If you made any changes in Pure these will be visible here soon.

Research Output

2020

Evaluation of Combined Artificial Intelligence and Radiologist Assessment to Interpret Screening Mammograms

and the DM DREAM Consortium, Mar 2 2020, In : JAMA network open. 3, 3, p. e200265

Research output: Contribution to journalArticle

Open Access

Intratumoral heterogeneity and clonal evolution in liver cancer

Losic, B., Craig, A. J., Villacorta-Martin, C., Martins-Filho, S. N., Akers, N., Chen, X., Ahsen, M. E., Felden, J. V., Labgaa, I., DʹAvola, D., Allette, K., Lira, S. A., Furtado, G. C., Garcia-Lezana, T., Restrepo, P., Stueck, A., Ward, S. C., Fiel, M. I., Hiotis, S. P., Gunasekaran, G. & 8 others, Sia, D., Schadt, E. E., Sebra, R., Schwartz, M., Llovet, J. M., Thung, S., Stolovitzky, G. & Villanueva, A., Dec 2020, In : Nature communications.

Research output: Contribution to journalArticle

Radiogenomics Consortium Genome-Wide Association Study Meta-Analysis of Late Toxicity After Prostate Cancer Radiotherapy

Kerns, S. L., Fachal, L., Dorling, L., Barnett, G. C., Baran, A., Peterson, D. R., Hollenberg, M., Hao, K., Narzo, A. D., Ahsen, M. E., Pandey, G., Bentzen, S. M., Janelsins, M., Elliott, R. M., Pharoah, P. D. P., Burnet, N. G., Dearnaley, D. P., Gulliford, S. L., Hall, E., Sydes, M. R. & 20 others, Aguado-Barrera, M. E., Gómez-Caamaño, A., Carballo, A. M., Peleteiro, P., Lobato-Busto, R., Stock, R., Stone, N. N., Ostrer, H., Usmani, N., Singhal, S., Tsuji, H., Imai, T., Saito, S., Eeles, R., DeRuyck, K., Parliament, M., Dunning, A. M., Vega, A., Rosenstein, B. S. & West, C. M. L., Feb 1 2020, In : JNCI: Journal of the National Cancer Institute.

Research output: Contribution to journalArticle

The impacts of patients' sentiment trajectory features on their willingness to share in online support groups

Lin, Y. W., Ahsen, M. E., Shaw, M. J. & Seshadri, S., Jan 1 2020, 40th International Conference on Information Systems, ICIS 2019. Association for Information Systems, (40th International Conference on Information Systems, ICIS 2019).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2019

Assessment of network module identification across complex diseases

The DREAM Module Identification Challenge Consortium & Ahsen, M. E., Sep 1 2019, In : Nature Methods. 16, 9, p. 843-852 10 p.

Research output: Contribution to journalArticle

Open Access

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

AstraZeneca-Sanger Drug Combination DREAM Consortium, Dec 1 2019, In : Nature communications. 10, 1, 2674.

Research output: Contribution to journalArticle

Open Access

exRNA Atlas Analysis Reveals Distinct Extracellular RNA Cargo Types and Their Carriers Present across Human Biofluids

Murillo, O. D., Thistlethwaite, W., Rozowsky, J., Subramanian, S. L., Lucero, R., Shah, N., Jackson, A. R., Srinivasan, S., Chung, A., Laurent, C. D., Kitchen, R. R., Galeev, T., Warrell, J., Diao, J. A., Welsh, J. A., Hanspers, K., Riutta, A., Burgstaller-Muehlbacher, S., Shah, R. V., Yeri, A. & 38 others, Jenkins, L. M., Ahsen, M. E., Cordon-Cardo, C., Dogra, N., Gifford, S. M., Smith, J. T., Stolovitzky, G., Tewari, A. K., Wunsch, B. H., Yadav, K. K., Danielson, K. M., Filant, J., Moeller, C., Nejad, P., Paul, A., Simonson, B., Wong, D. K., Zhang, X., Balaj, L., Gandhi, R., Sood, A. K., Alexander, R. P., Wang, L., Wu, C., Wong, D. T. W., Galas, D. J., Van Keuren-Jensen, K., Patel, T., Jones, J. C., Das, S., Cheung, K. H., Pico, A. R., Su, A. I., Raffai, R. L., Laurent, L. C., Roth, M. E., Gerstein, M. B. & Milosavljevic, A., Apr 4 2019, In : Cell. 177, 2, p. 463-477.e15

Research output: Contribution to journalArticle

Leveraging crowdsourcing to accelerate global health solutions

Davis, S., Button-Simons, K., Bensellak, T., Ahsen, E. M., Checkley, L., Foster, G. J., Su, X., Moussa, A., Mapiye, D., Khoo, S. K., Nosten, F., Anderson, T. J. C., Vendrely, K., Bletz, J., Yu, T., Panji, S., Ghouila, A., Mulder, N., Norman, T., Kern, S. & 4 others, Meyer, P., Stolovitzky, G., Ferdig, M. T. & Siwo, G. H., Aug 1 2019, In : Nature Biotechnology. 37, 8, p. 848-850 3 p.

