Nirupama, Krasheninina, Olga, Sosina, Olukayode, Akbari, Parsa, Nakka, Priyanka, Panea, Razvan, Judy, Renae, Ulloa, Ricardo H., Lanche, Rouel, Gelfman, Sahar, Malhotra, Sameer, Wolf, Sarah E., Dudek, Scott, OʼKeeffe, Sean, Khalid, Shareef, Verma, Shefali S., Chen, Siying, DerOhannessian, Stephanie, Balasubramanian, Suganthi, Gokhale, Sujit, Bao, Suying, De, Tanima, Tran, Teo, Drivas, Theodore, Schleicher, Thomas D., Polanco, Tommy, Rajagopal, Veera, Salerno, William, Bai, Xiaodong, Ko, Yi-An, Bradford, Yuki, and Gu, Zhenhua

Published
2023
Full Text
View/download PDF

25. Low-Grade Glioma Clinical Trials in the United States: A Systematic Review.

Author

Xu, Emily, Patterson, Jonathan, Angione, Angelo, Li, Alexander, Wu, David W., Akca, Ebrar, Elghawy, Omar, Barsouk, Alexander, and Sussman, Jonathan H.

Subjects
RACE, INVESTIGATIONAL therapies, CENTRAL nervous system, CLINICAL trials, AFRICAN Americans
Abstract

Low-grade glioma (LGG) is a malignancy of the central nervous system that is often treatable with surgical resection and chemoradiation. However, despite an initial positive response to standard therapy, most LGG eventually progress to high-grade gliomas which are nearly uniformly fatal. There is a pressing need for more clinical trials and greater clinical trial accessibility to improve the standard of care of LGG to delay or prevent its progression. In this study, we systematically examined the scope and inclusion of clinical trials for LGG based in the United States. This cross-sectional study analyzes trends in trial design and reported demographic data from completed LGG trials registered on ClinicalTrials.gov between 2010 to 2023. Inclusion criteria, investigational therapies, primary outcomes, and preliminary results were compared and summarized. A total of 14 trials with 1067 participants were included in the study. Most of the trials were not exclusive to LGGs and 14% had mutation-specific inclusion criteria. To date, two of the trials have led to new FDA-approved treatments. All trials reported age and sex, while only 57% reported race and 43% reported ethnicity. Individuals identifying as Black or African American and Asian or Pacific Islander were statistically underrepresented. Lastly, we investigated the geographic distributions of trial sites across the United States, which demonstrated several coverage gaps in the Rocky Mountain and Southeast regions. These findings suggest specific areas for improvement in LGG clinical trial reporting and accessibility. [ABSTRACT FROM AUTHOR]

Published
2024
Full Text
View/download PDF

27. FAMSi: A Synthetic Biology Approach to the Fast Assembly of Multiplex siRNAs for Silencing Gene Expression in Mammalian Cells

Author

He, Fang, Ni, Na, Zeng, Zongyue, Wu, Di, Feng, Yixiao, Li, Alexander J., Luu, Benjamin, Li, Alissa F., Qin, Kevin, Wang, Eric, Wang, Xi, Wu, Xiaoxing, Luo, Huaxiu, Zhang, Jing, Zhang, Meng, Mao, Yukun, Pakvasa, Mikhail, Wagstaff, William, Zhang, Yongtao, Niu, Changchun, Wang, Hao, Huang, Linjuan, Shi, Deyao, Liu, Qing, Zhao, Xia, Fu, Kai, Reid, Russell R., Wolf, Jennifer Moriatis, Lee, Michael J., Hynes, Kelly, Strelzow, Jason, El Dafrawy, Mostafa, Gan, Hua, He, Tong-Chuan, and Fan, Jiaming

Published
2020
Full Text
View/download PDF

28. A reverse transcriptase-mediated ribosomal RNA depletion (RTR2D) strategy for the cost-effective construction of RNA sequencing libraries

