The value of avian genomics to the conservation of wildlife (2009)
Romanov, Michael N, Tuttle, Elaina M, Houck, Marlys L, Modi, William S, Chemnick, Leona G, Korody, Marisa L, ...
Abstract Background Genomic studies in non-domestic avian models, such as the California condor and white-throated sparrow, can lead to more comprehensive conservation plans and provide clues for...
Abstract A variety of techniques that specifically target human gene sequences for differential capture from a genomic sample, coupled with next-generation, massively parallel DNA sequencing...
A burst of segmental duplications in the genome of the African great ape ancestor (2009)
Marqués-Bonet, Tomàs, Kidd, Jeffrey M., Ventura, Mario, Graves, Tina A., Cheng, Ze, Hillier, LaDeana W., ...
5 pages, 4 figures.-- Supplementary information (3 files) available at: http://www.nature.com/nature/journal/v457/n7231/suppinfo/nature07744.html
Girirajan, Santhosh, Chen, Lin, Graves, Tina, Marques-Bonet, Tomas, Ventura, Mario, Fronick, Catrina, ...
The gibbon genome exhibits extensive karyotypic diversity with an increased rate of chromosomal rearrangements during evolution. In an effort to understand the mechanistic origin and implications of...
VarScan: variant detection in massively parallel sequencing of individual and pooled samples (2009)
Koboldt, Daniel C., Chen, Ken, Wylie, Todd, Larson, David E., McLellan, Michael D., Mardis, Elaine R., ...
Summary: Massively parallel sequencing technologies hold incredible promise for the study of DNA sequence variation, particularly the identification of variants affecting human disease. The...
Cancer genome sequencing: a review (2009)
Mardis, Elaine R., Wilson, Richard K.
A genomic era of cancer studies is developing rapidly, fueled by the emergence of next-generation sequencing technologies that provide exquisite sensitivity and resolution. This article discusses...
Somatic mutations affect key pathways in lung adenocarcinoma (2008)
Ding, Li, Getz, Gad, Wheeler, David A., Mardis, Elaine R., McLellan, Michael D., Cibulskis, Kristian, ...
Determining the genetic basis of cancer requires comprehensive analyses of large collections of histopathologically well- classified primary tumours. Here we report the results of a collaborative...
Marks, Jennifer L., Gong, Yixuan X., Chitale, Dhananjay, Golas, Ben, McLellan, Michael D., Kasai, Yumi, ...
Somatic mutations affect key pathways in lung adenocarcinoma (2008)
Ding, Li, Getz, Gad, Wheeler, David A., Mardis, Elaine R., McLellan, Michael D., Cibulskis, Kristian, ...
Genome analysis of the platypus reveals unique signatures of evolution (2008)
Warren, Wesley C., Hillier, LaDeana W., Marshall Graves, Jennifer A., Birney, Ewan, Ponting, Chris P., Grützner, Frank, ...
We present a draft genome sequence of the platypus, Ornithorhynchus anatinus. This monotreme exhibits a fascinating combination of reptilian and mammalian characters. For example, platypuses have a...
Conifers have a unique small RNA silencing signature (2008)
Downloaded From, Elena V. Dolgosheina, Ryan D. Morin, Gozde Aksay, S. Cenk Sahinalp, Vincent Magrini, ...
Access the most recent version at doi: 10.1261/rna.1052008
Downloaded From, Ryan D. Morin, Gozde Aksay, Elena Dolgosheina, H. Alex, Er Ebhardt, ...
Comparative analysis of the small RNA transcriptomes of Pinus
Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa (2008)
Morin, Ryan D., Aksay, Gozde, Dolgosheina, Elena, Ebhardt, H. Alexander, Magrini, Vincent, Mardis, Elaine R., ...
The diversity of microRNAs and small-interfering RNAs has been extensively explored within angiosperms by focusing on a few key organisms such as Oryza sativa and Arabidopsis thaliana. A deeper...
Conifers have a unique small RNA silencing signature (2008)
Dolgosheina, Elena V., Morin, Ryan D., Aksay, Gozde, Sahinalp, S. Cenk, Magrini, Vincent, Mardis, Elaine R., ...
Plants produce small RNAs to negatively regulate genes, viral nucleic acids, and repetitive elements at either the transcriptional or post-transcriptional level in a process that is referred to as...
Characterizing the cancer genome in lung adenocarcinoma (2007)
Weir, Barbara A., Woo, Michele S., Getz, Gad, Perner, Sven, Ding, Li, Beroukhim, Rameen, ...
