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Paper

Atwal, G. S., Kinney, J. B. (2016) Learning Quantitative Sequence–Function Relationships from Massively Parallel Experiments. Journal of Statistical Physics, 162 (5). pp. 1203-1243. ISSN 00224715

Plavskin, Yevgeniy, Nagashima, Akitomo, Perroud, Pierre-François, Hasebe, Mitsuyasu, Quatrano, Ralph S, Atwal, Gurinder S, Timmermans, Marja C P. (2016) Ancient trans-Acting siRNAs Confer Robustness and Sensitivity onto the Auxin Response. Developmental Cell, 36 (3). pp. 276-289. ISSN 1534-5807

Garvin, T., Aboukhalil, R., Kendall, J., Baslan, T., Atwal, G. S., Hicks, J., Wigler, M., Schatz, M. C. (2015) Interactive analysis and assessment of single-cell copy-number variations. Nat Methods, 12. pp. 1058-1060. ISSN 1548-7105 (Electronic)1548-7091 (Linking)

Garvin, Tyler, Aboukhalil, Robert, Kendall, Jude, Baslan, Timour, Atwal, Gurinder S, Hicks, James, Wigler, Michael, Schatz, Michael (2015) Interactive analysis and quality assessment of single-cell copy-number variations. Nature Methods, 12. pp. 1058-1060. ISSN 15487091 (ISSN)

Parida, L., Atwal, G., Mishra, B. (2014) Proceedings of The Twelfth Annual RECOMB Comparative Genomics Conference. BMC Genomics, 15 (Suppl ). I1. ISSN 1471-2164

Kinney, J. B., Atwal, G. S. (2014) Reply to Reshef et al.: Falsifiability or bust. Proceedings of the National Academy of Sciences of the United States of America, 111 (33). E3364. ISSN 10916490 (ISSN)

Ganapathy, G., Howard, J. T., Ward, J. M., Li, J., Li, B., Li, Y., Xiong, Y., Zhang, Y., Zhou, S., Schwartz, D. C., Schatz, M., Aboukhalil, R., Fedrigo, O., Bukovnik, L., Wang, T., Wray, G., Rasolonjatovo, I., Winer, R., Knight, J. R., Koren, S., Warren, W. C., Zhang, G., Phillippy, A. M., Jarvis, E. D. (2014) High-coverage sequencing and annotated assemblies of the budgerigar genome. Gigascience, 3. p. 11. ISSN 2047-217x

Kinney, J. B., Atwal, G. S. (2014) Reply to Murrell et al.: Noise matters. Proceedings of the National Academy of Sciences of the United States of America, 111 (21). E2161. ISSN 10916490

Watts, M., Fendler, B., Merrins, M. J., Satin, L. S., Bertram, R., Sherman, A. (2014) Calcium and Metabolic Oscillations in Pancreatic Islets: Who's Driving the Bus? SIAM journal on applied dynamical systems, 13 (2). pp. 683-703. ISSN 1536-0040 (Print)1536-0040

Kinney, J. B., Atwal, G. S. (2014) Equitability, mutual information, and the maximal information coefficient. Proceedings of the National Academy of Sciences of the United States of America, 111 (9). pp. 3354-9. ISSN 0027-8424

Kinney, J. B., Atwal, G. S. (2014) Parametric Inference in the Large Data Limit Using Maximally Informative Models. Neural Comput, 26 (4). pp. 637-653. ISSN 0899-7667

Atwal, Gurinder Singh (2014) Statistical mechanics of multistable perception. BioRxiv.

Kim, M. V., Ouyang, W., Liao, W., Zhang, M. Q., Li, M. O. (2013) The transcription factor Foxo1 controls central-memory CD8+ T cell responses to infection. Immunity, 39 (2). pp. 286-97. ISSN 1074-7613

Aboukhalil, R., Fendler, B., Atwal, G. S. (2013) Kerfuffle: a web tool for multi-species gene colocalization analysis. BMC Bioinformatics, 14. ISSN 1471-2105

Kinney, J. B., Atwal, G. S. (2013) Parametric inference in the large data limit using maximally informative models. Arxiv. (Unpublished)

Ouyang, W., Liao, W., Luo, C. T., Yin, N., Huse, M., Kim, M. V., Peng, M., Chan, P., Ma, Q., Mo, Y., Meijer, D., Zhao, K., Rudensky, A. Y., Atwal, G., Zhang, M. Q., Li, M. O. (2012) Novel Foxo1-dependent transcriptional programs control T reg cell function. Nature, 491 (7425). pp. 554-559.

