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1. Full Text Novel TRAF1‐ALK fusion identified by deep RNA sequencing of anaplastic large cell lymphoma
by Feldman, Andrew L and Vasmatzis, George and Asmann, Yan W and Davila, Jaime and Middha, Sumit and Eckloff, Bruce W and Johnson, Sarah H and Porcher, Julie C and Ansell, Stephen M and Caride, Ariel
Genes, Chromosomes and Cancer, ISSN 1045-2257, 11/2013, Volume 52, Issue 11, pp. 1097 - 1102
Chromosomal translocations leading to expression of abnormal fusion proteins play a major role in the pathogenesis of various hematologic malignancies. The... 
ALK | NECROSIS-FACTOR RECEPTOR | ONCOLOGY | DISEASE | KINASE | GENES | GENETICS & HEREDITY | TUMOR | CANCER | PERIPHERAL T-CELL | Translocation, Genetic | Sequence Analysis, RNA | Receptor Protein-Tyrosine Kinases - genetics | Humans | Middle Aged | TNF Receptor-Associated Factor 1 - genetics | Gene Fusion | Male | Lymphoma, Large-Cell, Anaplastic - genetics | Proteins | RNA | Lymphomas | ALK protein
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2. Full Text Mate pair sequencing of whole-genome-amplified DNA following laser capture microdissection of prostate
by Murphy, Stephen J and Cheville, John C and Zarei, Shabnam and Johnson, Sarah H and Sikkink, Robert A and Kosari, Farhad and Feldman, Andrew L and Eckloff, Bruce W and Jeffrey Karnes, R and Vasmatzis, George
DNA Research, ISSN 1340-2838, 10/2012, Volume 19, Issue 5, pp. 395 - 406
whole-genome amplified | mate pair sequencing | prostrate cancer | laser capture microdissection
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3. Full Text Human arsenic methyltransferase (AS3MT) pharmacogenetics: Gene resequencing and functional genomics studies
by Wood, Thomas C and Salavagionne, Oreste E and Mukherjee, Baidehi and Wang, Liewei and Klumpp, Annette F and Thomae, Bianca A and Eckloff, Bruce W and Schaid, Daniel J and Wieben, Eric D and Weinshilboum, Richard M
Journal of Biological Chemistry, ISSN 0021-9258, 03/2006, Volume 281, Issue 11, pp. 7364 - 7373
Arsenic contaminates ground water worldwide. Methylation is an important reaction in the biotransformation of arsenic. We set out to study the pharmacogenetics... 
ENZYMATIC METHYLATION | MONOMETHYLARSONOUS ACID MMA(III) | PROTEASOMAL DEGRADATION | HUMAN HEPATOCYTES | BIOCHEMISTRY & MOLECULAR BIOLOGY | SEQUENCE | RABBIT LIVER | THIOREDOXIN REDUCTASE | TOXICITY | POLYMORPHISM | ASSOCIATION | Arsenites - pharmacology | Haplotypes | Threonine - chemistry | Alternative Splicing | Exons | Genomics | Humans | Open Reading Frames | Methyltransferases - genetics | Cercopithecus aethiops | Molecular Sequence Data | Arsenic - chemistry | DNA Primers - chemistry | Genetic Variation | Isoleucine - chemistry | Methyltransferases - physiology | Transfection | Base Sequence | Cloning, Molecular | Transcription, Genetic | Genes, Reporter | Amino Acid Sequence | Cell Line | Gene Expression | Pharmacogenetics | Sodium Compounds - pharmacology | Sequence Analysis, DNA | Blotting, Western | Linkage Disequilibrium | Polymorphism, Genetic | Animals | 5' Untranslated Regions | Protein Isoforms | Polymorphism, Single Nucleotide | Kinetics | Mutation | COS Cells | DNA, Complementary - metabolism
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4. Full Text Erratum to: Conserved recurrent gene mutations correlate with pathway deregulation and clinical outcomes of lung adenocarcinoma in never-smokers
by Sun, Zhifu and Wang, Liang and Eckloff, Bruce W and Deng, Bo and Wang, Yi and Wampfler, Jason A and Jang, JinSung and Wieben, Eric D and Jen, Jin and You, Ming and Yang, Ping
BMC medical genomics, ISSN 1755-8794, 01/2017, Volume 10, Issue 1, p. 1
  Data availability for article [1]: The raw sequence data have been deposited into European Genome-phenome Archive (EGA) with accession number EGAS00001000776... 