Somatic alterations in cellular DNA underlie almost all human cancers(1). The prospect of targeted therapies(2) and the development of high-resolution, genome-wide approaches(3-8) are now spurring...
Design and implementation of a generalized laboratory data model (2007)
Wendl, Michael C, Smith, Scott, Pohl, Craig S, Dooling, David J, Chinwalla, Asif T, Crouse, Kevin, ...
Abstract Background Investigators in the biological sciences continue to exploit laboratory automation methods and have dramatically increased the rates at which they can generate data. In many...
Margulies, Elliott H., Cooper, Gregory M., Asimenos, George, Thomas, Daryl J., Dewey, Colin N., Siepel, Adam, ...
A key component of the ongoing ENCODE project involves rigorous comparative sequence analyses for the initially targeted 1% of the human genome. Here, we present orthologous sequence generation,...
Genome-wide diversity and selective pressure in the human rhinovirus (2007)
Kistler, Amy L, Webster, Dale R, Rouskin, Silvi, Magrini, Vince, Credle, Joel J, Schnurr, David P, ...
Abstract Background The human rhinoviruses (HRV) are one of the most common and diverse respiratory pathogens of humans. Over 100 distinct HRV serotypes are known, yet only 6 genomes are available....
Chen, Ken, McLellan, Michael D., Ding, Li, Wendl, Michael C., Kasai, Yumi, Wilson, Richard K., ...
Small insertions and deletions (indels) and single nucleotide polymorphisms (SNPs) are common genetic variants that are thought to be associated with a wide variety of human diseases. Owing to the...
Characterizing the cancer genome in lung adenocarcinoma (2007)
Weir, Barbara A., Woo, Michele S., Getz, Gad, Perner, Sven, Ding, Li, Beroukhim, Rameen, ...
Design and implementation of a generalized laboratory data model (2007)
Michael C Wendl, Scott Smith, Craig S Pohl, David J Dooling, Asif T Chinwalla, Kevin Crouse, ...
Extending assembly of short DNA sequences to handle error (2007)
Jeck, William R., Reinhardt, Josephine A., Baltrus, David A., Hickenbotham, Matthew T., Magrini, Vincent, Mardis, Elaine R., ...
Inexpensive de novo genome sequencing, particularly in organisms with small genomes, is now possible using several new sequencing technologies. Some of these technologies such as that from Illumina's...
Bainbridge, Matthew N, Warren, René L, Hirst, Martin, Romanuik, Tammy, Zeng, Thomas, Go, Anne, ...
Abstract Background High throughput sequencing-by-synthesis is an emerging technology that allows the rapid production of millions of bases of data. Although the sequence reads are short, they can...
Anticipating the $1,000 genome (2006)
Abstract A new generation of DNA-sequencing platforms will become commercially available over the next few years. These instruments will enable re-sequencing of human genomes at a previously...
Slawson, Elizabeth E, Shaffer, Christopher D, Malone, Colin D, Leung, Wilson, Kellmann, Elmer, Shevchek, Rachel B, ...
Abstract Background Chromosome four of Drosophila melanogaster , known as the dot chromosome, is largely heterochromatic, as shown by immunofluorescent staining with antibodies to heterochromatin...
Application of a superword array in genome assembly (2006)
Huang, Xiaoqiu, Yang, Shiaw-Pyng, Chinwalla, Asif T., Hillier, LaDeana W., Minx, Patrick, Mardis, Elaine R., ...
We introduce a data structure called a superword array for finding quickly matches between DNA sequences. The superword array possesses some desirable features of the lookup table and suffix array....
Molecular refinement of gibbon genome rearrangement (2006)
Roberto, Roberta, Capozzi, Oronzo, Wilson, Richard K., Mardis, Elaine R., Lomiento, Mariana, Tuzun, Eray, ...
The gibbon karyotype is known to be extensively rearranged when compared to the human and to the ancestral primate karyotype. By combining a bioinformatics (paired-end sequence analysis) approach and...
Initial sequence of the chimpanzee genome and comparison with the human genome (2005)
Mikkelsen, Tarjei S., Hillier, LaDeana W., Eichler, Evan E., Zody, Michael C., Jaffe, David B., Yang, Shiaw-Pyng, ...
Here we present a draft genome sequence of the common chimpanzee (Pan troglodytes). Through comparison with the human genome, we have generated a largely complete catalogue of the genetic differences...