Paul, A., Cai, Y., Atwal, G. S., Huang, Z. J. (2012) Developmental Coordination of Gene Expression between Synaptic Partners During GABAergic Circuit Assembly in Cerebellar Cortex. Frontiers in Neural Circuits, 6. p. 37. ISSN 1662-5110 (Electronic)1662-5110 (Linking)

Fendler, B., Atwal, G. (2012) Systematic deciphering of cancer genome networks. Yale Journal of Biology and Medicine, 85 (3). pp. 339-45. ISSN 1551-4056 (Electronic)0044-0086 (Linking)

Ying, Cai, Fendler, B., Atwal, G. S. (2012) Utilizing RNA-Seq data for cancer network inference. 2012 IEEE International Workshop on Genomic Signal Processing and Statistics, (GENSIPS). pp. 46-49. ISSN 2150-3001

Chen, M. H., Pratt, C. P., Zeeman, M. E., Schultz, N., Taylor, B. S., O'Neill, A., Castillo-Martin, M., Nowak, D. G., Naguib, A., Grace, D. M., Murn, J., Navin, N., Atwal, G. S., Sander, C., Gerald, W. L., Cordon-Cardo, C., Newton, A. C., Carver, B. S., Trotman, L. C. (2011) Identification of PHLPP1 as a Tumor Suppressor Reveals the Role of Feedback Activation in PTEN-Mutant Prostate Cancer Progression. Cancer Cell, 20 (2). pp. 173-186. ISSN 1535-6108

Mehta, M. S., Vazquez, A., Kulkarni, D. A., Kerrigan, J. E., Atwal, G. S., Metsugi, S., Toppmeyer, D. L., Levine, A. J., Hirshfield, K. M. (2011) Polymorphic variants in TSC1 and TSC2 and their association with breast cancer phenotypes. Breast Cancer Research and Treatment, 125 (3). pp. 861-868.

Benitez-Alfonso, Y., Jackson, D. P., Maule, A. (2011) Redox regulation of intercellular transport. Protoplasma, 248 (1). pp. 131-140.

Mizuno, H., Atwal, G. S., Wang, H., Levine, A. J., Vazquez, A. (2010) Fine-scale detection of population-specific linkage disequilibrium using haplotype entropy in the human genome. BMC Genet, 11. p. 27. ISSN 1471-2156 (Electronic) 1471-2156 (Linking)

Atwal, G. S., Kirchhoff, T., Bond, E. E., Montagna, M., Menin, C., Bertorelle, R., Scaini, M. C., Bartel, F., Böhnke, A., Pempe, C., Gradhand, E., Hauptmann, S., Offit, K., Levine, A. J., Bond, G. L. (2009) Altered tumor formation and evolutionary selection of genetic variants in the human MDM4 oncogene. Proc Natl Acad Sci U S A, 106 (25). pp. 10236-10241. ISSN 1091-6490 (Electronic)0027-8424 (Linking)

Kang, H. J., Feng, Z., Sun, Y., Atwal, G., Murphy, M. E., Rebbeck, T. R., Rosenwaks, Z., Levine, A. J., Hu, W. (2009) Single-nucleotide polymorphisms in the p53 pathway regulate fertility in humans. Proc Natl Acad Sci U S A, 106 (24). pp. 9761-6. ISSN 1091-6490 (Electronic)0027-8424 (Linking)

Atwal, G. S., Rabadan, R., Lozano, G., Strong, L. C., Ruijs, M. W., Schmidt, M. K., van't Veer, L. J., Nevanlinna, H., Tommiska, J., Aittomaki, K., Bougeard, G., Frebourg, T., Levine, A. J., Bond, G. L. (2008) An information-theoretic analysis of genetics, gender and age in cancer patients. PLoS ONE, 3 (4). e1951. ISSN 1932-6203 (Electronic)

