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Submissions from 2013

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The clinical isolate Pseudomonas aeruginosa MMA83 carries two copies of the blaNDM-1 gene in a novel genetic context., Branco Jovcic, Zorica Lepsanovic, Jelena Begovic, Bojan Rakonjac, Jelena Perovanovic, Ljubisa Topisirovic, and Milan Kojic

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SNVDis: A proteome-wide analysis service for evaluating nsSNVs in protein functional sites and pathways, Konstantinos Karagiannis, Vahan Simonyan, and Raja Mazumder

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Laminin-111-derived peptides and cancer, Yamato Kikkawa, Kentaro Hozumi, Fumihiko Katagiri, Motoyoshi Nomizu, Hynda K. Kleinman, and Jennifer E. Koblinski

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The glucose signaling network in yeast, Jeong-Ho Kim, Adhiraj Roy, David Jouandot, and Kyu Hong Cho

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CYP2E1, oxidative stress, post-translational modifications and lipid metabolism, M. Raj Lakshman, Mamatha Garige, Maokai A. Gong, Leslie A. Leckey, Ravi Varatharajalu, Robert S. Redman, Devanshi Seth, Paul S. Haber, Kenneth Hirsch, Richard Amdur, and Ruchi Shah

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Structure-based comparative analysis and prediction of N-linked glycosylation sites in evolutionarily distant eukaryotes, Phuc Vinh Nguyen Lam, Radoslav Goldman, Konstantinos Karagiannis, Tejas Narsule, Vahan Simonyan, Valerii Soika, and Raja Mazumder

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The MORC family: New epigenetic regulators of transcription and DNA damage response, Da-Qiang Li, Sujit S. Nair, and Rakesh Kumar

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Metastasis-associated protein 1 is an integral component of the circadian molecular machinery, Da-Qiang Li, Suresh B. Pakala, Sirigiri Divijendra Natha Reddy, Shaohua Peng, Seetharaman Balasenthil, Chu-Xia Deng, Cheng Chi Lee, Michael A. Rea, and Rakesh Kumar

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Mg-supplementation attenuates ritonavir-induced hyperlipidemia, oxidative stress, and cardiac dysfunction in rats, I. Tong Mak, Jay H. Kramer, Xi Chen, Joanna J. Chmielinska, Christopher F. Spurney, and William B. Weglicki

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Derailed estrogen signaling and breast cancer: An authentic couple, Bramanandam Manavathi, Oindrilla Dey, Vijay Narsihma Reddy Gajulapalli, Raghavendra Singh Bhatia, Suresh Bugide, and Rakesh Kumar

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Identification of novel gene targets and functions of p21-activated kinase 1 during DNA damage by gene expression profiling, Mona Motwani, Da-Qiang Li, Anelia Horvath, and Rakesh Kumar

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Extraction of molecular features through exome to transcriptome alignment, Prakriti Mudvari, Kamran Kowsari, Charles Cole, Raja Mazumder, and Anelia Horvath

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Genomic insights into triple-negative and HER2-positive breast cancers using isogenic model systems, Prakriti Mudvari, Kazufumi Ohshiro, Vasudha S. Nair, Anelia Horvath, and Rakesh Kumar

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A core chromatin remodeling factor instructs global chromatin signaling through multivalent reading of nucleosome codes, Sujit S. Nair, Da-Qiang Li, and Rakesh Kumar

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Comparative lipid profiles of milk bank breast milk and infant formulas, Anya Oleynik, Tatiana Eliseeva, and Jack Y. Vanderhoek

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MTA1 promotes STAT3 transcription and pulmonary metastasis in breast cancer, Suresh B. Pakala, Suresh K. Rayala, Rui-An Wang, Kazufumi Ohshiro, Prakriti Mudvari, Sirigiri Divijendra Natha Reddy, Yi Zheng, Ricardo Pires, Sandra Casimiro, M. Radhakrishna Pillai, Luis Costa, and Rakesh Kumar