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5. Full Text Abstract 5585: Integrated DNA/RNA sequencing for discovery and orthogonal validation of expressed fusion genes in peripheral T-cell lymphomas
by Feldman, Andrew L and Vasmatzis, George and Asmann, Yan W and Johnson, Sarah H and Eckloff, Bruce W and Middha, Sumit and Davila, Jaime I and Kurtin, Paul J and Link, Brian K and Ansell, Stephen M and Cerhan, James R
Cancer Research, ISSN 0008-5472, 10/2014, Volume 74, Issue 19 Supplement, pp. 5585 - 5585
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6. Full Text Su1885 DNA Methylation Markers for the Specific and Universal Detection of Colorectal Neoplasia: Selection by Deep Sequencing
by Taylor, William R and Middha, Sumit and Eckloff, Bruce W and Yab, Tracy C and Mahoney, Douglas W and Boardman, Lisa and Lidgard, Graham P and Ahlquist, David A
Gastroenterology, ISSN 0016-5085, 2012, Volume 142, Issue 5, pp. S-527 - S-527
Gastroenterology and Hepatology
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7. Full Text Abstract 2548: Targeted sequencing to identify rare variants in colorectal cancer
by DeRycke, Melissa S and Gunawardena, Shanaka R and Middha, Sumit and McDonnell, Shannon K and Riska, Shaun M and Fogarty, Zachary C and Eckloff, Bruce W and Schaid, Daniel J and Goode, Ellen L and Thibodeau, Stephen N
Cancer Research, ISSN 0008-5472, 04/2013, Volume 73, Issue 8 Supplement, pp. 2548 - 2548
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8. Full Text Abstract 2209: Contribution ofFKBP5genetic variation to gemcitabine treatment and survival in pancreatic cancer
by Ellsworth, Katarzyna A and Eckloff, Bruce W and Li, Liang and Moon, Irene and Fridley, Brooke L and Jenkins, Greg D and Carlson, Erin and Brisbin, Abra and Abo, Ryan and Bamlet, William and Petersen, Gloria and Wieben, Eric D and Wang, Liewei
Cancer Research, ISSN 0008-5472, 04/2013, Volume 73, Issue 8 Supplement, pp. 2209 - 2209
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9. Full Text Abstract 3100: Identifying novel chromosomal fusions out of RNAseq data from oropharyngeal cancers
by Wang, Vivian W and Laborde, Rebecca R and Asmann, Yan W and Li, Yang and Ma, Jian and Eckloff, Bruce W and Tombers, Nicole M and Olsen, Steven M and Moore, Eric J and Olsen, Kerry D and Smith, David I
Cancer Research, ISSN 0008-5472, 04/2012, Volume 72, Issue 8 Supplement, pp. 3100 - 3100
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10. The genomic landscape of small intestine neuroendocrine tumors
by Banck, Michaela S and Kanwar, Rahul and Kulkarni, Amit A and Boora, Ganesh K and Metge, Franziska and Kipp, Benjamin R and Zhang, Lizhi and Thorland, Erik C and Minn, Kay T and Tentu, Ramesh and Eckloff, Bruce W and Wieben, Eric D and Wu, Yanhong and Cunningham, Julie M and Nagorney, David M and Gilbert, Judith A and Ames, Matthew M and Beutler, Andreas S
Journal of Clinical Investigation, ISSN 0021-9738, 06/2013, Volume 123, Issue 6, pp. 2502 - 2502
Small intestine neuroendocrine tumors (SI-NETs) are the most common malignancy of the small bowel. Several clinical trials target PI3K/Akt/mTOR signaling;... 
