Biomedical Statistics and Informatics

Research Output 2007 2019

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Article
2017
269 Citations (Scopus)

Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma

The Cancer Genome Atlas Research Network & Chandan, V. S., Jun 15 2017, In : Cell. 169, 7, p. 1327-1341.e23

Research output: Contribution to journalArticle

Hepatocellular Carcinoma
Genes
DNA
MicroRNAs
Gene expression
1 Citation (Scopus)

Comprehensive genomic profiling of a rare thyroid follicular dendritic cell sarcoma

Davila, J. I., Starr, J. S., Attia, S., Wang, C., Knudson, R. A., Necela, B. M., Sarangi, V., Sun, Z. D., Ren, Y., Casler, J. D., Menke, D. M., Oliver, G. R., Joseph, R. W., Copland, J. A. III., Parker, A., Kocher, J-P., Thompson, E. A., Smallridge, R. C. & Asmann, Y., Sep 15 2017, In : Rare Tumors. 9, 2, p. 50-53 4 p., 6834.

Research output: Contribution to journalArticle

Follicular Dendritic Cell Sarcoma
Missense Mutation
Mutation
Gene Fusion
Neoplasms
1 Citation (Scopus)

Early genetic aberrations in patients with sporadic colorectal cancer

Druliner, B. R., Ruan, X., Sicotte, H., O'Brien, D., Liu, H. D., Kocher, J-P. & Boardman, L. A., 2017, (Accepted/In press) In : Molecular Carcinogenesis.

Research output: Contribution to journalArticle

Colorectal Neoplasms
Loss of Heterozygosity
Chromosomal Instability
Colon
Neoplasms
12 Citations (Scopus)

Experience with precision genomics and tumor board, indicates frequent target identification, but barriers to delivery

Bryce, A. H., Egan, J. B., Borad, M. J., Stewart, A. K., Nowakowski, G. S., Chanan Khan, A. A., Patnaik, M. M., Ansell, S. M., Banck, M. S., Robinson, S., Mansfield, A., Klee, E. W., Oliver, G. R., McCormick, J. B., Huneke, N. E., Tagtow, C. M., Jenkins, R. B., Rumilla, K. M., Kerr, S. E., Kocher, J-P. & 5 others, Beck, S. A., Fernandez-Zapico, M. E., Farrugia, G., Lazaridis, K. N. & Mc Williams, R. R., 2017, In : Oncotarget. 8, 16, p. 27145-27154 10 p.

Research output: Contribution to journalArticle

Genomics
Neoplasms
Precision Medicine
Standard of Care
Therapeutics
7 Citations (Scopus)

Exploring genetic associations with ceRNA regulation in the human genome

Li, M. J., Zhang, J., Liang, Q., Xuan, C., Wu, J., Jiang, P., Li, W., Zhu, Y., Wang, P., Fernandez, D., Shen, Y., Chen, Y., Kocher, J-P., Yu, Y., Sham, P. C., Wang, J., Liu, J. S. & Liu, X. S., 2017, In : Nucleic Acids Research. 45, 10, p. 5653-5665 13 p.

Research output: Contribution to journalArticle

Human Genome
MicroRNAs
RNA
Quantitative Trait Loci
Genome-Wide Association Study
7 Citations (Scopus)

Indel detection from RNA-seq data: Tool evaluation and strategies for accurate detection of actionable mutations

Sun, Z. D., Bhagwate, A., Prodduturi, N., Yang, P. & Kocher, J-P., Nov 1 2017, In : Briefings in Bioinformatics. 18, 6, p. 973-983 11 p.