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PFI-1, a highly selective protein interaction inhibitor, targeting BET bromodomains., Sarah Picaud, David Da Costa, Angeliki Thanasopoulou, Panagis Filippakopoulos, Paul V. Fish, Martin Philpott, Oleg Fedorov, Paul Brennan, Mark E. Bunnage, Dafydd R. Owen, James E. Bradner, Phillippe Taniere, Brendan O'Sullivan, Susanne Muller, Juerg Schwaller, Tatjana Stankovic, and Stefan Knapp

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VBP15: Preclinical characterization of a novel anti-inflammatory delta 9,11 steroid, Erica K.M. Reeves, Eric P. Hoffman, Kanneboyina Nagaraju, Jesse M. Damsker, and John M. McCall

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Mth1 regulates the interaction between the Rgt1 repressor and the Ssn6-Tup1 corepressor complex by modulating PKA-dependent phosphorylation of Rgt1, Adhiraj Roy, Yong Jae Shin, Kyu Hong Cho, and Jeong-Ho Kim

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Construction of yeast strains useful for screening drugs that inhibit glucose uptake and glycolysis, Adhiraj Roy, Yong Jae Shin, and Jeong-Ho Kim

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Differential recruitment of coregulators to the RORA promoter adds another layer of complexity to gene (dys)regulation by sex hormones in autism, Tewarit Sarachana and Valerie Wailin Hu

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Genome-wide identification of transcriptional targets of RORA reveals direct regulation of multiple genes associated with autism spectrum disorder, Tewarit Sarachana and Valerie Wailin Hu

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Role of microRNAs in Autism Spectrum Disorder, T Sarachana and V W. Hu

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TGF-β1 up-regulates the expression of PDGF-β receptor mRNA and induces a delayed PI3K-, AKT-, and p70S6K-dependent proliferative response in activated hepatic stellate cells, Ruchi Shah, Karina Reyes-Gordillo, Jaime Arellanes-Robledo, Carmen G. Lechuga, Zamira Hernandez-Nazara, Adam Cotty, Marcus Rojkind, and M. Raj Lakshman

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Evidence for a novel mechanism of the PAK1 interaction with the Rho-GTPases Cdc42 and Rac, Yong Jae Shin, Eun Hye Kim, Adhiraj Roy, and Jeong-Ho Kim

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Protein kinase CK2 phosphorylates and activates p21-activated kinase 1, Yong Jae Shin, Yong-Bae Kim, and Jeong-Ho Kim

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A novel stratification method in linkage studies to address inter- and intra-family heterogeneity in autism, Zohreh Talebizadeh, Dan E. Arking, and Valerie Wailin Hu

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Novel regulatory small RNAs in Streptococcus pyogenes, Rafael A. Tesorero, Ning Yu, Jordan O. Wright, Juan P. Svencionis, Qiang Cheng, Jeong-Ho Kim, and Kyu Hong Cho

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Draft genome sequences of Burkholderia cenocepacia ET12 lineage strains K56-2 and BC7, John J. Varga, Liliana Losada, Adrian M. Zelazny, Maria Kim, Jamison McCorrison, Lauren Brinkac, Elizabeth P. Sampaio, David E. Greenberg, Indresh Singh, Cheryl Heiner, Meredith Ashby, William C. Nierman, Steven M. Holland, and Joanna B. Goldberg

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Lack of JAK2 activating non-synonymous mutations in diffuse large B-cell tumors: JAK2 deregulation still unexplained, Thomas E. Witzig, Tammy L. Price-Troska, Mary J. Stenson, and Mamta Gupta

