Predicting Transcription Regulatory Mechanisms by Systematic Promoter Analysis (2008)
Li-wei Chang, Rakesh Nagarajan, Jeffrey A. Magee, Jeffrey Milbr, Gary D. Stormo
An important part of understanding a biological pathway or a cellular function is to delineate the transcriptional regulatory mechanisms of the genes involved. Key participants in these mechanisms...
Chang, Li Wei, Payton, Jacqueline E, Yuan, Wenlin, Ley, Timothy J, Nagarajan, Rakesh, Stormo, Gary D
Abstract Background Acute myeloid leukemia (AML) comprises a group of diseases characterized by the abnormal development of malignant myeloid cells. Recent studies have demonstrated an important role...
PAP: a comprehensive workbench for mammalian transcriptional regulatory sequence analysis (2007)
Chang, Li-Wei, Fontaine, Burr R., Stormo, Gary D., Nagarajan, Rakesh
Given the recent explosion of publications that employ microarray technology to monitor genome-wide expression and that correlate these expression changes to biological processes or to disease...
Chang, Li-Wei, Nagarajan, Rakesh, Magee, Jeffrey A., Milbrandt, Jeffrey, Stormo, Gary D.
An important aspect of understanding a biological pathway is to delineate the transcriptional regulatory mechanisms of the genes involved. Two important tasks are often encountered when studying...
Chang, Li-Wei, Nagarajan, Rakesh, Magee, Jeffrey A., Milbrandt, Jeffrey, Stormo, Gary D.
An important aspect of understanding a biological pathway is to delineate the transcriptional regulatory mechanisms of the genes involved. Two important tasks are often encountered when studying...
Matthew J. Walter, John S. Park, Xia Li, Andrew A. Lane, Rakesh Nagarajan, ...
Leukemia results from the expansion of self-renewing hematopoietic cells that are thought to contain mutations that contribute to disease initiation and progression. Studies of the gene expression...
Database Challenges in the Integration of Biomedical Data Sets (2004)
Rakesh Nagarajan, Mushtaq Ahmed, Aditya Phatak
The clinical and basic science research domains present exciting and difficult data integration issues. Solving these problems is crucial as current research efforts in the field of biomedicine...
Role of Nkx3.1 Homeodomain Protein in Prostate Carcinogenesis and Differentiation (2003)
Milbrandt, Jeffrey, Svaren, John, Araki, Toshi, Nagarajan, Rakesh, Fahrner, Tim
Cancer of the prostate is the second most common cause of cancer morbidity and mortality in American males, currently accounting for ^30% of new cancer cases in this population. The chromosomal...
Tourtellotte, Warren G., Nagarajan, Rakesh, Bartke, Andrzej, Milbrandt, Jeffrey
The Egr family of zinc finger transcription factors, whose members are encoded by Egr1 (NGFI-A), Egr2 (Krox20), Egr3, and Egr4 (NGFI-C) regulate critical genetic programs involved in cellular growth,...
Deciphering peripheral nerve myelination by using Schwann cell expression profiling
Nagarajan, Rakesh, Le, Nam, Mahoney, Heather, Araki, Toshiyuki, Milbrandt, Jeffrey
Although mutations in multiple genes are associated with inherited demyelinating neuropathies, the molecular components and pathways crucial for myelination remain largely unknown. To approach this...
Walter, Matthew J., Park, John S., Lau, Steven K. M., Li, Xia, Lane, Andrew A., Nagarajan, Rakesh, ...
Leukemia results from the expansion of self-renewing hematopoietic cells that are thought to contain mutations that contribute to disease initiation and progression. Studies of the gene expression...
Le, Nam, Nagarajan, Rakesh, Wang, James Y. T., Araki, Toshiyuki, Schmidt, Robert E., Milbrandt, Jeffrey
Egr2 is a transcription factor required for peripheral nerve myelination in rodents, and mutations in Egr2 are associated with congenital hypomyelinating neuropathy (CHN) in humans. To further study...
Chang, Li-Wei, Nagarajan, Rakesh, Magee, Jeffrey A., Milbrandt, Jeffrey, Stormo, Gary D.
An important aspect of understanding a biological pathway is to delineate the transcriptional regulatory mechanisms of the genes involved. Two important tasks are often encountered when studying...