Research output: Contribution to journalArticle

RNA
Mutation
RNA Sequence Analysis
Nucleotides
Tumors
11 Citations (Scopus)

Linnorm: improved statistical analysis for single cell RNA-seq expression data

Yip, S. H., Wang, P., Kocher, J-P., Sham, P. C. & Wang, J., Dec 15 2017, In : Nucleic Acids Research. 45, 22, p. e179

Research output: Contribution to journalArticle

Single-Cell Analysis
RNA Sequence Analysis
RNA
Noise
Cluster Analysis
1 Citation (Scopus)

MTCTScan: A comprehensive platform for annotation and prioritization of mutations affecting drug sensitivity in cancers

Li, M. J., Yao, H., Huang, D., Liu, H., Liu, Z., Xu, H., Qin, Y., Prinz, J., Xia, W., Wang, P., Yan, B., Tran, N., Kocher, J-P., Sham, P. C. & Wang, J., Jul 3 2017, In : Nucleic Acids Research. 45, W1, p. W215-W221

Research output: Contribution to journalArticle

Mutation
Pharmaceutical Preparations
Neoplasms
Therapeutics
Precision Medicine
3 Citations (Scopus)

Myosin-1E interacts with FAK proline-rich region 1 to induce fibronectin-type matrix

Heim, J. B., Squirewell, E. J., Neu, A., Zocher, G., Sominidi-Damodaran, S., Wyles, S. P., Nikolova, E., Behrendt, N., Saunte, D. M., Lock-Andersen, J., Gaonkar, K. S., Yan, H. D., Sarkaria, J. N., Krendel, M., Van Deursen, J., Sprangers, R., Stehle, T., Böttcher, R. T., Lee, J. H., Ordog, T. & 1 others, Meves, A., Apr 11 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 15, p. 3933-3938 6 p.

Research output: Contribution to journalArticle

Focal Adhesion Protein-Tyrosine Kinases
Myosins
Fibronectins
Proline
Phosphotransferases
85 Citations (Scopus)

Pembrolizumab in patients with CLL and Richter transformation or with relapsed CLL

Ding, W. D., LaPlant, B. R., Call, T. G., Parikh, S. A., Leis, J. F., He, R., Shanafelt, T. D., Sinha, S., Le-Rademacher, J., Feldman, A. L., Habermann, T. M., Witzig, T. E., Wiseman, G. A., Lin, Y., Asmus, E., Nowakowski, G. S., Conte, M. J., Bowen, D. A., Aitken, C. N., Van Dyke, D. L. & 15 others, Greipp, P. T., Liu, X., Wu, X., Zhang, H., Secreto, C. R., Tian, S., Braggio, E. D., Wellik, L. E., Micallef, I., Viswanatha, D. S., Yan, H. D., Chanan Khan, A. A., Kay, N. E., Dong, H. M. & Ansell, S. M., Jun 29 2017, In : Blood. 129, 26, p. 3419-3427 9 p.

Research output: Contribution to journalArticle

B-Cell Chronic Lymphocytic Leukemia
Tumors
Blocking Antibodies
Ligands
pembrolizumab
6 Citations (Scopus)

UClncR: Ultrafast and comprehensive long non-coding RNA detection from RNA-seq

Sun, Z. D., Nair, A., Chen, X., Prodduturi, N., Wang, J. & Kocher, J-P., Dec 1 2017, In : Scientific Reports. 7, 1, 14196.

Research output: Contribution to journalArticle

Long Noncoding RNA
RNA
Genes
Research Personnel
Phenotype
2016
4 Citations (Scopus)

An analytical workflow for accurate variant discovery in highly divergent regions

Tian, S., Yan, H. D., Neuhauser, C. & Slager, S. L., Sep 2 2016, In : BMC Genomics. 17, 1, 703.

Research output: Contribution to journalArticle

Workflow
HLA Antigens
Exome
Single Nucleotide Polymorphism
Chromosomes, Human, Pair 6
63 Citations (Scopus)

Circular RNAs and their associations with breast cancer subtypes

Nair, A. A., Niu, N., Tang, X., Thompson, K. J., Wang, L. M., Kocher, J-P., Subramanian, S. & Kalari, K. R., 2016, In : Oncotarget. 7, 49, p. 80967-80979 13 p.

Research output: Contribution to journalArticle

Breast Neoplasms
Workflow
Atlases
Neoplasms
Genome
17 Citations (Scopus)

Enhancer of zeste homolog 2 inhibition stimulates bone formation and mitigates bone loss caused by ovariectomy in skeletally mature mice

Dudakovic, A., Camilleri, E. T., Riester, S. M., Paradise, C. R., Gluscevic, M., O'Toole, T. M., Thaler, R., Evans, J. M., Yan, H. D., Subramaniam, M., Hawse, J. R., Stein, G. S., Montecino, M. A., McGee-Lawrence, M. E., Westendorf, J. J. & van Wijnen, A. J., Nov 18 2016, In : Journal of Biological Chemistry. 291, 47, p. 24594-24606 13 p.