Susan K. Flowers, Carla Easter, Andrea Holmes, Brian Cohen, Z April E, Elaine R. Mardis, ...
Sequencing of the human genome has ushered in a new era of biology. The technologies developed to facilitate the sequencing of the human genome are now being applied to the sequencing of other...
Application of a superword array in genome assembly (2005)
Xiaoqiu Huang, Shiaw-pyng Yang, Asif T. Chinwalla, Ladeana W. Hillier, Patrick Minx, Elaine R. Mardis, ...
We introduce a data structure called a superword array for finding quickly matches between DNA sequences. The superword array possesses some desirable features of the lookup table and suffix array....
The repetitive landscape of the chicken genome (2005)
Wicker, Thomas, Robertson, Jon S., Schulze, Stefan R., Feltus, F. Alex, Magrini, Vincent, Morrison, Jason A., ...
Cot-based cloning and sequencing (CBCS) is a powerful tool for isolating and characterizing the various repetitive components of any genome, combining the established principles of DNA reassociation...
A physical map of the chicken genome (2004)
Wallis, John W, Aerts, Jan, Groenen, Martien A M, Layman, Dan, Graves, Tina A, ...
Strategies for assembling large, complex genomes have evolved to include a combination of whole-genome shotgun sequencing and hierarchal map-assisted sequencing. Whole-genome maps of all types can...
Fosmid-Based Physical Mapping of the Histoplasma capsulatum Genome (2004)
Magrini, Vincent, Warren, Wesley C., Wallis, John, Goldman, William E., Xu, Jian, Mardis, Elaine R., ...
A fosmid library representing 10-fold coverage of the Histoplasma capsulatum G217B genome was used to construct a restriction-based physical map. The data obtained from three restriction endonuclease...
The Repetitive Landscape of the Chicken Genome (2004)
Wicker, Thomas, Robertson, Jon S., Schulze, Stefan R., Feltus, F. Alex, Magrini, Vincent, Morrison, Jason A., ...
Cot-based cloning and sequencing (CBCS) is a powerful tool for isolating and characterizing the various repetitive components of any genome, combining the established principles of DNA reassociation...
The Repetitive Landscape of the Chicken Genome (2004)
Wicker, Thomas, Robertson, Jon S., Schulze, Stefan R., Feltus, F. Alex, Magrini, Vincent, Morrison, Jason A., ...
Cot-based cloning and sequencing (CBCS) is a powerful tool for isolating and characterizing the various repetitive components of any genome, combining the established principles of DNA reassociation...
Viral Discovery and Sequence Recovery Using DNA Microarrays (2003)
David Wang, Anatoly Urisman, Yu-Tsueng Liu, Michael Springer, Thomas G. Ksiazek, Dean D. Erdman, ...
Know your enemy. Description of the ‘virus gene chip’ that helped to classify the SARS virus as a novel coronavirus.
The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics (2003)
Lincoln D. Stein, Zhirong Bao, Darin Blasiar, Thomas Blumenthal, Michael R. Brent, Nansheng Chen, ...
With the Caenorhabditis briggsae genome now in hand, C. elegans biologists have a powerful new research tool to refine their knowledge of gene function in C. elegans and to study the path of genome...
Viral Discovery and Sequence Recovery Using DNA Microarrays (2003)
David Wang, Anatoly Urisman, Yu-Tsueng Liu, Michael Springer, Thomas G. Ksiazek, Dean D. Erdman, ...
Because of the constant threat posed by emerging infectious diseases and the limitations of existing approaches used to identify new pathogens, there is a great demand for new technological methods...
The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics (2003)
Lincoln D. Stein, Zhirong Bao, Darin Blasiar, Thomas Blumenthal, Michael R. Brent, Nansheng Chen, ...
The soil nematodes Caenorhabditis briggsae and Caenorhabditis elegans diverged from a common ancestor roughly 100 million years ago and yet are almost indistinguishable by eye. They have the same...
A Pneumatic Device for Rapid Loading of DNA Sequencing Gels (1998)
Panussis, Dimitrios A., Cook, Mark W., Rifkin, Lisa L., Snider, Jacqueline E., Strong, Joseph T., McGrane, Rebecca M., ...
Viral Discovery and Sequence Recovery Using DNA Microarrays
Wang, David, Urisman, Anatoly, Liu, Yu-Tsueng, Springer, Michael, Ksiazek, Thomas G, Erdman, Dean D, ...