1-Phosphatidylinositol 3-kinase
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11. Full Text NovelTRAF1-ALKfusion identified by deep RNA sequencing of anaplastic large cell lymphoma
: TRAF1-ALKFusion in ALCL
by Feldman, Andrew L and Vasmatzis, George and Asmann, Yan W and Davila, Jaime and Middha, Sumit and Eckloff, Bruce W and Johnson, Sarah H and Porcher, Julie C and Ansell, Stephen M and Caride, Ariel
Genes, Chromosomes and Cancer, ISSN 1045-2257, 11/2013, Volume 52, Issue 11, pp. 1097 - 1102
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12. Full Text Comparison Of Single Nucleotide Mutations (SNVs) and Copy Number Variants (CNVs) Detection In Formalin Fixed Paraffin Embedded (FFPE) and Paired Frozen Tumor Tissues Using Target Capture and Sequencing Approach
by Asmann, Yan W and Sarangi, Vivekananda and Eckloff, Bruce W and Cunningham, Julie M and McDonough, Samantha J and Lee, Yeon K and Wieben, Eric D and Dogan, Ahmet and Feldman, Andrew L and Slager, Susan L and Cerhan, James R and Novak, Anne J
Blood, ISSN 0006-4971, 11/2013, Volume 122, Issue 21, pp. 1784 - 1784
Abstract Background Next Generation sequencing (NGS) is a powerful tool to identify somatic mutations associated with tumor onset and drug response. While it... 
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13. Full Text Assessment of Multiple Myeloma IGHV Intraclonal Variation by Massively Parallel Pyrosequencing
by Tschumper, Renee C and Asmann, Yan W and Hossain, Asif and Huddleston, Paul M and Wu, Xiaosheng and Dispenzieri, Angela and Eckloff, Bruce W and Jelinek, Diane F
Blood, ISSN 0006-4971, 11/2011, Volume 118, Issue 21, pp. 1814 - 1814
Abstract Abstract 1814 Multiple myeloma (MM) is an incurable hematologic disorder characterized by the accumulation of plasma cells (PCs) in the bone marrow... 
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14. Full Text Androgen receptor variant AR-V9 is coexpressed with AR-V7 in prostate cancer metastases and predicts abiraterone resistance
by Kohli, Manish and Ho, Yeung and Hillman, David W and Van Etten, Jamie L and Henzler, Christine and Yang, Rendong and Sperger, Jamie M and Li, Yingming and Tseng, Elizabeth and Hon, Ting and Clark, Tyson and Tan, Winston and Carlson, Rachel E and Wang, Liguo and Sicotte, Hugues and Thai, Ho and Jimenez, Rafael and Huang, Haojie and Vedell, Peter T and Eckloff, Bruce W and Quevedo, Jorge F and Pitot, Henry C and Costello, Brian A and Jen, Jin and Wieben, Eric D and Silverstein, Kevin A.T and Lang, Joshua M and Wang, Liewei and Dehm, Scott M
Clinical Cancer Research, ISSN 1078-0432, 08/2017, Volume 23, Issue 16, pp. 4704 - 4715
Purpose: Androgen receptor (AR) variant AR-V7 is a ligand-independent transcription factor that promotes prostate cancer resistance to AR-targeted therapies.... 