Hu, W., Feng, Z., Atwal, G. S., Levine, A. J. (2008) p53: a new player in reproduction. Cell Cycle, 7 (7). pp. 848-52. ISSN 1551-4005 (Electronic)1551-4005 (Linking)

Atwal, G. S., Bond, G. L., Metsuyanim, S., Papa, M., Friedman, E., Distelman-Menachem, T., Ben Asher, E., Lancet, D., Ross, D. A., Sninsky, J., White, T. J., Levine, A. J., Yarden, R. (2007) Haplotype structure and selection of the MDM2 oncogene in humans. Proc Natl Acad Sci U S A, 104 (11). pp. 4524-9. ISSN 0027-8424 (Print) 0027-8424 (Linking)

Slonim , N., Atwal, G. S., Gasper, T., Bialek, W. (2005) Information-based clustering. Proc Nat Acad Sci (USA), 102 (51). pp. 18297-18302.

Slonim, Noam, Atwal, Gurinder Singh, Tkacik, Gasper, Bialek, William (2005) Estimating mutual information and multi--information in large networks. arXiv.

Atwal, G. S., Bialek, W (2004) Ambiguous model learning made unambiguous with 1/f priors. NIPS.

Atwal, G. S. (2004) Dynamic plasticity in coupled avian midbrain maps. Phys Rev E Stat Nonlin Soft Matter Phys, 70 (6 Pt 1). 061904. ISSN 1539-3755 (Print)1539-3755 (Linking)

Atwal, G. S., Ashcroft, N. W. (2004) Polarization waves and superconducting instabilities in electron systems. Physical Review B, 70 (10). p. 104513.

Atwal, G. S., Khalil, I. G., Ashcroft, N. W. (2003) Dynamical local-field factors and effective interactions in the two-dimensional electron liquid. Physical review B. Condensed matter and materials physics, 67 (11). p. 115107.

Atwal, G. S., Ashcroft, N. W. (2003) Correlation effects and the high-frequency spin susceptibility of an electron liquid: Exact limits. Physical review B. Condensed matter and materials physics, 67 (23). 233104-233104.4. ISSN 1098-0121

Atwal, G. S., Ashcroft, N. W. (2002) Relaxation of an electron system: Conserving approximation. Physical Review B, 65. p. 115109.

Atwal, G. S., Terentjev, E. (1998) Order-disorder transitions in nematic elastomers. Cambridge University Technical Report.

Book Section

Grochola, Lukasz F., Zeron-Medina, Jorge, Repapi, Emmanouela, Finlayson, Alexander E., Cai, Ying, Atwal, Gurinder Singh, Bond, Gareth L. (2013) The Inheritance of p53. In: p53 in the Clinics. Springer New York, pp. 25-46. ISBN 978-1-4614-3675-1

Conference or Workshop Item

Dimitrova, Nevenka , Atwal, Gurinder Singh “Mickey”, Vikalo, Haris, Yoon, Byung-Jun (2010) 9th IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS). In: 9th IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS), November 10–November 12, 2010, Cold Spring Harbor.

Atwal, G. S. (2006) Clustering problems in biological networks. In: Network data analysis and data mining: Applications in Biology, Computer Science, Intrusion Detection and other areas, Piscataway, NJ.

Shull, George Harrison (1910) Results of crossing Bursa bursa-pastoris and Bursa Heegeri. In: Proceedings of the 7th International Zoological Congress, Boston Meeting, August 19-24, 1907, Boston.

Book

Atwal, G. S. (2007) Correlations in Complex Disease Association Studies. UNSPECIFIED.

Atwal, G. S., Ashcroft, N (2000) Collective Excitations in a Quasi-Two-Dimensional Electron-Hole Gas. American Physical Society.

Thesis

Aboukhalil, Robert (2016) Elucidating Cancer Evolution using Single-Cell Sequencing and Comparative Genomics. PhD thesis, Cold Spring Harbor Laboratory.

Atwal, G. (2002) Dynamical correlation in quantum electron liquids. PhD thesis, Cornell University.

Video

Atwal, G. S. (2012) Talk from Mickey Atwal at the Cold Spring Harbor Laboratory In-House Symposium (2012). [Video] (Unpublished)

This list was generated on Thu Nov 23 08:01:50 2017 EST.
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