Because of the constant threat posed by emerging infectious diseases and the limitations of existing approaches used to identify new pathogens, there is a great demand for new technological methods...
The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics
Stein, Lincoln D, Bao, Zhirong, Blasiar, Darin, Blumenthal, Thomas, Brent, Michael R, Chen, Nansheng, ...
The soil nematodes Caenorhabditis briggsae and Caenorhabditis elegans diverged from a common ancestor roughly 100 million years ago and yet are almost indistinguishable by eye. They have the same...
Ley, Timothy J., Minx, Patrick J., Walter, Matthew J., Ries, Rhonda E., Sun, Hui, McLellan, Michael, ...
In this pilot study, we used primary human acute myeloid leukemia (AML) cell genomes as templates for exonic PCR amplification, followed by high-throughput resequencing, analyzing ≈7 million base...
A Pneumatic Device for Rapid Loading of DNA Sequencing Gels
Panussis, Dimitrios A., Cook, Mark W., Rifkin, Lisa L., Snider, Jacqueline E., Strong, Joseph T., McGrane, Rebecca M., ...
This work describes the design and construction of a device that facilitates the loading of DNA samples onto polyacrylamide gels for detection in the Perkin Elmer/Applied Biosystems (PE/ABI) 373 and...
Fosmid-Based Physical Mapping of the Histoplasma capsulatum Genome
Magrini, Vincent, Warren, Wesley C., Wallis, John, Goldman, William E., Xu, Jian, Mardis, Elaine R., ...
A fosmid library representing 10-fold coverage of the Histoplasma capsulatum G217B genome was used to construct a restriction-based physical map. The data obtained from three restriction endonuclease...
The repetitive landscape of the chicken genome
Wicker, Thomas, Robertson, Jon S., Schulze, Stefan R., Feltus, F. Alex, Magrini, Vincent, Morrison, Jason A., ...
Cot-based cloning and sequencing (CBCS) is a powerful tool for isolating and characterizing the various repetitive components of any genome, combining the established principles of DNA reassociation...
Walter, Matthew J., Park, John S., Ries, Rhonda E., Lau, Steven K. M., McLellan, Michael, Jaeger, Sara, ...
PU.1 is a member of the ETS family of transcription factors that is known to be important for hematopoietic development. Recently, haploinsufficiency for PU.1 has been shown to cause a shift in...
Flowers, Susan K, Easter, Carla, Holmes, Andrea, Cohen, Brian, Bednarski, April E, Mardis, Elaine R, ...
Sequencing of the human genome has ushered in a new era of biology. The technologies developed to facilitate the sequencing of the human genome are now being applied to the sequencing of other...
Application of a superword array in genome assembly
Huang, Xiaoqiu, Yang, Shiaw-Pyng, Chinwalla, Asif T., Hillier, LaDeana W., Minx, Patrick, Mardis, Elaine R., ...
We introduce a data structure called a superword array for finding quickly matches between DNA sequences. The superword array possesses some desirable features of the lookup table and suffix array....
Slawson, Elizabeth E, Shaffer, Christopher D, Malone, Colin D, Leung, Wilson, Kellmann, Elmer, Shevchek, Rachel B, ...
Sequencing and analysis of fosmid hybridization to the dot chromosomes of Drosophila virilis and D. melanogaster suggest that repetitive elements and density are important in determining higher-order...
A Drosophila Model of Multiple Endocrine Neoplasia Type 2
Read, Renee D., Goodfellow, Paul J., Mardis, Elaine R., Novak, Nancy, Armstrong, Jon R., Cagan, Ross L.
Dominant mutations in the Ret receptor tyrosine kinase lead to the familial cancer syndrome multiple endocrine neoplasia type 2 (MEN2). Mammalian tissue culture studies suggest that RetMEN2 mutations...
Chen, Swaine L., Hung, Chia-Seui, Xu, Jian, Reigstad, Christopher S., Magrini, Vincent, Sabo, Aniko, ...
Escherichia coli is a model laboratory bacterium, a species that is widely distributed in the environment, as well as a mutualist and pathogen in its human hosts. As such, E. coli represents an...
Liao, Robert S., Storch, Gregory A., Buller, Richard S., Orscheln, Rachel C., Mardis, Elaine R., Armstrong, Jon R., ...
We performed a blinded study to compare repetitive-sequence PCR and multilocus sequence typing for genotyping hospital- and community-acquired methicillin-resistant Staphylococcus aureus (MRSA). The...