Tourtellotte, Warren G., Nagarajan, Rakesh, Bartke, Andrzej, Milbrandt, Jeffrey
The Egr family of zinc finger transcription factors, whose members are encoded by Egr1 (NGFI-A), Egr2 (Krox20), Egr3, and Egr4 (NGFI-C) regulate critical genetic programs involved in cellular growth,...
Deciphering peripheral nerve myelination by using Schwann cell expression profiling
Nagarajan, Rakesh, Le, Nam, Mahoney, Heather, Araki, Toshiyuki, Milbrandt, Jeffrey
Although mutations in multiple genes are associated with inherited demyelinating neuropathies, the molecular components and pathways crucial for myelination remain largely unknown. To approach this...
Walter, Matthew J., Park, John S., Lau, Steven K. M., Li, Xia, Lane, Andrew A., Nagarajan, Rakesh, ...
Leukemia results from the expansion of self-renewing hematopoietic cells that are thought to contain mutations that contribute to disease initiation and progression. Studies of the gene expression...
Le, Nam, Nagarajan, Rakesh, Wang, James Y. T., Araki, Toshiyuki, Schmidt, Robert E., Milbrandt, Jeffrey
Egr2 is a transcription factor required for peripheral nerve myelination in rodents, and mutations in Egr2 are associated with congenital hypomyelinating neuropathy (CHN) in humans. To further study...
Chang, Li-Wei, Nagarajan, Rakesh, Magee, Jeffrey A., Milbrandt, Jeffrey, Stormo, Gary D.
An important aspect of understanding a biological pathway is to delineate the transcriptional regulatory mechanisms of the genes involved. Two important tasks are often encountered when studying...
PAP: a comprehensive workbench for mammalian transcriptional regulatory sequence analysis
Chang, Li-Wei, Fontaine, Burr R., Stormo, Gary D., Nagarajan, Rakesh
Given the recent explosion of publications that employ microarray technology to monitor genome-wide expression and that correlate these expression changes to biological processes or to disease...
Chang, Li Wei, Payton, Jacqueline E, Yuan, Wenlin, Ley, Timothy J, Nagarajan, Rakesh, Stormo, Gary D
A dissection of the genetic networks and circuitries is described for two form of leukaemia. Integrating transcription factor binding and gene expression profiling, networks are revealed that underly...
Link, Daniel C., Kunter, Ghada, Kasai, Yumi, Zhao, Yu, Miner, Tracie, McLellan, Michael D., ...
Severe congenital neutropenia (SCN) is an inborn disorder of granulopoiesis. Like most other bone marrow failure syndromes, it is associated with a marked propensity to transform into a...
Freimuth, Robert R., Schauer, Michael W., Lodha, Preeti, Govindrao, Poornima, Nagarajan, Rakesh, Chute, Christopher G.
The caBIG™ Compatibility Review System (CRS) is a web-based application to support compatibility reviews, which certify that software applications that pass the review meet a specific set of...
Tomasson, Michael H., Xiang, Zhifu, Walgren, Richard, Zhao, Yu, Kasai, Yumi, Miner, Tracie, ...
Activating mutations in tyrosine kinase (TK) genes (eg, FLT3 and KIT) are found in more than 30% of patients with de novo acute myeloid leukemia (AML); many groups have speculated that mutations in...
Identification of somatic JAK1 mutations in patients with acute myeloid leukemia
Xiang, Zhifu, Zhao, Yu, Mitaksov, Vesselin, Fremont, Daved H., Kasai, Yumi, Molitoris, AnnaLynn, ...
Somatic mutations in JAK2 are frequently found in myeloproliferative diseases, and gain-of-function JAK3 alleles have been identified in M7 acute myeloid leukemia (AML), but a role for JAK1 in AML...
Payton, Jacqueline E., Grieselhuber, Nicole R., Chang, Li-Wei, Murakami, Mark, Geiss, Gary K., Link, Daniel C., ...
Acute promyelocytic leukemia (APL) is characterized by the t(15;17) chromosomal translocation, which results in fusion of the retinoic acid receptor α (RARA) gene to another gene, most commonly...
Acquired copy number alterations in adult acute myeloid leukemia genomes
Walter, Matthew J., Payton, Jacqueline E., Ries, Rhonda E., Shannon, William D., Deshmukh, Hrishikesh, Zhao, Yu, ...
Cytogenetic analysis of acute myeloid leukemia (AML) cells has accelerated the identification of genes important for AML pathogenesis. To complement cytogenetic studies and to identify genes altered...