Clinical Sciences - QBRC

Research Output 2003 2019

Filter
Article
2019

A Bayesian hidden Potts mixture model for analyzing lung cancer pathology images

Li, Q., Wang, X., Liang, F., Yi, F., Xie, Y., Gazdar, A. & Xiao, G., Oct 1 2019, In : Biostatistics (Oxford, England). 20, 4, p. 565-581 17 p.

Research output: Contribution to journalArticle

Lung Cancer
Potts Model
Mixture Model
Cell
Tumor

A bayesian mark interaction model for analysis of tumor pathology images

Li, B. Q., Wang, X., Liang, F. & Xiao, G., Sep 2019, In : Annals of Applied Statistics. 13, 3, p. 1708-1732 25 p.

Research output: Contribution to journalArticle

Open Access
Pathology
Tumors
Tumor
Spatial Correlation
Cancer
6 Citations (Scopus)

A comparative study of rank aggregation methods for partial and top ranked lists in genomic applications

Li, X., Wang, X. & Xiao, G., Jan 18 2019, In : Briefings in Bioinformatics. 20, 1, p. 178-189 12 p.

Research output: Contribution to journalArticle

Agglomeration
Cells
Non-Small Cell Lung Carcinoma
Guidelines
Research

Development and Validation of a Nomogram Prognostic Model for Patients With Advanced Non-Small-Cell Lung Cancer

Wang, T., Lu, R., Lai, S., Schiller, J. H., Zhou, F. L., Ci, B., Wang, S., Gao, X., Yao, B., Gerber, D. E., Johnson, D. H., Xiao, G. & Xie, Y., Apr 1 2019, In : Cancer Informatics. 18

Research output: Contribution to journalArticle

Open Access
Nomograms
Non-Small Cell Lung Carcinoma
ROC Curve
Neoplasm Metastasis
Survival

Development and Validation of a Pathology Image Analysis-based Predictive Model for Lung Adenocarcinoma Prognosis - A Multi-cohort Study

Luo, X., Yin, S., Yang, L., Fujimoto, J., Yang, Y., Moran, C., Kalhor, N., Weissferdt, A., Xie, Y., Gazdar, A. F., Minna, J. D., Wistuba, I. I., Mao, Y. & Xiao, G., Dec 1 2019, In : Scientific Reports. 9, 1, 6886.

Research output: Contribution to journalArticle

Open Access
Cohort Studies
Pathology
Adenocarcinoma
Lung
Neoplasms

DIGREM: an integrated web-based platform for detecting effective multi-drug combinations

Zhang, M., Lee, S., Yao, B., Xiao, G., Xu, L. & Xie, Y., May 15 2019, In : Bioinformatics (Oxford, England). 35, 10, p. 1792-1794 3 p.

Research output: Contribution to journalArticle

Drug Combinations
Web-based
Drugs
Pharmaceutical Preparations
Bioinformatics

Engineering Forward Genetics into Cultured Cancer Cells for Chemical Target Identification

Povedano, J. M., Liou, J., Wei, D., Srivatsav, A., Kim, J., Xie, Y., Nijhawan, D. & McFadden, D. G., Sep 19 2019, In : Cell Chemical Biology. 26, 9, p. 1315-1321.e3

Research output: Contribution to journalArticle

DNA Mismatch Repair
Genetic Engineering
Cultured Cells
Cells
Repair
5 Citations (Scopus)

Exome Chip Meta-analysis Fine Maps Causal Variants and Elucidates the Genetic Architecture of Rare Coding Variants in Smoking and Alcohol Use

CHD Exome+ Consortium & Consortium for Genetics of Smoking Behaviour, Jun 1 2019, In : Biological Psychiatry. 85, 11, p. 946-955 10 p.

Research output: Contribution to journalArticle

Exome
Meta-Analysis
Smoking
Alcohols
Phenotype

GeNeCK: A web server for gene network construction and visualization

Zhang, M., Li, Q., Yu, D., Yao, B., Guo, W., Xie, Y. & Xiao, G., Jan 7 2019, In : BMC Bioinformatics. 20, 1, 12.

Research output: Contribution to journalArticle

Gene Networks
Gene Regulatory Networks
Web Server
Servers
Visualization

Identifying genes with tri-modal association with survival and tumor grade in cancer patients

Zhang, M., Wang, T., Sirianni, R., Shaul, P. W. & Xie, Y., Jan 8 2019, In : BMC Bioinformatics. 20, 1, 13.

Research output: Contribution to journalArticle

Tumors
Tumor
Cancer
Genes
Gene
2 Citations (Scopus)

Meta-analysis of up to 622,409 individuals identifies 40 novel smoking behaviour associated genetic loci

Understanding Society Scientific Group, EPIC-CVD, GSCAN, Consortium for Genetics of Smoking Behaviour, CHD Exome+ consortium, Jan 1 2019, (Accepted/In press) In : Molecular Psychiatry.