Viral Discovery and Sequence Recovery Using DNA Microarrays
Wang, David, Urisman, Anatoly, Liu, Yu-Tsueng, Springer, Michael, Ksiazek, Thomas G, Erdman, Dean D, ...
Because of the constant threat posed by emerging infectious diseases and the limitations of existing approaches used to identify new pathogens, there is a great demand for new technological methods...
The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics
Stein, Lincoln D, Bao, Zhirong, Blasiar, Darin, Blumenthal, Thomas, Brent, Michael R, Chen, Nansheng, ...
The soil nematodes Caenorhabditis briggsae and Caenorhabditis elegans diverged from a common ancestor roughly 100 million years ago and yet are almost indistinguishable by eye. They have the same...
Ley, Timothy J., Minx, Patrick J., Walter, Matthew J., Ries, Rhonda E., Sun, Hui, McLellan, Michael, ...
In this pilot study, we used primary human acute myeloid leukemia (AML) cell genomes as templates for exonic PCR amplification, followed by high-throughput resequencing, analyzing ≈7 million base...
A Pneumatic Device for Rapid Loading of DNA Sequencing Gels
Panussis, Dimitrios A., Cook, Mark W., Rifkin, Lisa L., Snider, Jacqueline E., Strong, Joseph T., McGrane, Rebecca M., ...
This work describes the design and construction of a device that facilitates the loading of DNA samples onto polyacrylamide gels for detection in the Perkin Elmer/Applied Biosystems (PE/ABI) 373 and...
Fosmid-Based Physical Mapping of the Histoplasma capsulatum Genome
Magrini, Vincent, Warren, Wesley C., Wallis, John, Goldman, William E., Xu, Jian, Mardis, Elaine R., ...
A fosmid library representing 10-fold coverage of the Histoplasma capsulatum G217B genome was used to construct a restriction-based physical map. The data obtained from three restriction endonuclease...
The repetitive landscape of the chicken genome
Wicker, Thomas, Robertson, Jon S., Schulze, Stefan R., Feltus, F. Alex, Magrini, Vincent, Morrison, Jason A., ...
Cot-based cloning and sequencing (CBCS) is a powerful tool for isolating and characterizing the various repetitive components of any genome, combining the established principles of DNA reassociation...
Walter, Matthew J., Park, John S., Ries, Rhonda E., Lau, Steven K. M., McLellan, Michael, Jaeger, Sara, ...
PU.1 is a member of the ETS family of transcription factors that is known to be important for hematopoietic development. Recently, haploinsufficiency for PU.1 has been shown to cause a shift in...
Flowers, Susan K, Easter, Carla, Holmes, Andrea, Cohen, Brian, Bednarski, April E, Mardis, Elaine R, ...
Sequencing of the human genome has ushered in a new era of biology. The technologies developed to facilitate the sequencing of the human genome are now being applied to the sequencing of other...
Application of a superword array in genome assembly
Huang, Xiaoqiu, Yang, Shiaw-Pyng, Chinwalla, Asif T., Hillier, LaDeana W., Minx, Patrick, Mardis, Elaine R., ...
We introduce a data structure called a superword array for finding quickly matches between DNA sequences. The superword array possesses some desirable features of the lookup table and suffix array....
Chen, Swaine L., Hung, Chia-Seui, Xu, Jian, Reigstad, Christopher S., Magrini, Vincent, Sabo, Aniko, ...
Escherichia coli is a model laboratory bacterium, a species that is widely distributed in the environment, as well as a mutualist and pathogen in its human hosts. As such, E. coli represents an...
Slawson, Elizabeth E, Shaffer, Christopher D, Malone, Colin D, Leung, Wilson, Kellmann, Elmer, Shevchek, Rachel B, ...
Sequencing and analysis of fosmid hybridization to the dot chromosomes of Drosophila virilis and D. melanogaster suggest that repetitive elements and density are important in determining higher-order...
A Drosophila Model of Multiple Endocrine Neoplasia Type 2
Read, Renee D., Goodfellow, Paul J., Mardis, Elaine R., Novak, Nancy, Armstrong, Jon R., Cagan, Ross L.
Dominant mutations in the Ret receptor tyrosine kinase lead to the familial cancer syndrome multiple endocrine neoplasia type 2 (MEN2). Mammalian tissue culture studies suggest that RetMEN2 mutations...
Liao, Robert S., Storch, Gregory A., Buller, Richard S., Orscheln, Rachel C., Mardis, Elaine R., Armstrong, Jon R., ...