Author

Zeng, Zongyue, Huang, Bo, Wang, Xi, Fan, Jiaming, Zhang, Bo, Yang, Lijuan, Feng, Yixiao, Wu, Xiaoxing, Luo, Huaxiu, Zhang, Jing, Zhang, Meng, He, Fang, Mao, Yukun, Pakvasa, Mikhail, Wagstaff, William, Li, Alexander J., Liu, Bin, Ding, Huimin, Zhang, Yongtao, Niu, Changchun, Wu, Meng, Zhao, Xia, Wolf, Jennifer Moriatis, Lee, Michael J., Huang, Ailong, Luu, Hue H., Haydon, Rex C., and He, Tong-Chuan

Published
2020
Full Text
View/download PDF

29. Microfluidic single-cell transcriptional analysis rationally identifies novel surface marker profiles to enhance cell-based therapies.

Author

Rennert, Robert C, Januszyk, Michael, Sorkin, Michael, Rodrigues, Melanie, Maan, Zeshaan N, Duscher, Dominik, Whittam, Alexander J, Kosaraju, Revanth, Chung, Michael T, Paik, Kevin, Li, Alexander Y, Findlay, Michael, Glotzbach, Jason P, Butte, Atul J, and Gurtner, Geoffrey C

Subjects
Adipose Tissue, Adipocytes, Stem Cells, Animals, Humans, Mice, Diabetes Mellitus, Diabetes Mellitus, Experimental, Antigens, CD, Stem Cell Transplantation, Cell Separation, Microfluidics, Wound Healing, Cell Differentiation, Cell Proliferation, Cell Survival, Gene Expression, Cell Lineage, Female, Male, Dipeptidyl Peptidase 4, Single-Cell Analysis, Abdominoplasty, Biomarkers, Surgical Wound, Bioengineering, Diabetes, Clinical Research, Biotechnology, Stem Cell Research - Nonembryonic - Human, Regenerative Medicine, Stem Cell Research, Stem Cell Research - Nonembryonic - Non-Human, 5.2 Cellular and gene therapies, Metabolic and Endocrine, Experimental, Antigens, CD
Abstract

Current progenitor cell therapies have only modest efficacy, which has limited their clinical adoption. This may be the result of a cellular heterogeneity that decreases the number of functional progenitors delivered to diseased tissue, and prevents correction of underlying pathologic cell population disruptions. Here, we develop a high-resolution method of identifying phenotypically distinct progenitor cell subpopulations via single-cell transcriptional analysis and advanced bioinformatics. When combined with high-throughput cell surface marker screening, this approach facilitates the rational selection of surface markers for prospective isolation of cell subpopulations with desired transcriptional profiles. We establish the usefulness of this platform in costly and highly morbid diabetic wounds by identifying a subpopulation of progenitor cells that is dysfunctional in the diabetic state, and normalizes diabetic wound healing rates following allogeneic application. We believe this work presents a logical framework for the development of targeted cell therapies that can be customized to any clinical application.