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A phase I trial of immunostimulatory CpG 7909 oligodeoxynucleotide and 90yttrium ibritumomab tiuxetan radioimmunotherapy for relapsed B-cell non-Hodgkin lymphoma, Thomas E. Witzig, Gregory A. Wiseman, Matthew J. Maurer, Thomas M. Habermann, Ivana N.M. Micallef, Grzegorz S. Nowakowski, Stephen M. Ansell, Joseph P. Colgan, David J. Inwards, Luis F. Porrata, Brian K. Link, Clive S. Zent, Patrick B. Johnston, Tait D. Shanafelt, Cristine Allmer, Yan W. Asmann, Mamta Gupta, Zuhair K. Ballas, Brian J. Smith, and George J. Weiner

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ARID4A and ARID4B regulate male fertility, a functional link to the AR and RB pathways, Ray-Chang Wu, Ming Jiang, Arthur L. Beaudet, and Mei-Yi Wu

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[Study on in vitro anti-inflammatory activity of total flavonoids from Glycyrrhizae Radix et Rhizoma and its ingredients]., Xiao-Lu Yang, Duo Liu, Ka Bian, and Dan-Dan Zhang

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SRC-3 coactivator regulates cell resistance to cytotoxic stress via TRAF4-mediated p53 destabilization, Ping Yi, Weiya Xia, Ray-Chang Wu, David M. Lonard, Mien-Chie Hung, and Bert W. O'Malley

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Human cytomegalovirus inhibits apoptosis by proteasome-mediated degradation of bax at endoplasmic reticulum-mitochondrion contacts, Aiping Zhang, Richard L. Hildreth, and Anamaris M. Colberg-Poley

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Effects of different extracting fractions from Mori Ramulus and their combinations on inflammatory mediators in macrophage, D. D. Zhang, N. Tang, X. D. Hua, and Ka Bian

Submissions from 2012

Therapeutic management of the hallux rigidus, A Aggarwal, S Kumar, and R. Kumar

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t(X;14)(p11;q32) in MALT lymphoma involving GPR34 reveals a role for GPR34 in tumor cell growth, Stephen M. Ansell, Takashi Akasaka, Ellen McPhail, Michelle Manske, Esteban Braggio, Tammy Price-Troska, Steven Ziesmer, Frank Secreto, Rafael Fonseca, Mamta Gupta, Mark Law, Thomas E. Witzig, Martin J.S. Dyer, Ahmet Dogan, James R. Cerhan, and Anne J. Novak

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Development of an analytical HPLC methodology to study the effects of thymosin β4 on actin in sputum of cystic fibrosis patients, Mahnaz Badamchian, Ali A. Damavandy, and Allan L. Goldstein

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Expression of p14 ARF, p15 INK4b, p16 INK4a and skp2 increases during esophageal squamous cell cancer progression, Peng Bai, Xue Xiao, Juan Zou, Lin Cui, Tri M. Bui-Nguyen, Jinsong Liu, Jianguo Xiao, Bin Chang, Jin Wu, and He Wang

Expression of p14 ARF, p15 INK4b, p16 INK4a and skp2 increases during esophageal squamous cell cancer progression, P Bai, X Xiao, J Zou, L Cui, and TM Bui Nguyen

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The Role of MicroRNAs in the Management of Liver Cancer ., Krishna K. Banaudha and Mukesh Verma

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NOS-2 signaling and cancer therapy, Ka Bian, Farshid Ghassemi, Alex Sotolongo, Alan Siu, Lauren Shauger, Alex Kots, and Ferid Murad

NOS-2 signaling and cancer therapy, K Bian, F Ghassemi, A Sotolongo, A Siu, and L Shauger

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Cryptococcus gattii Comparative Genomics and Transcriptomics: A NIH/NIAID White Paper, V. Chaturvedi and William C. Nierman

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Hydrogen peroxide alters splicing of soluble guanylyl cyclase and selectively modulates expression of splicing regulators in human cancer cells, Gilbert J. Cote, Wen Zhu, Anthony Thomas, Emil Martin, Ferid Murad, and Iraida G. Sharina

Hydrogen Peroxide alters splicing of soluble Guanylyl cyclase and selectively modulates expression of splicing regulators in human cancer cells, GJ Cote, W Zhu, A Thomas, E Martin, and F Murad