We performed a blinded study to compare repetitive-sequence PCR and multilocus sequence typing for genotyping hospital- and community-acquired methicillin-resistant Staphylococcus aureus (MRSA). The...
Oh, Jung D., Kling-Bäckhed, Helene, Giannakis, Marios, Xu, Jian, Fulton, Robert S., Fulton, Lucinda A., ...
Helicobacter pylori produces acute superficial gastritis in nearly all of its human hosts. However, a subset of individuals develops chronic atrophic gastritis (ChAG), a condition characterized in...
Anticipating the $1,000 genome
New technologies will soon enable re-sequencing of human genomes at a much lower cost. The $1,000 human genome is an important goal for research and clinical diagnostics.
Marks, Jenifer L., McLellan, Michael D., Zakowski, Maureen F., Lash, Alex E., Kasai, Yumi, Broderick, Stephen, ...
Genome-wide diversity and selective pressure in the human rhinovirus
Kistler, Amy L, Webster, Dale R, Rouskin, Silvi, Magrini, Vince, Credle, Joel J, Schnurr, David P, ...
Molecular refinement of gibbon genome rearrangements
Roberto, Roberta, Capozzi, Oronzo, Wilson, Richard K., Mardis, Elaine R., Lomiento, Mariana, Tuzun, Eray, ...
The gibbon karyotype is known to be extensively rearranged when compared to the human and to the ancestral primate karyotype. By combining a bioinformatics (paired-end sequence analysis) approach and...
PolyScan: An automatic indel and SNP detection approach to the analysis of human resequencing data
Chen, Ken, McLellan, Michael D., Ding, Li, Wendl, Michael C., Kasai, Yumi, Wilson, Richard K., ...
Small insertions and deletions (indels) and single nucleotide polymorphisms (SNPs) are common genetic variants that are thought to be associated with a wide variety of human diseases. Owing to the...
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
Margulies, Elliott H., Cooper, Gregory M., Asimenos, George, Thomas, Daryl J., Dewey, Colin N., Siepel, Adam, ...
A key component of the ongoing ENCODE project involves rigorous comparative sequence analyses for the initially targeted 1% of the human genome. Here, we present orthologous sequence generation,...
Walter, Matthew J., Ries, Rhonda E., Armstrong, Jon R., Park, John S., Mardis, Elaine R., Ley, Timothy J.
Expression of a bcr-3 isoform of retinoic acid receptor α–promyelocytic leukemia (RARα-PML) in mice expressing a bcr-1 isoform of PML-RARα is associated with increased penetrance of murine acute...
Design and implementation of a generalized laboratory data model
Wendl, Michael C, Smith, Scott, Pohl, Craig S, Dooling, David J, Chinwalla, Asif T, Crouse, Kevin, ...
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...
Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa
Morin, Ryan D., Aksay, Gozde, Dolgosheina, Elena, Ebhardt, H. Alexander, Magrini, Vincent, Mardis, Elaine R., ...
The diversity of microRNAs and small-interfering RNAs has been extensively explored within angiosperms by focusing on a few key organisms such as Oryza sativa and Arabidopsis thaliana. A deeper...
Transcriptome-Wide Identification of Novel Imprinted Genes in Neonatal Mouse Brain
Wang, Xu, Sun, Qi, McGrath, Sean D., Mardis, Elaine R., Soloway, Paul D., Clark, Andrew G.
Imprinted genes display differential allelic expression in a manner that depends on the sex of the transmitting parent. The degree of imprinting is often tissue-specific and/or developmental...
Conifers have a unique small RNA silencing signature
Dolgosheina, Elena V., Morin, Ryan D., Aksay, Gozde, Sahinalp, S. Cenk, Magrini, Vincent, Mardis, Elaine R., ...
Plants produce small RNAs to negatively regulate genes, viral nucleic acids, and repetitive elements at either the transcriptional or post-transcriptional level in a process that is referred to as...
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...
A variety of techniques that specifically target human gene sequences for differential capture from a genomic sample, coupled with next-generation, massively parallel DNA sequencing instruments, is...
Sequencing human–gibbon breakpoints of synteny reveals mosaic new insertions at rearrangement sites
Girirajan, Santhosh, Chen, Lin, Graves, Tina, Marques-Bonet, Tomas, Ventura, Mario, Fronick, Catrina, ...
The gibbon genome exhibits extensive karyotypic diversity with an increased rate of chromosomal rearrangements during evolution. In an effort to understand the mechanistic origin and implications of...
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...