Published
2016

30. Multi-ethnic heterozygote frequencies of cancer susceptibility genes to inform counseling of reproductive risk

Author

Verma, Anurag, Verma, Shefali S., Bradford, Yuki, Brock, Ashlei, DerOhannessian, Stephanie, Dudek, Scott, Dunn, Joseph, Drivas, Theodore, Haubein, Ned, Hu-Sain, Khadijah, Judy, Renae, Kloter, Ashley, Ko, Yi-An, Livingstone, Meghan, Morrel, Linda, Morse, Colleen, Poindexter, Afiya, Risman, Marjorie, Tran, Teo, Vadivieso, Fred, Weaver, JoEllen, Rader, Daniel J., Ritchie, Marylyn D., Feldman, Michael D., Beechert, Christina, Forsythe, Caitlin, Fuller, Erin D., Gu, Zhenhua, Lattari, Michael, Lopez, Alexander, Overton, John D., Padilla, Maria Sotiropoulos, Pradhan, Manasi, Manoochehri, Kia, Schleicher, Thomas D., Widom, Louis, Wolf, Sarah E., Ulloa, Ricardo H., Averitt, Amelia, Banerjee, Nilanjana, Cantor, Michael, Li, Dadong, Malhotra, Sameer, Sharma, Deepika, MHI, Staples, Jeffrey, Bai, Xiaodong, Balasubramanian, Suganthi, Bao, Suying, Boutkov, Boris, Chen, Siying, Eom, Gisu, Habegger, Lukas, Hawes, Alicia, Khalid, Shareef, Krasheninina, Olga, Lanche, Rouel, Mansfield, Adam J., Maxwell, Evan K., Mitra, George, Nafde, Mona, O’Keeffe, Sean, Orelus, Max, B, Panea, Razvan, Polanco, Tommy, Rasool, Ayesha, Reid, Jeffrey G., Salerno, William, Staples, Jeffrey C., Sun, Kathie, Abecasis, Goncalo, Backman, Joshua, Damask, Amy, Dobbyn, Lee, Revez Ferreira, Manuel Allen, Ghosh, Arkopravo, Gillies, Christopher, Gurski, Lauren, Jorgenson, Eric, Kang, Hyun Min, Kessler, Michael, Kosmicki, Jack, Li, Alexander, Lin, Nan, Liu, Daren, Locke, Adam, Marchini, Jonathan, Marcketta, Anthony, Mbatchou, Joelle, Moscati, Arden, Paulding, Charles, Sidore, Carlo, Stahl, Eli, Watanabe, Kyoko, Ye, Bin, Zhang, Blair, Ziyatdinov, Andrey, Ayer, Ariane, Guvenek, Aysegul, Hindy, George, Coppola, Giovanni, Freudenberg, Jan, Bovijn, Jonas, Siminovitch, Katherine, Praveen, Kavita, Lotta, Luca A., Kapoor, Manav, Haas, Mary, Riaz, Moeen, Verweij, Niek, Sosina, Olukayode, Akbari, Parsa, Nakka, Priyanka, Gelfman, Sahar, Gokhale, Sujit, De, Tanima, Rajagopal, Veera, Tzoneva, Gannie, Rodriguez-Flores, Juan, Chen, Esteban, Jones, Marcus B., LeBlanc, Michelle G., Mighty, Jason, Mitnaul, Lyndon J., Nishtala, Nirupama, Rana, Nadia, Hernandez, Jaimee, Baras, Aris, Deubler, Andrew, Economides, Aris, Shuldiner, Alan, Powers, Jacquelyn, Wachtel, Heather, Trujillo, Erica, Desai, Heena, Hausler, Ryan, Conway, Laura, Wubbenhorst, Bradley, Domchek, Susan M., Nathanson, Katherine L., and Maxwell, Kara N.

Published
2025
Full Text
View/download PDF

31. Exome-wide evaluation of rare coding variants using electronic health records identifies new gene–phenotype associations

Author

Park, Joseph, Lucas, Anastasia M., Zhang, Xinyuan, Chaudhary, Kumardeep, Cho, Judy H., Nadkarni, Girish, Dobbyn, Amanda, Chittoor, Geetha, Josyula, Navya S., Katz, Nathan, Breeyear, Joseph H., Ahmadmehrabi, Shadi, Drivas, Theodore G., Chavali, Venkata R. M., Fasolino, Maria, Sawada, Hisashi, Daugherty, Alan, Li, Yanming, Zhang, Chen, Bradford, Yuki, Weaver, JoEllen, Verma, Anurag, Judy, Renae L., Kember, Rachel L., Overton, John D., Reid, Jeffrey G., Ferreira, Manuel A. R., Li, Alexander H., Baras, Aris, LeMaire, Scott A., Shen, Ying H., Naji, Ali, Kaestner, Klaus H., Vahedi, Golnaz, Edwards, Todd L., Chen, Jinbo, Damrauer, Scott M., Justice, Anne E., Do, Ron, Ritchie, Marylyn D., and Rader, Daniel J.