DEPRIVATION THERAPY | TARGET GENES | ONCOLOGY | RNA-SEQ | IN-SITU HYBRIDIZATION | SPLICE VARIANTS | EXPRESSION | PROGRESSION | CHEMOTHERAPY | ENZALUTAMIDE | Cell Proliferation - genetics | Prospective Studies | Humans | Receptors, Androgen - metabolism | Androstenes - therapeutic use | Male | Prostatic Neoplasms, Castration-Resistant - drug therapy | Prostatic Neoplasms, Castration-Resistant - metabolism | Prostatic Neoplasms, Castration-Resistant - genetics | Genetic Variation | Disease-Free Survival | Drug Resistance, Neoplasm - genetics | Neoplasm Metastasis | Protein Isoforms - metabolism | Receptors, Androgen - genetics | RNA Interference | Cell Line, Tumor | Gene Expression Regulation, Neoplastic - drug effects | Protein Isoforms - genetics | Tumor cells | Antisera | Metastasis | Multivariate analysis | Gene expression | Tissues | Metastases | Gene sequencing | Polymerase chain reaction | Confidence intervals | Androgens | Ribonucleic acids | Castration | Experimental design | Isoforms | Ligands | Mathematical models | Acetic acid | Prostate cancer | Prostate | Cancer
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15. Full Text The genomic landscape of small intestine neuroendocrine tumors
by Banck, Michaela S and Kanwar, Rahul and Kulkarni, Amit A and Boora, Ganesh K and Metge, Franziska and Kipp, Benjamin R and Zhang, Lizhi and Thorland, Erik C and Minn, Kay T and Tentu, Ramesh and Eckloff, Bruce W and Wieben, Eric D and Wu, Yanhong and Cunningham, Julie M and Nagorney, David M and Gilbert, Judith A and Ames, Matthew M and Beutler, Andreas S
Journal of Clinical Investigation, ISSN 0021-9738, 06/2013, Volume 123, Issue 6, pp. 2502 - 2508
Small intestine neuroenclocrine tumors (SI-NETs) are the most common malignancy of the small bowel. Several clinical trials target PI3K/Akt/mTOR signaling;... 
MEDICINE, RESEARCH & EXPERIMENTAL | CELLS | INHIBITION | PATHWAY GENES | CARCINOID-TUMORS | MUTATIONS | LEUKEMIA | CANCER GENOMES | Intestinal Neoplasms - mortality | RNA Splice Sites | Genes, Neoplasm | Genomics | Humans | Signal Transduction - genetics | Sequence Analysis, DNA | Proto-Oncogene Proteins c-akt - genetics | Neuroendocrine Tumors - genetics | Exome | Base Sequence | Neuroendocrine Tumors - mortality | Polymorphism, Single Nucleotide | Mutation | Intestinal Neoplasms - genetics | Physiological aspects | Cellular signal transduction | Genetic aspects | Research | Library collections | Genes | Data processing | Genomes | Genetic diversity | Histology | Bioinformatics | Methods | Tumors | Cancer | Index Medicus | Abridged Index Medicus
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16. Full Text Prevalence of pathogenic mutations in cancer predisposition genes among pancreatic cancer patients
by Hu, Chunling and Hart, Steven N and Bamlet, William R and Moore, Raymond M and Nandakumar, Kannabiran and Eckloff, Bruce W and Lee, Yean K and Petersen, Gloria M and McWilliams, Robert R and Couch, Fergus J
Cancer Epidemiology Biomarkers and Prevention, ISSN 1055-9965, 01/2016, Volume 25, Issue 1, pp. 207 - 211
The prevalence of germline pathogenic mutations in a comprehensive panel of cancer predisposition genes is not well defined for patients with pancreatic ductal... 
LYNCH-SYNDROME | PUBLIC, ENVIRONMENTAL & OCCUPATIONAL HEALTH | ONCOLOGY | HIGH-RISK | FAMILIES | FREQUENCY | BRCA2 | Genetic Predisposition to Disease | Genetic Testing | Prevalence | Prognosis | Prospective Studies | Follow-Up Studies | Humans | Middle Aged | Pancreatic Neoplasms - pathology | Male | Pancreatic Neoplasms - genetics | Mutation - genetics | Carcinoma, Pancreatic Ductal - pathology | Carcinoma, Pancreatic Ductal - genetics | Aged, 80 and over | Adult | Female | Aged | Biomarkers, Tumor - genetics | Neoplasm Staging | pancreatic cancer | Predisposition genes | germline | panel-testing
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17. Full Text Discovery of recurrent t(6;7)(p25.3;q32.3) translocations in ALK-negative anaplastic large cell lymphomas by massively parallel genomic sequencing
by Feldman, Andrew L and Dogan, Ahmet and Smith, David I and Law, Mark E and Ansell, Stephen M and Johnson, Sarah H and Porcher, Julie C and Özsan, Nazan and Wieben, Eric D and Eckloff, Bruce W and Vasmatzis, George
Blood, ISSN 0006-4971, 01/2011, Volume 117, Issue 3, pp. 915 - 919
The genetics of peripheral T-cell lymphomas are poorly understood. The most well-characterized abnormalities are translocations involving ALK, occurring in... 