Research output: Contribution to journalLetter

Open Access

NeTFactor, a framework for identifying transcriptional regulators of gene expression-based biomarkers

Ahsen, M. E., Chun, Y., Grishin, A., Grishina, G., Stolovitzky, G., Pandey, G. & Bunyavanich, S., Dec 1 2019, In : Scientific reports. 9, 1, 12970.

Research output: Contribution to journalArticle

Open Access

Unsupervised Evaluation and Weighted Aggregation of Ranked Classification Predictions

Ahsen, M. E., Vogel, R. M. & Stolovitzky, G. A., 2019, In : Journal of Machine Learning Research. 20

Research output: Contribution to journalArticle

When algorithmic predictions use human-generated data: A bias-aware classification algorithm for breast cancer diagnosis

Ahsen, M. E., Ayvaci, M. U. S. & Raghunathan, S., Jan 1 2019, In : Information Systems Research. 30, 1, p. 97-116 20 p.

Research output: Contribution to journalArticle

2018

A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection

The Respiratory Viral DREAM Challenge Consortium & Ahsen, M. E., Dec 1 2018, In : Nature communications. 9, 1, 4418.

Research output: Contribution to journalArticle

Open Access

A Nasal Brush-based Classifier of Asthma Identified by Machine Learning Analysis of Nasal RNA Sequence Data

Pandey, G., Pandey, O. P., Rogers, A. J., Ahsen, M. E., Hoffman, G. E., Raby, B. A., Weiss, S. T., Schadt, E. E. & Bunyavanich, S., Dec 1 2018, In : Scientific Reports. 8, 1, 8826.

Research output: Contribution to journalArticle

Open Access

Inferring Genome-Wide Interaction Networks Using the Phi-Mixing Coefficient, and Applications to Lung and Breast Cancer

Singh, N., Ahsen, M. E., Challapalli, N., Kim, H. S., White, M. A. & Vidyasagar, M., Sep 2018, In : IEEE Transactions on Molecular, Biological, and Multi-Scale Communications. 4, 3, p. 123-139 17 p., 8789692.

Research output: Contribution to journalArticle

Integrated nanoscale deterministic lateral displacement arrays for separation of extracellular vesicles from clinically-relevant volumes of biological samples

Smith, J. T., Wunsch, B. H., Dogra, N., Ahsen, M. E., Lee, K., Yadav, K. K., Weil, R., Pereira, M. A., Patel, J. V., Duch, E. A., Papalia, J. M., Lofaro, M. F., Gupta, M., Tewari, A. K., Cordon-Cardo, C., Stolovitzky, G. & Gifford, S. M., Jan 1 2018, In : Lab on a Chip. 18, 24, p. 3913-3925 13 p.

Research output: Contribution to journalArticle

Preference-Sensitive Management of Post-Mammography Decisions in Breast Cancer Diagnosis

Ayvaci, M. U. S., Alagoz, O., Ahsen, M. E. & Burnside, E. S., Dec 2018, In : Production and Operations Management. 27, 12, p. 2313-2338 26 p.

Research output: Contribution to journalArticle

2017

Error bounds for compressed sensing algorithms with group sparsity: A unified approach

Ahsen, M. E. & Vidyasagar, M., Sep 2017, In : Applied and Computational Harmonic Analysis. 43, 2, p. 212-232 21 p.

Research output: Contribution to journalArticle

Open Access

Sparse feature selection for classification and prediction of metastasis in endometrial cancer

Ahsen, M. E., Boren, T. P., Singh, N. K., Misganaw, B., Mutch, D. G., Moore, K. N., Backes, F. J., McCourt, C. K., Lea, J. S., Miller, D. S., White, M. A. & Vidyasagar, M., Mar 27 2017, In : BMC genomics. 18, 233.