Research output: Contribution to journalArticle

Genetic Loci
Meta-Analysis
Smoking
Nucleotides
Exome
1 Citation (Scopus)

Mobile Device Applications for Electronic Patient Portals in Oncology

Pho, K. K., Lu, R., Gates, S., Cai, J., Xie, D., Xie, Y., Lee, S. C. & Gerber, D. E., Feb 1 2019, In : JCO clinical cancer informatics. 3, p. 1-8 8 p.

Research output: Contribution to journalArticle

Mobile Applications
Equipment and Supplies
Patient Portals
Technology
Electronic Health Records
4 Citations (Scopus)

Protein-coding variants implicate novel genes related to lipid homeostasis contributing to body-fat distribution

T2D-Genes Consortium, The MAGIC Investigators, CHD Exome+ Consortium, Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium, EPIC-CVD Consortium, ExomeBP Consortium, Global Lipids Genetic Consortium, GoT2D Genes Consortium, InterAct & ReproGen Consortium, Mar 1 2019, In : Nature genetics. 51, 3, p. 452-469 18 p.

Research output: Contribution to journalArticle

Body Fat Distribution
Homeostasis
Lipids
Fats
Genes
6 Citations (Scopus)

PUMILIO hyperactivity drives premature aging of Norad-deficient mice

Kopp, F., Elguindy, M. M., Yalvac, M. E., Zhang, H., Chen, B., Gillett, F. A., Lee, S., Sivakumar, S., Yu, H., Xie, Y., Mishra, P., Sahenk, Z. & Mendell, J. T., Feb 8 2019, In : eLife. 8

Research output: Contribution to journalArticle

Open Access
Long Noncoding RNA
Premature Aging
Aging of materials
Physiology
Phenotype

Rcrnorm: An integrated system of random-coefficient hierarchical regression models for normalizing nanostring ncounter data

Jia, G., Wang, X., Li, Q., Lu, W. E. I., Tang, X., Wistuba, I. & Xie, Y., Sep 2019, In : Annals of Applied Statistics. 13, 3, p. 1617-1647 31 p.

Research output: Contribution to journalArticle

Open Access
Random Coefficients
Hierarchical Model
Integrated System
Formaldehyde
Paraffins
1 Citation (Scopus)

Scina: Semi-supervised analysis of single cells in silico

Zhang, Z., Luo, D., Zhong, X., Choi, J. H., Ma, Y., Wang, S., Mahrt, E., Guo, W., Stawiski, E. W., Modrusan, Z., Seshagiri, S., Kapur, P., Hon, G., Brugarolas, J. B. & Wang, T., Jul 1 2019, In : Genes. 10, 7, 531.

Research output: Contribution to journalArticle

Open Access
Single-Cell Analysis
RNA Sequence Analysis
Computer Simulation
Neoplasms
Oligodendroglia
5 Citations (Scopus)

Somatic Mutations Increase Hepatic Clonal Fitness and Regeneration in Chronic Liver Disease

Zhu, M., Lu, T., Jia, Y., Luo, X., Gopal, P., Li, L., Odewole, M., Renteria, V., Singal, A., Jang, Y., Ge, K., Wang, S. C., Sorouri, M., Parekh, J., MacConmara, M. P., Yopp, A. C., Wang, T. & Zhu, H., Apr 18 2019, In : Cell. 177, 3, p. 608-621.e12

Research output: Contribution to journalArticle

Liver
Liver Diseases
Regeneration
Chronic Disease
Genes
1 Citation (Scopus)

Systematic analysis of gene expression in lung adenocarcinoma and squamous cell carcinoma with a case study of FAM83A and FAM83B

Cai, L., Luo, D., Yao, B., Yang, D. M., Lin, S., Girard, L., DeBerardinis, R. J., Minna, J. D., Xie, Y. & Xiao, G., Jun 1 2019, In : Cancers. 11, 6, 886.

Research output: Contribution to journalArticle

Open Access
Squamous Cell Carcinoma
Lung Neoplasms
Gene Expression
Databases
Neoplasm Genes

Type and case volume of health care facility influences survival and surgery selection in cases with early-stage non–small cell lung cancer

Wang, S., Lai, S., von Itzstein, M. S., Yang, L., Yang, D. M., Zhan, X., Xiao, G., Halm, E. A., Gerber, D. E. & Xie, Y., Jan 1 2019, (Accepted/In press) In : Cancer.

Research output: Contribution to journalArticle

Health Facilities
Non-Small Cell Lung Carcinoma
Delivery of Health Care
Neoplasms
Logistic Models
2 Citations (Scopus)

Unique mutation patterns in anaplastic thyroid cancer identified by comprehensive genomic profiling

Khan, S., Ci, B., Xie, Y., Gerber, D. E., Beg, M. S., Sherman, S. I., Cabanillas, M. E., Busaidy, N. L., Burtness, B. A., Heilmann, A. M., Bailey, M., Ross, J. S., Sher, D. J. & Ali, S. M., Jan 1 2019, In : Head and Neck.