Transcriptomic landscape of breast cancers through mRNA sequencing, J Eswaran, D Cyanam, P Mudvari, SDN Reddy, and SB Pakala

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Transcriptomic landscape of breast cancers through mRNA sequencing, Jeyanthy Eswaran, Dinesh Cyanam, Prakriti Mudvari, Sirigiri Divijendra Natha Reddy, Suresh Pakala, Sujit S. Nair, Liliana Florea, Suzanne A.W. Fuqua, Sucheta Godbole, and Rakesh Kumar

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The Global Cancer Genomics Consortium: Interfacing genomics and cancer medicine, Jeyanthy Eswaran, Sudeep Gupta, Amit Dutt, Masakazu Toi, M. Radhakrishna Pillai, Luis Costa, Stefan Knapp, Rajendra Badwe, and Rakesh Kumar

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Molecular pathways: targeting p21-activated kinase 1 signaling in cancer--opportunities, challenges, and limitations, Jeyanthy Eswaran, Da-Qiang Li, Anil Shah, and Rakesh Kumar

The Global Cancer Genomics Consortium: Interfacing genomics and cancer medicine, J Eswaran, S Gupta, A Dutt, M Toi, and MR Pillai

Molecular pathways: Targeting p21-activated kinase 1 signaling in cancer - Opportunities, challenges, and limitations, J Eswaran, D. Li, and R Kumar

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The bromodomain interaction module, Panagis Filippakopoulos and Stefan Knapp

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Histone recognition and large-scale structural analysis of the human bromodomain family, Panagis Filippakopoulos, Sarah Picaud, Maria Mangos, Tracy Keates, Jean-Philippe Lambert, Dalia Barsyte-Lovejoy, Ildiko Felletar, Rudolf Volkmer, Susanne Muller, Tony Pawson, Anne-Claude Gingras, Cheryl H. Arrowsmith, and Stefan Knapp

The bromodomain interaction module, P Knapp, S Filippakopoulos

Histone recognition and large-scale structural analysis of the human bromodomain family, P Filippakopoulos, S Picaud, M Mangos, T Keates, and J. Lambert

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Recent advances in biocuration: Meeting report from the Fifth International Biocuration Conference, Pascale Gaudet, Cecilia Arighi, Frederic Bastian, Alex Bateman, Judith A. Blake, Raja Mazumder, and +17 additional authors

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Biocuration virtual issue 2012., Pascale Gaudet and Raja Mazumder

Biocuration virtual issue 2012, P Gaudet and R Mazumder

Thymosin ?4: A multi-functional regenerative peptide. Basic properties and clinical applications, AL Goldstein, E Hannappel, G Sosne, and HK Kleinman

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Introduction for thymosins in health and disease, Allan L. Goldstein and Enrico Garaci

Advances in the regenerativeproperties and clinical applications of Thymosin β4, Allan L. Goldstein, Ewald Hannappel, and J. R. Sa-Reed

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Thymosin β4: a multi-functional regenerative peptide. Basic properties and clinical applications, Allan L. Goldstein, Ewald Hannappel, Gabriel Sosne, and Hynda K. Kleinman

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Elevated serum IL-10 levels in diffuse large B-cell lymphoma: A mechanism of aberrant JAK2 activation, Mamta Gupta, Jing Jing Han, Mary Stenson, Matthew Maurer, Linda Wellik, Guangzhen Hu, Steve Ziesmer, Ahmet Dogan, and Thomas E. Witzig

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Expression of Myc, but not pSTAT3, is an adverse prognostic factor for diffuse large B-cell lymphoma treated with epratuzumab/R-CHOP, Mamta Gupta, Matthew J. Maurer, Linda E. Wellik, Mark E. Law, Jing Jing Han, Nazan Ozsan, Ivana N. Micallef, Ahmet Dogan, and Thomas E. Witzig