Research output: Contribution to journalArticle

Ovariectomy
Osteogenesis
Bone
Bone and Bones
Paracrine Communication
Bioinformatics
9 Citations (Scopus)

Genome-Wide Epigenetic Studies in Human Disease: A Primer on -Omic Technologies

Yan, H. D., Tian, S., Slager, S. L., Sun, Z. D. & Ordog, T., Jan 15 2016, In : American Journal of Epidemiology. 183, 2, p. 96-109 14 p.

Research output: Contribution to journalArticle

Epigenomics
Genome
Technology
Chromatin
DNA Methylation
64 Citations (Scopus)

GWASdb v2: An update database for human genetic variants identified by genome-wide association studies

Li, M. J., Liu, Z., Wang, P., Wong, M. P., Nelson, M. R., Kocher, J-P., Yeager, M., Sham, P. C., Chanock, S. J., Xia, Z. & Wang, J., 2016, In : Nucleic Acids Research. 44, D1, p. D869-D876

Research output: Contribution to journalArticle

Genome-Wide Association Study
Medical Genetics
Single Nucleotide Polymorphism
Databases
Publications
6 Citations (Scopus)

Impact of post-alignment processing in variant discovery from whole exome data

Tian, S., Yan, H. D., Kalmbach, M. & Slager, S. L., Oct 3 2016, In : BMC Bioinformatics. 17, 1, 403.

Research output: Contribution to journalArticle

Exome
Post-processing
Single Nucleotide Polymorphism
Divergence
Alignment
17 Citations (Scopus)

MC11C4: a pilot randomized, placebo-controlled, double-blind study of venlafaxine to prevent oxaliplatin-induced neuropathy

Zimmerman, C., Atherton, P. J., Pachman, D., Seisler, D., Wagner-Johnston, N., Dakhil, S., Lafky, J. M., Qin, R., Grothey, A. F. & Loprinzi, C. L., Mar 1 2016, In : Supportive Care in Cancer. 24, 3, p. 1071-1078 8 p.

Research output: Contribution to journalArticle

oxaliplatin
Double-Blind Method
Placebos
Physicians
Venlafaxine Hydrochloride
33 Citations (Scopus)

Measure transcript integrity using RNA-seq data

Wang, L., Nie, J., Sicotte, H., Li, Y., Eckel-Passow, J. E., Dasari, S., Vedell, P. T., Barman, P., Wang, L. M., Weinshiboum, R., Jen, J., Huang, H., Kohli, M. & Kocher, J-P., Feb 3 2016, In : BMC Bioinformatics. 17, 1

Research output: Contribution to journalArticle

RNA
Integrity
RNA Stability
Degradation
Gene expression
16 Citations (Scopus)

Predicting regulatory variants with composite statistic

Li, M. J., Pan, Z., Liu, Z., Wu, J., Wang, P., Zhu, Y., Xu, F., Xia, Z., Sham, P. C., Kocher, J-P., Li, M., Liu, J. S. & Wang, J., Sep 15 2016, In : Bioinformatics. 32, 18, p. 2729-2736 8 p.

Research output: Contribution to journalArticle

Precision Medicine
Genomics
Statistic
Virulence
Composite

Targeted alignment and end repair elimination increase alignment and methylation measure accuracy for reduced representation bisulfite sequencing data

Baheti, S., Kanwar, R., Goelzenleuchter, M., Kocher, J-P., Beutler, A. S. & Sun, Z. D., Feb 27 2016, In : BMC Genomics. 17, 1, 149.

Research output: Contribution to journalArticle

Cytosine
Methylation
DNA Methylation
Merozoite Surface Protein 1
Biological Phenomena
2 Citations (Scopus)

“Enjoy glass of wine before eating: ” a randomized trial to test the orexigenic effects of this advice in advanced cancer patients

Jatoi, A., Qin, R., Satele, D., Dakhil, S., Kumar, P., Johnson, D. B., Thomas, S. P., Stella, P. J., Castillo, J., Li, M. & Fernandez-Zapico, M. E., Apr 2 2016, (Accepted/In press) In : Supportive Care in Cancer. p. 1-8 8 p.