Research output: Contribution to journalArticle

Mutation
Neoplasm Genes
Thyroid Neoplasms
Anaplastic Thyroid Carcinoma
Therapeutics

Validation of the 12-gene predictive signature for adjuvant chemotherapy response in lung cancer

Xie, Y., Lu, W., Wang, S., Tang, X., Tang, H., Zhou, Y., Moran, C., Behrens, C., Roth, J. A., Zhou, Q., Johnson, D. H., Swisher, S. G., Heymach, J. V., Papadimitrakopoulou, V. A., Xiao, G., Minna, J. D. & Wistuba, I. I., Jan 1 2019, In : Clinical Cancer Research. 25, 1, p. 150-157 8 p.

Research output: Contribution to journalArticle

Adjuvant Chemotherapy
Lung Neoplasms
Genes
Non-Small Cell Lung Carcinoma
Paraffin
2018
1 Citation (Scopus)

A Bayesian hierarchical model for analyzing methylated RNA immunoprecipitation sequencing data

Zhang, M., Li, Q. & Xie, Y., Sep 1 2018, In : Quantitative Biology. 6, 3, p. 275-286 12 p.

Research output: Contribution to journalArticle

RNA Sequence Analysis
Bayesian Hierarchical Model
RNA
Immunoprecipitation
Sequencing
9 Citations (Scopus)

An empirical approach leveraging tumorgrafts to dissect the tumor microenvironment in renal cell carcinoma identifies missing link to prognostic inflammatory factors

Wang, T., Lu, R., Kapur, P., Jaiswal, B. S., Hannan, R., Zhang, Z., Pedrosa, I., Luke, J. J., Zhang, H., Goldstein, L. D., Yousuf, Q., Gu, Y. F., McKenzie, T., Joyce, A., Kim, M. S., Wang, X., Luo, D., Onabolu, O., Stevens, C., Xie, Z. & 11 others, Chen, M., Filatenkov, A., Torrealba, J., Luo, X., Guo, W., He, J., Stawiski, E., Modrusan, Z., Durinck, S., Seshagiri, S. & Brugarolas, J., Sep 1 2018, In : Cancer Discovery. 8, 9, p. 1142-1155 14 p.

Research output: Contribution to journalArticle

Tumor Microenvironment
Renal Cell Carcinoma
Neoplasms
Inflammation
RNA Sequence Analysis
1 Citation (Scopus)

A two-stage approach of gene network analysis for high-dimensional heterogeneous data

Lee, S., Liang, F., Cai, L. & Xiao, G., Apr 1 2018, In : Biostatistics. 19, 2, p. 216-232 17 p.

Research output: Contribution to journalArticle

Gene Networks
Network Analysis
High-dimensional
Gaussian Model
Graphical Models
18 Citations (Scopus)

Beclin-1-Dependent Autophagy Protects the Heart During Sepsis

Sun, Y., Yao, X., Zhang, Q. J., Zhu, M., Liu, Z-P., Ci, B., Xie, Y., Carlson, D. L., Rothermel, B. A., Sun, Y., Levine, B., Hill, J. A., Wolf, S. E., Minei, J. P. & Zang, Q., Nov 13 2018, In : Circulation. 138, 20, p. 2247-2262 16 p.

Research output: Contribution to journalArticle

Autophagy
Sepsis
Lipopolysaccharides
Sirolimus
Mitochondrial Degradation
13 Citations (Scopus)

Chemistry-First Approach for Nomination of Personalized Treatment in Lung Cancer

McMillan, E. A., Ryu, M. J., Diep, C. H., Mendiratta, S., Clemenceau, J. R., Vaden, R. M., Kim, J. H., Motoyaji, T., Covington, K. R., Peyton, M., Huffman, K., Wu, X., Girard, L., Sung, Y., Chen, P. H., Mallipeddi, P. L., Lee, J. Y., Hanson, J., Voruganti, S., Yu, Y. & 20 others, Park, S., Sudderth, J., DeSevo, C., Muzny, D. M., Doddapaneni, H. V., Gazdar, A., Gibbs, R. A., Hwang, T. H., Heymach, J. V., Wistuba, I., Coombes, K. R., Williams, N. S., Wheeler, D. A., MacMillan, J. B., Deberardinis, R. J., Roth, M. G., Posner, B. A., Minna, J. D., Kim, H. S. & White, M. A., May 3 2018, In : Cell. 173, 4, p. 864-878.e29

Research output: Contribution to journalArticle

Lung Neoplasms
Neoplasms
Oncology
Biosynthesis
Small Molecule Libraries
5 Citations (Scopus)

Comprehensive analysis of lung cancer pathology images to discover tumor shape and boundary features that predict survival outcome

Wang, S., Chen, A., Yang, L., Cai, L., Xie, Y., Fujimoto, J., Gazdar, A. & Xiao, G., Dec 1 2018, In : Scientific Reports. 8, 1, 10393.