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Dual mTORC1/mTORC2 inhibition diminishes Akt activation and induces Puma-dependent apoptosis in lymphoid malignancies, Mamta Gupta, Andrea E. Wahner Hendrickson, Seong Seok Yun, Jing Jing Han, Paula A. Schneider, Brian D. Koh, Mary J. Stenson, Linda E. Wellik, Jennifer C. Shing, Kevin L. Peterson, Karen S. Flatten, Allan D. Hess, B. Douglas Smith, Judith E. Karp, Sharon Barr, Thomas E. Witzig, and Scott H. Kaufmann

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Regulation of STAT3 by histone deacetylase-3 in diffuse large B-cell lymphoma: Implications for therapy, M. Gupta, J. J. Han, M. Stenson, L. Wellik, and T. E. Witzig

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Altering the landscape for women in clinical chemistry: Perspectives from multigenerational leaders., Shannon Haymond, Amy K. Saenger, Helen M. Free, Jocelyn M. Hicks, Marilyn A. Huestis, Andrea Rita Horvath, and Corinne R. Fantz

Altering the landscape for women in clinical chemistry: Perspectives from multigenerational leaders, S Haymond, AK Saenger, HM Free, JM Hicks, and MA Huestis

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Is retinoic acid-related orphan receptor-alpha (RORA) a target for gene-environment interactions contributing to autism?, Valerie Wailin Hu

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Subphenotype-dependent disease markers for diagnosis and personalized treatment of autism spectrum disorders, Valerie Wailin Hu

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The value of blood cells in autism research, Valerie Wailin Hu

Is retinoic acid-related orphan receptor-alpha (RORA) a target for gene-environment interactions contributing to autism?, V.W Hu

Subphenotype-dependent disease markers for diagnosis and personalized treatment of autism spectrum disorders, VW. Hu

pRb or its cousins: Who controls the family business?, K Itahana and GP Dimri

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pRb or its cousins: who controls the family business?, Koji Itahana and Goberdhan P. Dimri

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d-Propranolol protects against oxidative stress and progressive cardiac dysfunction in iron overloaded rats, Jay H. Kramer, Christopher F. Spurney, Micaela Iantorno, Constantine Tziros, Joanna J. Chmielinska, and I. Tong Mak

d-propranolol protects against oxidative stress and progressive cardiac dysfunction in iron overloaded rats, JH Kramer, CF Spurney, M Iantorno, C Tziros, and JJ Chmielinska

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High-throughput screening for genes that prevent excess DNA replication in human cells and for molecules that inhibit them, Chrissie Y. Lee, Ronald L. Johnson, Jennifer Wichterman-Kouznetsova, Rajarshi Guha, Marc Ferrer, Pinar Tuzmen, Scott E. Marvin, Wenge Zhu, and Melvin L. DePamphilis

High-throughput screening for genes that prevent excess DNA replication in human cells and for molecules that inhibit them, CY Lee, RL Johnson, J Wichterman-Kouznetsova, R Guha, and M Ferrer

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MORC2 signaling integrates phosphorylation-dependent, ATPase-coupled chromatin remodeling during the DNA damage response, Da-Qiang Li, Sujit S. Nair, Kazufumi Ohshiro, Anupam Kumar, Vasudha S. Nair, Suresh B. Pakala, Sirigiri Divijendra Natha Reddy, Rajendra P. Gajula, Jeyanthy Eswaran, L. Aravind, and Rakesh Kumar

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Metastasis-associated protein 1/nucleosome remodeling and histone deacetylase complex in cancer, Da-Qiang Li, Suresh B. Pakala, Sujit S. Nair, Jeyanthy Eswaran, and Rakesh Kumar

Metastasis-associated protein 1/nucleosome remodeling and histone deacetylase complex in cancer, D. Li, SS Nair, J Eswaran, and R Kumar