Research output: Contribution to journalArticle

Wine
Glass
Appetite
Eating
Neoplasms
2015
6 Citations (Scopus)

A multidisciplinary biospecimen bank of renal cell carcinomas compatible with discovery platforms at Mayo Clinic, Scottsdale, Arizona

Ho, T. H., Nateras, R. N., Yan, H. D., Park, J. G., Jensen, S., Borges, C., Lee, J. H., Champion, M. D., Tibes, R., Bryce, A. H., Carballido, E. M., Todd, M. A., Joseph, R. W., Wong, W. W., Parker, A., Stanton, M. L. & Castle, E. P., Jul 16 2015, In : PLoS One. 10, 7, e0132831.

Research output: Contribution to journalArticle

kidney cells
Renal Cell Carcinoma
carcinoma
Cells
RNA
17 Citations (Scopus)

A phase II trial of bevacizumab plus temsirolimus in patients with advanced hepatocellular carcinoma

Knox, J. J., Qin, R., Strosberg, J. R., Tan, B., Kaubisch, A., El-Khoueiry, A. B., Bekaii-Saab, T., Rousey, S. R., Chen, H. X. & Erlichman, C., 2015, In : Investigational New Drugs. 33, 1, p. 241-246 6 p.

Research output: Contribution to journalArticle

Hepatocellular Carcinoma
Medical Futility
Mucositis
Drug-Related Side Effects and Adverse Reactions
Vascular Endothelial Growth Factor A
18 Citations (Scopus)

Association of the Charcot-Marie-Tooth disease gene ARHGEF10 with paclitaxel induced peripheral neuropathy in NCCTG N08CA (Alliance)

Boora, G. K., Kulkarni, A. A., Kanwar, R., Beyerlein, P., Qin, R., Banck, M. S., Ruddy, K. J., Pleticha, J., Lynch, C. A., Behrens, R. J., Züchner, S., Loprinzi, C. L. & Beutler, A. S., 2015, (Accepted/In press) In : Journal of the Neurological Sciences.

Research output: Contribution to journalArticle

Charcot-Marie-Tooth Disease
Peripheral Nervous System Diseases
Paclitaxel
Drug Therapy
Nucleotides
36 Citations (Scopus)
Methylation
Statistical Models
Research Personnel
Genome
DNA
13 Citations (Scopus)

Cardiomyopathy and Worsened Ischemic Heart Failure in SM22-α Cre-Mediated Neuropilin-1 Null Mice: Dysregulation of PGC1α and Mitochondrial Homeostasis

Wang, Y., Cao, Y., Yamada, S., Thirunavukkarasu, M., Nin, V., Joshi, M., Rishi, M. T., Bhattacharya, S., Camacho-Pereira, J., Sharma, A. K., Shameer, K., Kocher, J-P., Sanchez, J. A., Wang, E., Hoeppner, L. H., Dutta, S. K., Leof, E. B., Shah, V., Claffey, K. P., Chini, E. N. & 4 others, Simons, M., Terzic, A., Maulik, N. & Mukhopadhyay, D., Jun 27 2015, In : Arteriosclerosis, Thrombosis, and Vascular Biology. 35, 6, p. 1401-1412 12 p.

Research output: Contribution to journalArticle

Neuropilin-1
Cardiomyopathies
Homeostasis
Heart Failure
Peroxisome Proliferator-Activated Receptors
3 Citations (Scopus)

Chromosome X genomic and epigenomic aberrations and clinical implications in breast cancer by base resolution profiling

Sun, Z. D., Prodduturi, N., Sun, S. Y., Thompson, E. A. & Kocher, J-P., Oct 1 2015, In : Epigenomics. 7, 7, p. 1099-1110 12 p.