Research output: Contribution to journalArticle

Lung Neoplasms
Pathology
Survival
Neoplasms
Smoking
3 Citations (Scopus)

Development and Validation of a Nomogram Prognostic Model for SCLC Patients

Wang, S., Yang, L., Ci, B., Maclean, M., Gerber, D. E., Xiao, G. & Xie, Y., Sep 1 2018, In : Journal of Thoracic Oncology. 13, 9, p. 1338-1348 11 p.

Research output: Contribution to journalArticle

Nomograms
Neoplasm Staging
Area Under Curve
Neoplasms
ROC Curve

Fused lasso regression for identifying differential correlations in brain connectome graphs

Yu, D., Lee, S. H., Lim, J., Xiao, G., Craddock, R. C. & Biswal, B. B., Jan 1 2018, (Accepted/In press) In : Statistical Analysis and Data Mining.

Research output: Contribution to journalArticle

Lasso
Penalized Regression
Partial Correlation
Brain
Regression
4 Citations (Scopus)

Genetic and epigenetic features of rapidly progressing IDH-mutant astrocytomas

Richardson, T. E., Sathe, A. A., Kanchwala, M., Jia, G., Habib, A. A., Xiao, G., Snuderl, M., Xing, C. & Hatanpaa, K. J., Jan 1 2018, In : Journal of Neuropathology and Experimental Neurology. 77, 7, p. 542-548 7 p.

Research output: Contribution to journalArticle

Astrocytoma
Epigenomics
Chromosomal Instability
Mutation
Atlases
6 Citations (Scopus)

Immune dysregulation in cancer patients developing immune-related adverse events

Khan, S., Khan, S., Luo, X., Fattah, F. J., Saltarski, J., Gloria-McCutchen, Y., Lu, R., Xie, Y., Li, Q., Wakeland, E. K. & Gerber, D. E., Jan 1 2018, (Accepted/In press) In : British Journal of Cancer.

Research output: Contribution to journalArticle

Neoplasms
Cytokines
Therapeutics
Interleukin-10
Serum
13 Citations (Scopus)

Increased autophagy blocks HER2-mediated breast tumorigenesis

Vega-Rubín-De-Celis, S., Zou, Z., Fernández, Á. F., Ci, B., Kim, M., Xiao, G., Xie, Y. & Levine, B., Apr 17 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 16, p. 4176-4181 6 p.

Research output: Contribution to journalArticle

Autophagy
Carcinogenesis
Breast
Breast Neoplasms
human ERBB2 protein

Kub5-HeraRPRD1B Deficiency Promotes "BRCAness" and Vulnerability to PARP Inhibition in BRCA-proficient Breast Cancers

Motea, E. A., Fattah, F. J., Xiao, L., Girard, L., Rommel, A., Morales, J. C., Patidar, P., Zhou, Y., Porter, A., Xie, Y., Minna, J. D. & Boothman, D. A., Dec 15 2018, In : Clinical Cancer Research. 24, 24, p. 6459-6470 12 p.

Research output: Contribution to journalArticle

Recombinational DNA Repair
Precision Medicine
Breast Neoplasms
DNA Damage
CDC2 Protein Kinase
3 Citations (Scopus)

Large-scale forward genetics screening identifies Trpa1 as a chemosensor for predator odor-evoked innate fear behaviors

Wang, Y., Cao, L., Lee, C. Y., Matsuo, T., Wu, K., Asher, G., Tang, L., Saitoh, T., Russell, J. L., Klewe-Nebenius, D., Wang, L., Soya, S., Hasegawa, E., Chérasse, Y., Zhou, J., Li, Y., Wang, T., Zhan, X., Miyoshi, C., Irukayama, Y. & 13 others, Cao, J., Meeks, J., Gautron, L., Wang, Z., Sakurai, K., Funato, H., Sakurai, T., Yanagisawa, M., Nagase, H., Kobayakawa, R., Kobayakawa, K., Beutler, B. A. & Liu, Q., Dec 1 2018, In : Nature Communications. 9, 1, 4324.

Research output: Contribution to journalArticle

fear
Instinct
odors
predators
Genetic Testing
3 Citations (Scopus)

LCE: an open web portal to explore gene expression and clinical associations in lung cancer

Cai, L., Lin, S. Y., Girard, L., Zhou, Y., Yang, L., Ci, B., Zhou, Q., Luo, D., Yao, B., Tang, H., Allen, J., Huffman, K., Gazdar, A. F., Heymach, J., Wistuba, I., Xiao, G., Minna, J. D. & Xie, Y., Jan 1 2018, (Accepted/In press) In : Oncogene.