Research output: Contribution to journalArticle

Open Access

Stability and Robustness Analysis of a Class of Cyclic Biological Systems

Ahsen, M. E., Özbay, H. & Niculescu, S., Apr 1 2017, Time Delay Systems: Theory, Numerics, Applications, and Experiments. Insperger, T., Ersal, T. & Orosz, G. (eds.). Springer, p. 155-168 ( Advances in Delays and Dynamics; vol. 7).

Research output: Chapter in Book/Report/Conference proceedingChapter

Timing the Use of Breast Cancer Risk Information in Biopsy Decision-Making

Ayvaci, M. U. S., Ahsen, M. E., Raghunathan, S. & Gharibi, Z., Jul 2017, In : Production and Operations Management. 26, 7, p. 1333-1358 26 p.

Research output: Contribution to journalArticle

Two new approaches to compressed sensing exhibiting both robust sparse recovery and the grouping effect

Ahsen, M. E. & Vidyasagar, M., Feb 7 2017, 2017 Indian Control Conference, ICC 2017 - Proceedings. Institute of Electrical and Electronics Engineers Inc., p. 246-250 5 p. 7846482. (2017 Indian Control Conference, ICC 2017 - Proceedings).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Two new approaches to compressed sensing exhibiting both robust sparse recovery and the grouping effect

Ahsen, M. E., Challapalli, N. & Vidyasagar, M., Jul 1 2017, In : Journal of Machine Learning Research. 18

Research output: Contribution to journalArticle

2016

Analysis of a Gene Regulatory Network Model With Time Delay Using the Secant Condition

Ahsen, M. E., Ozbay, H. & Niculescu, S-I., Jun 2016, In : IEEE Life Sciences Letters.

Research output: Contribution to journalArticle

An approach to one-bit compressed sensing based on probably approximately correct learning theory

Ahsen, M. E. & Vidyasagar, M., 2016, Proceedings of the IEEE Conference on Decision and Control.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Estimating Waiting Time for Deceased Donor Renal Transplantion in the Era of New Kidney Allocation System

Torlak, F., Ayvaci, M. U. S., Ahsen, M. E., Arce, C., Vazquez, M. A. & Tanriover, B., Jul 1 2016, In : Transplantation Proceedings. 48, 6, p. 1916-1919 4 p.

Research output: Contribution to journalArticle

Modelling drug response and resistance in cancer: Opportunities and challenges

Challapalli, N., Ahsen, M. E. & Vidyasagar, M., Dec 27 2016, 2016 IEEE 55th Conference on Decision and Control, CDC 2016. Institute of Electrical and Electronics Engineers Inc., p. 2488-2493 6 p. 7798635. (2016 IEEE 55th Conference on Decision and Control, CDC 2016).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Optimized prediction of extreme treatment outcomes in ovarian cancer

Misganaw, B., Ahsen, E., Singh, N., Baggerly, K. A., Unruh, A., White, M. A. & Vidyasagar, M., Mar 21 2016, In : Cancer Informatics. 15, p. 45-55 11 p.

Research output: Contribution to journalArticle

Open Access

Sparse feature selection for classification and prediction of metastasis in endometrial cancer

Ahsen, M. E., Boren, T. P., Singh, N. K., Misganaw, B., Lea, J. S., Miller, D. S., White, M. A. & Vidyasagar, M., Oct 2 2016, ACM-BCB 2016 - 7th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics. Association for Computing Machinery, Inc, p. 522-524 3 p. (ACM-BCB 2016 - 7th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2015

Analysis of Deterministic Cyclic Gene Regulatory Network Models with Delays

Ahsen, M. E., Özbay, H. & Niculescu, S. I., Jan 1 2015, Birkhäuser. 92 p. (SpringerBriefs in Electrical and Computer Engineering)(SpringerBriefs in Control, Automation and Robotics)

Research output: Book/Report/Conference proceedingBook

An approach to one-bit compressed sensing based on probably approximately correct learning theory

Ahsen, M. E. & Vidyasagar, M., Feb 8 2015, 54rd IEEE Conference on Decision and Control,CDC 2015. Institute of Electrical and Electronics Engineers Inc., p. 7377-7379 3 p. 7403384. (Proceedings of the IEEE Conference on Decision and Control; vol. 54rd IEEE Conference on Decision and Control,CDC 2015).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

A PAC learning approach to one-bit compressed sensing

Eren Ahsen, M. & Vidyasagar, M., Jul 28 2015, ACC 2015 - 2015 American Control Conference. Institute of Electrical and Electronics Engineers Inc., p. 4228-4230 3 p. 7171993. (Proceedings of the American Control Conference; vol. 2015-July).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

A secant condition for cyclic systems with time delays and its application to Gene Regulatory Networks

Ahsen, M. E., Özbay, H. & Niculescu, S. I., Jul 1 2015, In : IFAC-PapersOnLine. 28, 12, p. 171-176 6 p.