Published
2021
Full Text
View/download PDF

32. Stem cell therapy for chronic skin wounds in the era of personalized medicine: From bench to bedside

Author

Coalson, Elam, Bishop, Elliot, Liu, Wei, Feng, Yixiao, Spezia, Mia, Liu, Bo, Shen, Yi, Wu, Di, Du, Scott, Li, Alexander J., Ye, Zhenyu, Zhao, Ling, Cao, Daigui, Li, Alissa, Hagag, Ofir, Deng, Alison, Liu, Winny, Li, Mingyang, Haydon, Rex C., Shi, Lewis, Athiviraham, Aravind, Lee, Michael J., Wolf, Jennifer Moriatis, Ameer, Guillermo A., He, Tong-Chuan, and Reid, Russell R.

Published
2019
Full Text
View/download PDF

34. BMP9-induced osteoblastic differentiation requires functional Notch signaling in mesenchymal stem cells

Author

Cui, Jing, Zhang, Wenwen, Huang, Enyi, Wang, Jia, Liao, Junyi, Li, Ruidong, Yu, Xinyi, Zhao, Chen, Zeng, Zongyue, Shu, Yi, Zhang, Ruyi, Yan, Shujuan, Lei, Jiayan, Yang, Chao, Wu, Ke, Wu, Ying, Huang, Shifeng, Ji, Xiaojuan, Li, Alexander, Gong, Cheng, Yuan, Chengfu, Zhang, Linghuan, Liu, Wei, Huang, Bo, Feng, Yixiao, An, Liping, Zhang, Bo, Dai, Zhengyu, Shen, Yi, Luo, Wenping, Wang, Xi, Huang, Ailong, Luu, Hue H., Reid, Russell R., Wolf, Jennifer Moriatis, Thinakaran, Gopal, Lee, Michael J., and He, Tong-Chuan

Published
2019
Full Text
View/download PDF

38. Genetic architecture of laterality defects revealed by whole exome sequencing

Author

Li, Alexander H., Hanchard, Neil A., Azamian, Mahshid, D’Alessandro, Lisa C. A., Coban-Akdemir, Zeynep, Lopez, Keila N., Hall, Nancy J., Dickerson, Heather, Nicosia, Annarita, Fernbach, Susan, Boone, Philip M., Gambin, Tomaz, Karaca, Ender, Gu, Shen, Yuan, Bo, Jhangiani, Shalini N., Doddapaneni, HarshaVardhan, Hu, Jianhong, Dinh, Huyen, Jayaseelan, Joy, Muzny, Donna, Lalani, Seema, Towbin, Jeffrey, Penny, Daniel, Fraser, Charles, Martin, James, Lupski, James R., Gibbs, Richard A., Boerwinkle, Eric, Ware, Stephanie M., and Belmont, John W.

Published
2019
Full Text
View/download PDF

39. Hepatitis B and hepatocellular carcinoma screening among Asian Americans: survey of safety net healthcare providers.

Author

Khalili, Mandana, Guy, Jennifer, Yu, Albert, Li, Alexander, Diamond-Smith, Nadia, Stewart, Susan, Chen, Moon, and Nguyen, Tung

Subjects
Humans, Hepatitis B, Carcinoma, Hepatocellular, Liver Neoplasms, Hepatitis B Vaccines, Data Collection, Odds Ratio, Risk Factors, Adult, Middle Aged, Asian Americans, Female, Male, Early Detection of Cancer, Young Adult, Surveys and Questionnaires, Hepatocellular carcinoma surveillance, Hepatitis B screening, Asian American, Provider practices, Gastroenterology & Hepatology, Clinical Sciences
Abstract