Research output: Contribution to journalArticle

X Chromosome
Epigenomics
Breast Neoplasms
DNA Methylation
Cell Line
68 Citations (Scopus)

Clinical course of oxaliplatin-induced neuropathy: Results from the randomized phase III trial N08CB (Alliance)

Pachman, D. R., Qin, R., Seisler, D. K., Smith, E. M. L., Beutler, A. S., Ta, L. E., Lafky, J. M., Wagner-Johnston, N. D., Ruddy, K. J., Dakhil, S., Staff, N. P., Grothey, A. F. & Loprinzi, C. L., Oct 20 2015, In : Journal of Clinical Oncology. 33, 30, p. 3416-3422 7 p.

Research output: Contribution to journalArticle

oxaliplatin
Drug Therapy
Foot
Hand
Muscle Cramp
23 Citations (Scopus)

Combining clinicopathological predictors and molecular biomarkers in the oncogenic K-RAS/Ki67/HIF-1α pathway to predict survival in resectable pancreatic cancer

Qin, R., Smyrk, T. C., Reed, N. R., Schmidt, R. L., Schnelldorfer, T., Chari, S. T., Petersen, G. M. & Tang, A. H., Feb 3 2015, In : British Journal of Cancer. 112, 3, p. 514-522 9 p.

Research output: Contribution to journalArticle

Pancreatic Neoplasms
Biomarkers
Survival
Neoplasms
Tumor Biomarkers
8 Citations (Scopus)

CpGFilter: Model-based CpG probe filtering with replicates for epigenome-wide association studies

Chen, J., Just, A. C., Schwartz, J., Hou, L., Jafari, N., Sun, Z. D., Kocher, J-P., Baccarelli, A. & Lin, X., Apr 23 2015, In : Bioinformatics. 32, 3, p. 469-471 3 p.

Research output: Contribution to journalArticle

Intraclass Correlation Coefficient
Measurement errors
Personal computers
Computational complexity
Probe
15 Citations (Scopus)

Elevating the Horizon: Emerging Molecular and Genomic Targets in the Treatment of Advanced Urothelial Carcinoma

Kurtoglu, M., Davarpanah, N. N., Qin, R., Powles, T., Rosenberg, J. E. & Apolo, A. B., Oct 1 2015, In : Clinical Genitourinary Cancer. 13, 5, p. 410-420 11 p.

Research output: Contribution to journalArticle

Carcinoma
Clinical Trials
Programmed Cell Death 1 Receptor
Therapeutics
Drug Therapy
3 Citations (Scopus)

Epidaurus: Aggregation and integration analysis of prostate cancer epigenome

Wang, L., Huang, H., Dougherty, G., Zhao, Y., Hossain, A. & Kocher, J-P., Jan 30 2015, In : Nucleic Acids Research. 43, 2, p. e7

Research output: Contribution to journalArticle

Epigenomics
Prostatic Neoplasms
Androgen Receptors
Cell Line
Neoplasm Genes
4 Citations (Scopus)

Glmgraph: An R package for variable selection and predictive modeling of structured genomic data

Chen, L., Liu, H., Kocher, J-P., Li, H. & Chen, J., Jul 3 2015, In : Bioinformatics. 31, 24, p. 3991-3993 3 p.

Research output: Contribution to journalArticle

Predictive Modeling
Variable Selection
Genomics
Bacterial Structures
Penalty
26 Citations (Scopus)

High-resolution profiling of histone h3 lysine 36 trimethylation in metastatic renal cell carcinoma

Ho, T. H., Park, I. Y., Zhao, H., Tong, P., Champion, M. D., Yan, H. D., Monzon, F. A., Hoang, A., Tamboli, P., Parker, A., Joseph, R. W., Qiao, W., Dykema, K., Tannir, N. M., Castle, E. P., Nunez-Nateras, R., Teh, B. T., Wang, J., Walker, C. L., Hung, M. C. & 1 others, Jonasch, E., Jun 15 2015, (Accepted/In press) In : Oncogene.

Research output: Contribution to journalArticle

Renal Cell Carcinoma
Histones
Lysine
Neoplasm Metastasis
Kidney
59 Citations (Scopus)

Multicenter phase II trial of temsirolimus and bevacizumab in pancreatic neuroendocrine tumors

Hobday, T. J., Qin, R., Reidy-Lagunes, D., Moore, M. J., Strosberg, J., Kaubisch, A., Shah, M., Kindler, H. L., Lenz, H. J., Chen, H. & Erlichman, C., May 10 2015, In : Journal of Clinical Oncology. 33, 14, p. 1551-1556 6 p.