Research output: Contribution to journalConference article

Optimized prediction of extreme treatment outcomes in ovarian cancer

Misganaw, B., Ahsen, E., Singh, N., Baggerly, K. A., Unruh, A., White, M. A. & Vidyasagar, M., Feb 8 2015, 54rd IEEE Conference on Decision and Control,CDC 2015. Institute of Electrical and Electronics Engineers Inc., p. 1254-1258 5 p. 7402383. (Proceedings of the IEEE Conference on Decision and Control; vol. 54rd IEEE Conference on Decision and Control,CDC 2015).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Preface

Ahsen, M. E., özbay, H. & Niculescu, S. I., Jan 1 2015, In : SpringerBriefs in Control, Automation and Robotics. 9783319156057, p. vii-viii

Research output: Contribution to journalEditorial

2014

Mixing coefficients between discrete and real random variables: Computation and properties

Ahsen, M. E. & Vidyasagar, M., Jan 2014, In : IEEE Transactions on Automatic Control. 59, 1, p. 34-47 14 p., 6595623.

Research output: Contribution to journalArticle

Near-ideal behavior of compressed sensing algorithms

Ahsen, M. E. & Vidyasagar, M., Jan 1 2014, In : Proceedings of the IEEE Conference on Decision and Control. 2015-February, February, p. 6354-6357 4 p., 7040385.

Research output: Contribution to journalConference article

Near-ideal behavior of some compressed sensing algorithms

Ahsen, M. E. & Vidyasagar, M., Jul 22 2014, 2014 European Control Conference, ECC 2014. Institute of Electrical and Electronics Engineers Inc., p. 2216-2218 3 p. 6862520. (2014 European Control Conference, ECC 2014).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

On the analysis of a dynamical model representing gene regulatory networks under negative feedback

Ahsen, M. E., Özbay, H. & Niculescu, S. I., Jul 25 2014, In : International Journal of Robust and Nonlinear Control. 24, 11, p. 1609-1627 19 p.

Research output: Contribution to journalArticle

Opportunistic wireless charging for mobile social and sensor networks

Bulut, E., Ahsen, M. E. & Szymanski, B. K., Mar 18 2014, 2014 IEEE Globecom Workshops, GC Wkshps 2014. Institute of Electrical and Electronics Engineers Inc., p. 207-212 6 p. 7063432. (2014 IEEE Globecom Workshops, GC Wkshps 2014).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2013

On the computation of mixing coefficients between discrete-valued random variables

Ahsen, M. E. & Vidyasagar, M., Oct 31 2013, 2013 9th Asian Control Conference, ASCC 2013. 6606096. (2013 9th Asian Control Conference, ASCC 2013).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2012

A new feature selection algorithm for two-class classification problems and application to endometrial cancer

Ahsen, M. E., Singh, N. K., Boren, T., Vidyasagar, M. & White, M. A., Dec 1 2012, In : Proceedings of the IEEE Conference on Decision and Control. p. 2976-2982 7 p., 6426819.

Research output: Contribution to journalConference article

A novel application of mixing coefficients for reverse-engineering gene interaction networks

Singh, N., Ahsen, M. E., Mankala, S., Vidyasagar, M. & White, M. A., Dec 1 2012, 2012 50th Annual Allerton Conference on Communication, Control, and Computing, Allerton 2012. p. 1461-1466 6 p. 6483391. (2012 50th Annual Allerton Conference on Communication, Control, and Computing, Allerton 2012).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Inferring weighted and directed gene interaction networks from gene expression data using the phi-mixing coefficient

Singh, N., Ahsen, M. E., Mankala, S., Vidyasagar, M. & White, M., Dec 1 2012, Proceedings 2012 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS 2012. p. 168-171 4 p. 6507755. (Proceedings - IEEE International Workshop on Genomic Signal Processing and Statistics).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Stability analysis of a dynamical model representing gene regulatory networks

Ahsen, M. E., Özbay, H. & Niculescu, S. I., Sep 17 2012, Book of Abstracts - 10th IFAC Workshop on Time Delay Systems, TDS-2012. PART 1 ed. p. 191-196 6 p. (IFAC Proceedings Volumes (IFAC-PapersOnline); vol. 10, no. PART 1).

Research output: Chapter in Book/Report/Conference proceedingConference contribution