SPECIFICITY | LEUKEMIA | HEMATOLOGY | EXPRESSION | CANCER | DELETION | REGION | Translocation, Genetic | Chromosome Breakpoints | Humans | Middle Aged | Molecular Sequence Data | In Situ Hybridization, Fluorescence | Male | Mitogen-Activated Protein Kinase Phosphatases - genetics | Receptor Protein-Tyrosine Kinases | Chromosomes, Human, Pair 6 - genetics | Protein-Tyrosine Kinases - genetics | Base Sequence | Dual-Specificity Phosphatases - genetics | Aged, 80 and over | Adult | Female | Aged | Lymphoma, Large-Cell, Anaplastic - pathology | MicroRNAs - genetics | Chromosomes, Human, Pair 7 - genetics | Sequence Analysis, DNA - methods | Chromosome Breakage | Lymphoma, Large-Cell, Anaplastic - genetics | Lymphoid Neoplasia
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18. Full Text Multi-Platform Analysis of MicroRNA Expression Measurements in RNA from Fresh Frozen and FFPE Tissues
by Kolbert, Christopher P and Feddersen, Rod M and Rakhshan, Fariborz and Grill, Diane E and Simon, Gyorgy and Middha, Sumit and Jang, Jin Sung and Simon, Vernadette and Schultz, Debra A and Zschunke, Michael and Lingle, Wilma and Carr, Jennifer M and Thompson, E. Aubrey and Oberg, Ann L and Eckloff, Bruce W and Wieben, Eric D and Li, Peter and Yang, Ping and Jen, Jin
PLoS ONE, ISSN 1932-6203, 01/2013, Volume 8, Issue 1, p. e52517
MicroRNAs play a role in regulating diverse biological processes and have considerable utility as molecular markers for diagnosis and monitoring of human... 
LUNG-CANCER | CAENORHABDITIS-ELEGANS | TRANSCRIPTOME | INITIATION | LIN-14 | MULTIDISCIPLINARY SCIENCES | HEART-FAILURE | GENE-EXPRESSION | C-ELEGANS | TRANSLATION | TECHNOLOGY | Paraffin Embedding | Cell Line | Reproducibility of Results | Oligonucleotide Array Sequence Analysis | Humans | Gene Expression Profiling | High-Throughput Nucleotide Sequencing | MicroRNAs - genetics | Tissue Fixation | Formaldehyde | Measurement | MicroRNA | Genes | Genetic research | Comparative analysis | Gene expression | Medical research | Health sciences | Platforms | Biotechnology | Disease | Lung cancer | Genomics | MiRNA | Genomes | Paraffin | Tissues | Biological activity | Studies | Ribonucleic acids | Reproducibility | MicroRNAs | Cell lines | Informatics
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19. Full Text Serine hydroxymethyltransferase 1 and 2: gene sequence variation and functional genomic characterization
: SHMT1 and SHMT2 functional genomics
by Hebbring, Scott J and Chai, Yubo and Ji, Yuan and Abo, Ryan P and Jenkins, Gregory D and Fridley, Brooke and Zhang, Jianping and Eckloff, Bruce W and Wieben, Eric D and Weinshilboum, Richard M
Journal of Neurochemistry, ISSN 0022-3042, 02/2012, pp. no - no
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20. Full Text Draft Genome Sequences of Nine Pseudomonas aeruginosa Strains, Including Eight Clinical Isolates: TABLE 1
by Jeraldo, Patricio and Cunningham, Scott A and Quest, Daniel and Sikkink, Robert A and O’Brien, Daniel and Eckloff, Bruce W and Patel, Robin and Chia, Nicholas
Genome Announcements, ISSN 2169-8287, 10/2015, Volume 3, Issue 5
We report on nine draft genomes of Pseudomonas aeruginosa isolates, assembled using a hybrid paired-end and Nextera mate-pair library approach. Eight are of... 
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