Research output: Contribution to journalArticle

Neuroendocrine Tumors
Disease-Free Survival
Sirolimus
Vascular Endothelial Growth Factor A
Platelet-Derived Growth Factor Receptors
10 Citations (Scopus)

Mutational landscapes of sequential prostate metastases and matched patient derived xenografts during enzalutamide therapy

Kohli, M., Wang, L., Xie, F., Sicotte, H., Yin, P., Dehm, S. M., Hart, S., Vedell, P. T., Barman, P., Qin, R., Mahoney, D. W., Carlson, R. E., Eckel-Passow, J. E., Atwell, T. D., Eiken, P. W., Mcmenomy, B. P., Wieben, E. D., Jha, G., Jimenez, R. E., Weinshilboum, R. M. & 1 others, Wang, L. M., Dec 1 2015, In : PLoS One. 10, 12, 0145176.

Research output: Contribution to journalArticle

Heterografts
metastasis
Prostate
Tumors
Neoplasm Metastasis
9 Citations (Scopus)

North Central Cancer Treatment group N10C2 (Alliance): A double-blind placebo-controlled study of magnesium supplements to reduce menopausal hot flashes

Park, H., Qin, R., Smith, T. J., Atherton, P. J., Barton, D. L., Sturtz, K., Dakhil, S. R., Anderson, D. M., Flynn, K., Puttabasavaiah, S., Le-Lindqwister, N. A., Padula, G. D. A. & Loprinzi, C. L., Jun 6 2015, In : Menopause. 22, 6, p. 627-632 6 p.

Research output: Contribution to journalArticle

Hot Flashes
Magnesium
Placebos
Neoplasms
Magnesium Oxide
3 Citations (Scopus)

PANDA: Pathway and annotation explorer for visualizing and interpreting gene-centric data

Hart, S., Moore, R. M., Zimmermann, M. T., Oliver, G. R., Egan, J. B., Bryce, A. H. & Kocher, J-P., 2015, In : PeerJ. 2015, 5, e970.

Research output: Contribution to journalArticle

Molecular Sequence Annotation
Information Storage and Retrieval
Genes
Data Display
Precision Medicine
13 Citations (Scopus)

Predictive value of plasma biomarkers for mortality and organ failure development in patients with acute respiratory distress syndrome

Cartin-Ceba, R., Hubmayr, R. D., Qin, R., Peters, S., Determann, R. M., Schultz, M. J. & Gajic, O., Feb 1 2015, In : Journal of Critical Care. 30, 1, p. 219.e1-219.e7

Research output: Contribution to journalArticle

Multiple Organ Failure
Adult Respiratory Distress Syndrome
Biomarkers
Mortality
Hospital Mortality
18 Citations (Scopus)

Retinoblastoma Binding Protein 4 Modulates Temozolomide Sensitivity in Glioblastoma by Regulating DNA Repair Proteins

Kitange, G. J., Mladek, A. C., Schroeder, M. A., Pokorny, J. C., Carlson, B. L., Zhang, Y., Nair, A. A., Lee, J. H., Yan, H. D., Decker, P. A., Zhang, Z. & Sarkaria, J. N., Mar 4 2015, (Accepted/In press) In : Cell Reports.

Research output: Contribution to journalArticle

temozolomide
Retinoblastoma-Binding Protein 4
Glioblastoma
DNA Repair
Repair
12 Citations (Scopus)

Risk of Asthma in Late Preterm Infants: A Propensity Score Approach

Voge, G. A., Katusic, S. K., Qin, R. & Juhn, Y. J., Nov 1 2015, In : Journal of Allergy and Clinical Immunology: In Practice. 3, 6, p. 905-910 6 p.