BackgroundPhysician patterns of screening for hepatitis B (HBV) and hepatocellular carcinoma (HCC) among Asian Americans are not well described.AimsTo describe HBV and HCC screening practices among providers with large Asian American populations.MethodsProviders within San Francisco's safety net system were surveyed with respect to HBV and HCC screening practices as well as knowledge, attitudes, and barriers to HCC screening.ResultsAmong the 109 respondents (response rate = 72%), 62% were aged >40, 65% female, 24% Asian, 87% primary care providers, and 48% had >25% Asian patients. Only 76% had screened >50% of their Asian patients for HBV and 43% had vaccinated >50% of eligible patients against HBV. Although 94% knew Asians were disproportionately affected by HCC, only 79% had screened for HCC in >50% of their Asian patients with chronic hepatitis B (CHB). A majority believed that HCC screening in CHB reduces HCC mortality (70%) and is cost-effective (57%). The most common HCC screening modality was AFP with abdominal ultrasound every 6-12 months (63%). Factors associated with HBV screening were familiarity with AASLD guidelines (OR 6.4, 95% CI 1.3-30.1, p = 0.02) and having vaccinated >50% of eligible patients against HBV (OR 2.2, 95% CI 1.1-4.5, p = 0.03). Factors associated with HCC screening using abdominal ultrasound every 6-12 months were having >25% Asian patients (OR = 4.5, 95% CI 1.3-15.3, p = 0.02) and higher HCC knowledge score (OR = 1.9 per item, 95% CI 1.01-3.6, p = 0.045).ConclusionsHBV and HCC screening rates and HBV vaccination among Asians from physician report is suboptimal. HCC screening is associated with having more Asian patients and higher provider knowledge. Provider education is essential in increasing rates of HBV and HCC screening among Asian Americans.

Published
2011

41. Demographics of Common Compressive Neuropathies in the Upper Extremity.

Author

Rocks, Madeline C., Donnelly, Megan R., Li, Alexander, Glickel, Steven Z., Catalano III, Louis W., Posner, Martin, and Hacquebord, Jacques H.

Abstract

Background: The purpose of this study was to compare the demographic differences of the most common peripheral nerve compressions in the upper extremity—carpal tunnel syndrome (CTS), ulnar nerve compression (UNC) at the elbow, combined CTS and UNC, radial tunnel syndrome (RTS), and posterior interosseous nerve syndrome (PINS)—as a means to better understand the etiologies of each. Methods: A retrospective chart review was performed of all patients over the age of 18 years seen at our institution in the 2018 calendar year. International Classification of Diseases, Tenth Revision codes were used to identify patients with diagnoses of upper extremity peripheral nerve compressions. Demographic details and relevant comorbidities were recorded for each patient and compared with controls, who were seen the same calendar year with no neuropathies. χ2 analyses, independent-samples t tests, and multivariate logistic regressions were performed (P <.05). Results: A total of 7448 patients were identified. Those with CTS were mainly women, former smokers, and diabetic (all P <.001) and with a greater average body mass index (BMI) (P =.006) than controls. Patients with UNC were more often men and younger when compared with controls (both P <.001). A history of smoking, diabetes, and average BMI were similar between patients with UNC and controls (all P >.05). Those patients with combined CTS/UNC were mainly men, former smokers, and diabetic (all P <.001) when compared with controls. Patients with RTS/PINS were also mostly men (P =.007), diabetic (P =.042), and were more often current smokers (P <.001). Conclusions: The demographics of patients with various compressive neuropathies were not homogeneous, suggesting different etiologies. [ABSTRACT FROM AUTHOR]