Research output: Contribution to journalArticle

Lung Neoplasms
Gene Expression
Databases
Survival Analysis
Meta-Analysis
6 Citations (Scopus)

Loss of Dis3l2 partially phenocopies perlman syndrome in mice and results in upregulation of Igf2 in nephron progenitor cells

Hunter, R. W., Liu, Y., Manjunath, H., Acharya, A., Jones, B. T., Zhang, H., Chen, B., Ramalingam, H., Hammer, R. E., Xie, Y., Richardson, J. A., Rakheja, D., Carroll, T. J. & Mendell, J. T., Jul 1 2018, In : Genes and Development. 32, 13-14, p. 903-908 6 p.

Research output: Contribution to journalArticle

Wilms Tumor
Nephrons
Up-Regulation
Stem Cells
Exoribonucleases
2 Citations (Scopus)

Main bronchus location is a predictor for metastasis and prognosis in lung adenocarcinoma: A large cohort analysis

Yang, L., Wang, S., Gerber, D. E., Zhou, Y., Xu, F., Liu, J., Liang, H., Xiao, G., Zhou, Q., Gazdar, A. & Xie, Y., Jun 1 2018, In : Lung Cancer. 120, p. 22-26 5 p.

Research output: Contribution to journalArticle

Bronchi
Cohort Studies
Neoplasm Metastasis
Adenocarcinoma
Adenocarcinoma of lung
2 Citations (Scopus)

Microvessel prediction in H&E Stained Pathology Images using fully convolutional neural networks

Yi, F., Yang, L., Wang, S., Guo, L., Huang, C., Xie, Y. & Xiao, G., Feb 27 2018, In : BMC Bioinformatics. 19, 1, 64.

Research output: Contribution to journalArticle

Pathology
Microvessels
Neural Networks
Neural networks
Prediction
1 Citation (Scopus)

Phase 1 study of ARQ 761, a β-lapachone analogue that promotes NQO1-mediated programmed cancer cell necrosis

Gerber, D. E., Beg, M. S., Fattah, F., Frankel, A. E., Fatunde, O., Arriaga, Y., Dowell, J. E., Bisen, A., Leff, R. D., Meek, C. C., Putnam, W. C., Kallem, R. R., Subramaniyan, I., Dong, Y., Bolluyt, J., Sarode, V., Luo, X., Xie, Y., Schwartz, B. & Boothman, D. A., Oct 16 2018, In : British Journal of Cancer. 119, 8, p. 928-936 9 p.

Research output: Contribution to journalArticle

Necrosis
Neoplasms
Methemoglobinemia
Anemia
Oxidoreductases
1 Citation (Scopus)

Practice Patterns and Impact of Postchemotherapy Retroperitoneal Lymph Node Dissection on Testicular Cancer Outcomes

Woldu, S. L., Moore, J. A., Ci, B., Freifeld, Y., Clinton, T. N., Aydin, A. M., Singla, N., Laura-Maria, K., Hutchinson, R. C., Amatruda, J. F., Sagalowsky, A. I., Lotan, Y., Arriaga, Y. E., Margulis, V., Xie, Y. & Bagrodia, A., Aug 1 2018, In : European urology oncology. 1, 3, p. 242-251 10 p.

Research output: Contribution to journalArticle

Testicular Neoplasms
Lymph Node Excision
Insurance
Survival
Propensity Score
10 Citations (Scopus)

Probability of phenotypically detectable protein damage by ENU-induced mutations in the Mutagenetix database

Wang, T., Bu, C. H., Hildebrand, S., Jia, G., Siggs, O. M., Lyon, S., Pratt, D., Scott, L., Russell, J., Ludwig, S., Murray, A. R., Moresco, E. M. Y. & Beutler, B., Dec 1 2018, In : Nature Communications. 9, 1, 441.

Research output: Contribution to journalArticle

mutations
Genes
Databases
damage
proteins
5 Citations (Scopus)

Proper conditional analysis in the presence of missing data: Application to large scale meta-analysis of tobacco use phenotypes

Jiang, Y., Chen, S., McGuire, D., Chen, F., Liu, M., Iacono, W. G., Hewitt, J. K., Hokanson, J. E., Krauter, K., Laakso, M., Li, K. W., Lutz, S. M., McGue, M., Pandit, A., Zajac, G. J. M., Boehnke, M., Abecasis, G. R., Vrieze, S. I., Zhan, X., Jiang, B. & 1 others, Liu, D. J., Jul 1 2018, In : PLoS Genetics. 14, 7, e1007452.