Research output: Contribution to journalArticle

Propensity Score
Premature Infants
Asthma
Premature Birth
Logistic Models
50 Citations (Scopus)

RNA toxicity and missplicing in the common eye disease fuchs endothelial corneal dystrophy

Du, J., Aleff, R. A., Soragni, E., Kalari, K. R., Nie, J., Tang, X., Davila, J., Kocher, J-P., Patel, S. V., Gottesfeld, J. M., Baratz, K. & Wieben, E. D., Mar 6 2015, In : Journal of Biological Chemistry. 290, 10, p. 5979-5990 12 p.

Research output: Contribution to journalArticle

Fuchs' Endothelial Dystrophy
Eye Diseases
Toxicity
RNA
Trinucleotide Repeat Expansion
12 Citations (Scopus)

Safety and activity of temsirolimus and bevacizumab in patients with advanced renal cell carcinoma previously treated with tyrosine kinase inhibitors: A phase 2 consortium study

Merchan, J. R., Qin, R., Pitot, H. C., Picus, J., Liu, G., Fitch, T., Maples, W. J., Flynn, P. J., Fruth, B. F. & Erlichman, C., 2015, In : Cancer Chemotherapy and Pharmacology. 75, 3, p. 485-493 9 p.

Research output: Contribution to journalArticle

Renal Cell Carcinoma
Protein-Tyrosine Kinases
Cells
Safety
Vascular Endothelial Growth Factor A
13 Citations (Scopus)

Text mining facilitates database curation - extraction of mutation-disease associations from Bio-medical literature

Ravikumar, K. E., Wagholikar, K. B., Li, D., Kocher, J-P. & Liu, H. D., Jun 6 2015, In : BMC Bioinformatics. 16, 1, 185.

Research output: Contribution to journalArticle

Data Mining
Text Mining
Mutation
Databases
Association reactions
Cardiomyopathy
Induced Pluripotent Stem Cells
Stem Cells
Dilated Cardiomyopathy
Gene Expression Profiling
20 Citations (Scopus)

TP53 mutations, tetraploidy and homologous recombination repair defects in early stage high-grade serous ovarian cancer

Chien, J., Sicotte, H., Fan, J. B., Humphray, S., Cunningham, J. M., Kalli, K. R., Oberg, A. L., Hart, S., Li, Y., Davila, J. I., Baheti, S., Wang, C., Dietmann, S., Atkinson, E. J., Asmann, Y., Bell, D. A., Ota, T., Tarabishy, Y., Kuang, R., Bibikova, M. & 10 others, Cheetham, R. K., Grocock, R. J., Swisher, E. M., Peden, J., Bentley, D., Kocher, J-P., Kaufmann, S. H., Hartmann, L. C., Shridhar, V. & Goode, E. L., Feb 2 2015, In : Nucleic Acids Research. 43, 14, p. 6945-6958 14 p.

Research output: Contribution to journalArticle

Recombinational DNA Repair
Tetraploidy
Ovarian Neoplasms
Loss of Heterozygosity
Homologous Recombination
2014
23 Citations (Scopus)

Aberrant signature methylome by DNMT1 hot spot mutation in hereditary sensory and autonomic neuropathy 1E

Sun, Z. D., Wu, Y., Ordog, T., Baheti, S., Nie, J., Duan, X., Hojo, K., Kocher, J-P., Dyck, P. J. & Klein, C. J., Jul 7 2014, In : Epigenetics. 9, 8, p. 1184-1193 10 p.

Research output: Contribution to journalArticle

Hereditary Sensory and Autonomic Neuropathies
Methyltransferases
Mutation
DNA
Genetic Databases
48 Citations (Scopus)

Activation of TAK1 by MYD88 L265P drives malignant B-cell growth in non-Hodgkin lymphoma

Ansell, S. M., Hodge, L. S., Secreto, F. J., Manske, M., Braggio, E. D., Price-Troska, T., Ziesmer, S., Li, Y., Johnson, S. H., Hart, S., Kocher, J-P., Vasmatzis, G., Chanan Khan, A. A., Gertz, M., Fonseca, R., Dogan, A., Cerhan, J. R. & Novak, A. J., 2014, In : Blood Cancer Journal. 4, 2, 20144.

Research output: Contribution to journalArticle

Waldenstrom Macroglobulinemia
Non-Hodgkin's Lymphoma
B-Lymphocytes
Growth
TNF Receptor-Associated Factor 6