Published
2024
Full Text
View/download PDF

45. PMS2CL interference leading to erroneous identification of a pathogenic PMS2 variant in Black patients

Author

Verma, Anurag, Verma, Shefali S., Bradford, Yuki, Brock, Ashlei, DerOhannessian, Stephanie, Dudek, Scott, Dunn, Joseph, Drivas, Theodore, Haubein, Ned, Hu-Sain, Khadijah, Judy, Renae, Kloter, Ashley, Ko, Yi-An, Livingstone, Meghan, Morrel, Linda, Morse, Colleen, Poindexter, Afiya, Risman, Marjorie, Tran, Teo, Vadivieso, Fred, Weaver, JoEllen, Rader, Daniel J., Ritchie, Marylyn D., Feldman, Michael D., Beechert, Christina, Forsythe, Caitlin, Fuller, Erin D., Gu, Zhenhua, Lattari, Michael, Lopez, Alexander, Overton, John D., Padilla, Maria Sotiropoulos, Pradhan, Manasi, Manoochehri, Kia, Schleicher, Thomas D., Widom, Louis, Wolf, Sarah E., Ulloa, Ricardo H., Averitt, Amelia, Banerjee, Nilanjana, Cantor, Michael, Li, Dadong, Malhotra, Sameer, Sharma, Deepika, Staples, Jeffrey, Bai, Xiaodong, Balasubramanian, Suganthi, Bao, Suying, Boutkov, Boris, Chen, Siying, Eom, Gisu, Habegger, Lukas, Hawes, Alicia, Khalid, Shareef, Krasheninina, Olga, Lanche, Rouel, Mansfield, Adam J., Maxwell, Evan K., Mitra, George, Nafde, Mona, O’Keeffe, Sean, Orelus, Max, Panea, Razvan, Polanco, Tommy, Rasool, Ayesha, Reid, Jeffrey G., Salerno, William, Staples, Jeffrey C., Sun, Kathie, Abecasis, Goncalo, Backman, Joshua, Damask, Amy, Dobbyn, Lee, Ferreira, Manuel Allen Revez, Ghosh, Arkopravo, Gillies, Christopher, Gurski, Lauren, Jorgenson, Eric, Kang, Hyun Min, Kessler, Michael, Kosmicki, Jack, Li, Alexander, Lin, Nan, Liu, Daren, Locke, Adam, Marchini, Jonathan, Marcketta, Anthony, Mbatchou, Joelle, Moscati, Arden, Paulding, Charles, Sidore, Carlo, Stahl, Eli, Watanabe, Kyoko, Ye, Bin, Zhang, Blair, Ziyatdinov, Andrey, Ayer, Ariane, Guvenek, Aysegul, Hindy, George, Coppola, Giovanni, Freudenberg, Jan, Bovijn, Jonas, Siminovitch, Katherine, Praveen, Kavita, Lotta, Luca A., Kapoor, Manav, Haas, Mary, Riaz, Moeen, Verweij, Niek, Sosina, Olukayode, Akbari, Parsa, Nakka, Priyanka, Gelfman, Sahar, Gokhale, Sujit, De, Tanima, Rajagopal, Veera, Shuldiner, Alan, Tzoneva, Gannie, Rodriguez-Flores, Juan, Chen, Esteban, Jones, Marcus B., LeBlanc, Michelle G., Mighty, Jason, Mitnaul, Lyndon J., Nishtala, Nirupama, Rana, Nadia, Hernandez, Jaimee, Baras, Aris, Deubler, Andrew, Economides, Aris, Cappadocia, Jacqueline, Aiello, Lisa B., Kelley, Michael J., Katona, Bryson W., and Maxwell, Kara N.

Published
2024
Full Text
View/download PDF

50. Infantile Myofibromatosis of the Femoral Neck: A Case Report.

Author

Gunderson, Ashlynn, Abraham, Vivek M., Li, Alexander D., Lorimer, Shannon D., and Rocchi, Vanna

Subjects
FEMUR neck, BREECH delivery, CONGENITAL hip dislocation, FEMUR, DYSPLASIA
Abstract

Case: A 15-month-old boy who was being followed for developmental dysplasia of the hip because of breech presentation was discovered to have a solitary infantile myofibroma in the left femoral neck. The patient was avoiding weight-bearing on the affected extremity; thus, stabilization of the femoral neck was performed using a proximal femur locking plate. Postoperatively, he achieved all gross motor developmental milestones. Conclusion: This report is the first to describe a solitary infantile myofibroma in the femoral neck and demonstrates the utility of operative stabilization of these lesions. [ABSTRACT FROM AUTHOR]

Published
2024
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results