Research output: Contribution to journalArticle

tobacco use
meta-analysis
Tobacco Use
tobacco
Meta-Analysis
64 Citations (Scopus)

Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity

Turcot, V., Lu, Y., Highland, H. M., Schurmann, C., Justice, A. E., Fine, R. S., Bradfield, J. P., Esko, T., Giri, A., Graff, M., Guo, X., Hendricks, A. E., Karaderi, T., Lempradl, A., Locke, A. E., Mahajan, A., Marouli, E., Sivapalaratnam, S., Young, K. L., Alfred, T. & 380 others, Feitosa, M. F., Masca, N. G. D., Manning, A. K., Medina-Gomez, C., Mudgal, P., Ng, M. C. Y., Reiner, A. P., Vedantam, S., Willems, S. M., Winkler, T. W., Abecasis, G., Aben, K. K., Alam, D. S., Alharthi, S. E., Allison, M., Amouyel, P., Asselbergs, F. W., Auer, P. L., Balkau, B., Bang, L. E., Barroso, I., Bastarache, L., Benn, M., Bergmann, S., Bielak, L. F., Blüher, M., Boehnke, M., Boeing, H., Boerwinkle, E., Böger, C. A., Bork-Jensen, J., Bots, M. L., Bottinger, E. P., Bowden, D. W., Brandslund, I., Breen, G., Brilliant, M. H., Broer, L., Brumat, M., Burt, A. A., Butterworth, A. S., Campbell, P. T., Cappellani, S., Carey, D. J., Catamo, E., Caulfield, M. J., Chambers, J. C., Chasman, D. I., Chen, Y. D. I., Chowdhury, R., Christensen, C., Chu, A. Y., Cocca, M., Collins, F. S., Cook, J. P., Corley, J., Corominas Galbany, J., Cox, A. J., Crosslin, D. S., Cuellar-Partida, G., D'Eustacchio, A., Danesh, J., Davies, G., Bakker, P. I. W., Groot, M. C. H., Mutsert, R., Deary, I. J., Dedoussis, G., Demerath, E. W., Heijer, M., Hollander, A. I., Ruijter, H. M., Dennis, J. G., Denny, J. C., Angelantonio, E., Drenos, F., Du, M., Dubé, M. P., Dunning, A. M., Easton, D. F., Edwards, T. L., Ellinghaus, D., Ellinor, P. T., Elliott, P., Evangelou, E., Farmaki, A. E., Farooqi, I. S., Faul, J. D., Fauser, S., Feng, S., Ferrannini, E., Ferrieres, J., Florez, J. C., Ford, I., Fornage, M., Franco, O. H., Franke, A., Franks, P. W., Friedrich, N., Frikke-Schmidt, R., Galesloot, T. E., Gan, W., Gandin, I., Gasparini, P., Gibson, J., Giedraitis, V., Gjesing, A. P., Gordon-Larsen, P., Gorski, M., Grabe, H. J., Grant, S. F. A., Grarup, N., Griffiths, H. L., Grove, M. L., Gudnason, V., Gustafsson, S., Haessler, J., Hakonarson, H., Hammerschlag, A. R., Hansen, T., Harris, K. M., Harris, T. B., Hattersley, A. T., Have, C. T., Hayward, C., He, L., Heard-Costa, N. L., Heath, A. C., Heid, I. M., Helgeland, Ø., Hernesniemi, J., Hewitt, A. W., Holmen, O. L., Hovingh, G. K., Howson, J. M. M., Hu, Y., Huang, P. L., Huffman, J. E., Ikram, M. A., Ingelsson, E., Jackson, A. U., Jansson, J. H., Jarvik, G. P., Jensen, G. B., Jia, Y., Johansson, S., Jørgensen, M. E., Jørgensen, T., Jukema, J. W., Kahali, B., Kahn, R. S., Kähönen, M., Kamstrup, P. R., Kanoni, S., Kaprio, J., Karaleftheri, M., Kardia, S. L. R., Karpe, F., Kathiresan, S., Kee, F., Kiemeney, L. A., Kim, E., Kitajima, H., Komulainen, P., Kooner, J. S., Kooperberg, C., Korhonen, T., Kovacs, P., Kuivaniemi, H., Kutalik, Z., Kuulasmaa, K., Kuusisto, J., Laakso, M., Lakka, T. A., Lamparter, D., Lange, E. M., Lange, L. A., Langenberg, C., Larson, E. B., Lee, N. R., Lehtimäki, T., Lewis, C. E., Li, H., Li, J., Li-Gao, R., Lin, H., Lin, K. H., Lin, L. A., Lin, X., Lind, L., Lindström, J., Linneberg, A., Liu, C. T., Liu, D. J., Liu, Y., Lo, K. S., Lophatananon, A., Lotery, A. J., Loukola, A., Luan, JA., Lubitz, S. A., Lyytikäinen, L. P., Männistö, S., Marenne, G., Mazul, A. L., McCarthy, M. I., McKean-Cowdin, R., Medland, S. E., Meidtner, K., Milani, L., Mistry, V., Mitchell, P., Mohlke, K. L., Moilanen, L., Moitry, M., Montgomery, G. W., Mook-Kanamori, D. O., Moore, C., Mori, T. A., Morris, A. D., Morris, A. P., Müller-Nurasyid, M., Munroe, P. B., Nalls, M. A., Narisu, N., Nelson, C. P., Neville, M., Nielsen, S. F., Nikus, K., Njølstad, P. R., Nordestgaard, B. G., Nyholt, D. R., O'Connel, J. R., O'Donoghue, M. L., Olde Loohuis, L. M., Ophoff, R. A., Owen, K. R., Packard, C. J., Padmanabhan, S., Palmer, C. N. A., Palmer, N. D., Pasterkamp, G., Patel, A. P., Pattie, A., Pedersen, O., Peissig, P. L., Peloso, G. M., Pennell, C. E., Perola, M., Perry, J. A., Perry, J. R. B., Pers, T. H., Person, T. N., Peters, A., Petersen, E. R. B., Peyser, P. A., Pirie, A., Polasek, O., Polderman, T. J., Puolijoki, H., Raitakari, O. T., Rasheed, A., Rauramaa, R., Reilly, D. F., Renström, F., Rheinberger, M., Ridker, P. M., Rioux, J. D., Rivas, M. A., Roberts, D. J., Robertson, N. R., Robino, A., Rolandsson, O., Rudan, I., Ruth, K. S., Saleheen, D., Salomaa, V., Samani, N. J., Sapkota, Y., Sattar, N., Schoen, R. E., Schreiner, P. J., Schulze, M. B., Scott, R. A., Segura-Lepe, M. P., Shah, S. H., Sheu, W. H. H., Sim, X., Slater, A. J., Small, K. S., Smith, A. V., Southam, L., Spector, T. D., Speliotes, E. K., Starr, J. M., Stefansson, K., Steinthorsdottir, V., Stirrups, K. E., Strauch, K., Stringham, H. M., Stumvoll, M., Sun, L., Surendran, P., Swift, A. J., Tada, H., Tansey, K. E., Tardif, J. C., Taylor, K. D., Teumer, A., Thompson, D. J., Thorleifsson, G., Thorsteinsdottir, U., Thuesen, B. H., Tönjes, A., Tromp, G., Trompet, S., Tsafantakis, E., Tuomilehto, J., Tybjaerg-Hansen, A., Tyrer, J. P., Uher, R., Uitterlinden, A. G., Uusitupa, M., Laan, S. W., Duijn, C. M., Leeuwen, N., Van Setten, J., Vanhala, M., Varbo, A., Varga, T. V., Varma, R., Velez Edwards, D. R., Vermeulen, S. H., Veronesi, G., Vestergaard, H., Vitart, V., Vogt, T. F., Völker, U., Vuckovic, D., Wagenknecht, L. E., Walker, M., Wallentin, L., Wang, F., Wang, C. A., Wang, S., Wang, Y., Ware, E. B., Wareham, N. J., Warren, H. R., Waterworth, D. M., Wessel, J., White, H. D., Willer, C. J., Wilson, J. G., Witte, D. R., Wood, A. R., Wu, Y., Yaghootkar, H., Yao, J., Yao, P., Yerges-Armstrong, L. M., Young, R., Zhan, X., Zhan, X., Zhang, W., Zhao, J. H., Zhao, W., Zhou, W., Zondervan, K. T., Rotter, J. I., Pospisilik, J. A., Rivadeneira, F., Borecki, I. B., Deloukas, P., Frayling, T. M., Lettre, G., North, K. E., Lindgren, C. M., Hirschhorn, J. N. & Loos, R. J. F., Jan 1 2018, In : Nature Genetics. 50, 1, p. 26-35 10 p.