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Hepatitis B virus X protein stabilizes amplified in breast cancer 1 protein and cooperates with it to promote human hepatocellular carcinoma cell invasiveness, Yonghong Liu, Zhangwei Tong, Ting Li, Qiang Chen, Luting Zhao, Wengang Li, Ray-Chang Wu, and Chundong Wu

Hepatitis B virus X protein stabilizes amplified in breast cancer 1 protein and cooperates with it to promote human hepatocellular carcinoma cell invasiveness, Y Liu, Z Tong, T Li, Q Chen, and L Zhuo

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And-1 is required for the stability of histone acetyltransferase Gcn5., Y. Li, Aimee N. Jaramillo-Lambert, Y. Yang, R. Williams, Norman H. Lee, and Wenge Zhu

And-1 is required for the stability of histone acetyltransferase Gcn5, Y. Li, A.N. Jaramillo-Lambert, Y. Yang, R. Williams, and N.H. Lee

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Current status of thymosin research: evidence for the existence of a family of thymic factors that control T-cell maturation*.., Teresa L.K. Low, Gary B. Thurman, Carolina Chincarini, John E. McClure, Gailen D. Marshall, Shu-Kuang Hu, and Allan L. Goldstein

Current status of thymosin research: evidence for the existence of a family of thymic factors that control T-cell maturation*., TL Low, GB Thurman, C Chincarini, JE McClure, and GD Marshall

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Angiotensin II promotes iron accumulation and depresses PGI2 and NO synthesis in endothelial cells: effects of losartan and propranolol analogs, I. Tong Mak, Kenneth M. Landgraf, Joanna J. Chmielinska, and William B. Weglicki

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Angiotensin II promotes iron accumulation and depresses PGI₂ and NO synthesis in endothelial cells: effects of losartan and propranolol analogs, I. Tong Mak, Kenneth M. Landgraf, Joanna J. Chmielinska, and William B. Weglicki

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Metastasis-associated protein 1 drives tumor cell migration and invasion through transcriptional repression of RING finger protein 144A, Hezlin Marzook, Da-Qiang Li, Vasudha S. Nair, Prakriti Mudvari, Sirigiri Divijendra Natha Reddy, Suresh B. Pakala, T. R. Santhoshkumar, M. Radhakrishna Pillai, and Rakesh Kumar

Metastasis-associated protein 1 drives tumor cell migration and invasion through transcriptional repression of RING finger protein 144A, H Marzook, D. Li, P Mudvari, SDN Reddy, and SB Pakala

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Small-molecule inhibition of BRDT for male contraception., Martin M. Matzuk, Michael R. McKeown, Panagis Filippakopoulos, Qinglei Li, Lang Ma, Julio E. Agno, Madeline E. Lemieux, Sarah Picaud, Richard M. Yu, Jun Qi, Stefan Knapp, and James E. Bradner

Small-molecule inhibition of BRDT for male contraception, MM Matzuk, MR McKeown, P Filippakopoulos, Q Li, and L Ma

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Proteome-wide analysis of single-nucleotide variations in the N-glycosylation sequon of human genes, Raja Mazumder, Krishna Sudeep Morampudi, Mona Motwani, Sona Vasudevan, and Radoslav Goldman

Proteome-wide analysis of single-nucleotide variations in the N-glycosylation sequon of human genes, R Mazumder, KS Morampudi, M Motwani, S Vasudevan, and R Goldman

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Curcumin induces differentiation of embryonic stem cells through possible modulation of nitric oxide-cyclic GMP pathway., Kalpana Mujoo, Lubov E Nikonoff, Vladislav G Sharin, Nathan S Bryan, Alexander Y Kots, and Ferid Murad

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Curcumin induces differentiation of embryonic stem cells through possible modulation of nitric oxide-cyclic GMP pathway., Kalpana Mujoo, Lubov E Nikonoff, Vladislav G Sharin, Nathan S Bryan, Alexander Y. Kots, and Ferid Murad