Research output: Contribution to journalArticle

Energy Intake
Energy Metabolism
Body Mass Index
Obesity
Genes

The class i myosin MYO1D binds to lipid and protects against colitis

McAlpine, W., Wang, K. W., Choi, J. H., Miguel, M. S., McAlpine, S. G., Russell, J., Ludwig, S., Li, X., Tang, M., Zhan, X., Choi, M., Wang, T., Bu, C. H., Murray, A. R., Moresco, E. M. Y., Turer, E. E. & Beutler, B., Sep 1 2018, In : DMM Disease Models and Mechanisms. 11, 9, dmm035923.

Research output: Contribution to journalArticle

Dextran Sulfate
Colitis
Myosins
Myosin Type I
Ethylnitrosourea
13 Citations (Scopus)

The Hormone FGF21 Stimulates Water Drinking in Response to Ketogenic Diet and Alcohol

Song, P., Zechner, C. P. G., Hernandez, G., Cánovas, J., Xie, Y., Sondhi, V., Wagner, M., Stadlbauer, V., Horvath, A., Leber, B., Hu, M. C., Moe, O. W., Mangelsdorf, D. J. & Kliewer, S. A., Jan 1 2018, (Accepted/In press) In : Cell Metabolism.

Research output: Contribution to journalArticle

Ketogenic Diet
Drinking Water
Alcohols
Hormones
Drinking
8 Citations (Scopus)

TNF-driven adaptive response mediates resistance to EGFR inhibition in lung cancer

Gong, K., Guo, G., Gerber, D. E., Gao, B., Peyton, M., Huang, C., Minna, J. D., Hatanpaa, K. J., Kernstine, K., Cai, L., Xie, Y., Zhu, H., Fattah, F. J., Zhang, S., Takahashi, M., Mukherjee, B., Burma, S., Dowell, J., Dao, K., Papadimitrakopoulou, V. A. & 4 others, Olivas, V., Bivona, T. G., Zhao, D. & Habib, A. A., Jun 1 2018, In : Journal of Clinical Investigation. 128, 6, p. 2500-2518 19 p.

Research output: Contribution to journalArticle

Non-Small Cell Lung Carcinoma
Lung Neoplasms
RNA Stability
Inflammation Mediators
Oncogenes
Blood Pressure
Confidence Intervals
Decision Trees
Cardiovascular Diseases
Albumins
2017
2 Citations (Scopus)

A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines

Gönen, M., Weir, B. A., Cowley, G. S., Vazquez, F., Guan, Y., Jaiswal, A., Karasuyama, M., Uzunangelov, V., Wang, T., Tsherniak, A., Howell, S., Marbach, D., Hoff, B., Norman, T. C., Airola, A., Bivol, A., Bunte, K., Carlin, D., Chopra, S., Deran, A. & 105 others, Ellrott, K., Gopalacharyulu, P., Graim, K., Kaski, S., Khan, S. A., Newton, Y., Ng, S., Pahikkala, T., Paull, E., Sokolov, A., Tang, H., Tang, J., Wennerberg, K., Xie, Y., Zhan, X., Zhu, F., Afsari, B., Airola, A., Aittokallio, T., Bivol, A., Boehm, J. S., Bunte, K., Carlin, D., Chang, Y. C., Chen, T., Chong, Z., Chopra, S., Cowley, G. S., Deran, A., Ellrott, K., Elmarakeby, H., Fertig, E. J., Gonçalves, E., Gönen, M., Gong, P., Gopalacharyulu, P., Graim, K., Guan, Y., Hafemeister, C., Hahn, W. C., Heath, L., Hoff, B., Howell, S., Jaiswal, A., Karasuyama, M., Kaski, S., Kędziorski, Ł., Khan, S. A., Khemka, N., King, E. K., Lauria, M., Liu, M., Machado, D., Mamitsuka, H., Marbach, D., Margolin, A. A., Xiao, G., Menden, M. P., Migacz, S., Newton, Y., Ng, S., Nie, Z., Norman, T. C., Pahikkala, T., Paull, E., Praveen, P., Priami, C., Rizzetto, S., Rocha, M., Root, D. E., Rudd, C., Rudnicki, W. R., Saez-Rodriguez, J., Sokolov, A., Song, L., Stolovitzky, G., Stuart, J. M., Sun, D., Szalai, B., Tang, H., Tang, J., Tsherniak, A., Uzunangelov, V., Vazquez, F., Wang, T., Wang, D., Weir, B. A., Wennerberg, K., Wu, L. Y., Xiao, G., Xie, Y., Ye, J., Ye, Y., Zhan, X., Zhou, W., Zhu, F., Aittokallio, T., Mamitsuka, H., Stuart, J. M., Boehm, J. S., Root, D. E., Xiao, G., Stolovitzky, G., Hahn, W. C. & Margolin, A. A., Nov 22 2017, In : Cell Systems. 5, 5, p. 485-497.e3

Research output: Contribution to journalArticle

Benchmarking
Cell Line
Genes
Neoplasms
Publications
3 Citations (Scopus)
Statistical methods
Tissue
Animals
Rheometers
Elastic moduli
54 Citations (Scopus)

An Argonaute phosphorylation cycle promotes microRNA-mediated silencing

Golden, R. J., Chen, B., Li, T., Braun, J., Manjunath, H., Chen, X., Wu, J., Schmid, V., Chang, T. C., Kopp, F., Ramirez-Martinez, A., Tagliabracci, V. S., Chen, Z. J., Xie, Y. & Mendell, J. T., Feb 9 2017, In : Nature. 542, 7640, p. 197-202 6 p.

Research output: Contribution to journalArticle

MicroRNAs
Phosphorylation
Clustered Regularly Interspaced Short Palindromic Repeats
Argonaute Proteins
Complementary RNA