Ankit Malhotra - Publications

Affiliations: 
Jackson Laboratory for Genomic Medicine 
Area:
Genomics, Bioinformatics

22 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Chaisson MJP, Sanders AD, Zhao X, Malhotra A, Porubsky D, Rausch T, Gardner EJ, Rodriguez OL, Guo L, Collins RL, Fan X, Wen J, Handsaker RE, Fairley S, Kronenberg ZN, et al. Multi-platform discovery of haplotype-resolved structural variation in human genomes. Nature Communications. 10: 1784. PMID 30992455 DOI: 10.1038/S41467-018-08148-Z  0.424
2018 Becker T, Lee WP, Leone J, Zhu Q, Zhang C, Liu S, Sargent J, Shanker K, Mil-Homens A, Cerveira E, Ryan M, Cha J, Navarro FCP, Galeev T, Gerstein M, ... ... Malhotra A, et al. FusorSV: an algorithm for optimally combining data from multiple structural variation detection methods. Genome Biology. 19: 38. PMID 29559002 DOI: 10.1186/S13059-018-1404-6  0.386
2018 Wang X, Philip VM, Ananda G, White CC, Malhotra A, Michalski PJ, Karuturi KRM, Chintalapudi SR, Acklin C, Sasner M, Bennett DA, De Jager PL, Howell GR, Carter GW. A Bayesian Framework for Generalized Linear Mixed Modeling Identifies New Candidate Loci for Late-Onset Alzheimer's Disease. Genetics. PMID 29507048 DOI: 10.1534/Genetics.117.300673  0.335
2016 Kurum E, Benayoun BA, Malhotra A, George J, Ucar D. Computational inference of a genomic pluripotency signature in human and mouse stem cells. Biology Direct. 11: 47. PMID 27639379 DOI: 10.1186/S13062-016-0148-Z  0.416
2016 Poznik GD, Xue Y, Mendez FL, Willems TF, Massaia A, Wilson Sayres MA, Ayub Q, McCarthy SA, Narechania A, Kashin S, Chen Y, Banerjee R, Rodriguez-Flores JL, Cerezo M, Shao H, ... ... Malhotra A, et al. Punctuated bursts in human male demography inferred from 1,244 worldwide Y-chromosome sequences. Nature Genetics. PMID 27111036 DOI: 10.1038/Ng.3559  0.405
2016 Menghi F, Inaki K, Woo X, Kumar PA, Grzeda KR, Malhotra A, Yadav V, Kim H, Marquez EJ, Ucar D, Shreckengast PT, Wagner JP, MacIntyre G, Murthy Karuturi KR, Scully R, et al. The tandem duplicator phenotype as a distinct genomic configuration in cancer. Proceedings of the National Academy of Sciences of the United States of America. PMID 27071093 DOI: 10.1073/Pnas.1520010113  0.408
2015 Sudmant PH, Rausch T, Gardner EJ, Handsaker RE, Abyzov A, Huddleston J, Zhang Y, Ye K, Jun G, Hsi-Yang Fritz M, Konkel MK, Malhotra A, Stütz AM, Shi X, Paolo Casale F, et al. An integrated map of structural variation in 2,504 human genomes. Nature. 526: 75-81. PMID 26432246 DOI: 10.1038/Nature15394  0.41
2015 Qin W, Dion SL, Kutny PM, Zhang Y, Cheng AW, Jillette NL, Malhotra A, Geurts AM, Chen YG, Wang H. Efficient CRISPR/Cas9-Mediated Genome Editing in Mice by Zygote Electroporation of Nuclease. Genetics. 200: 423-30. PMID 25819794 DOI: 10.1534/Genetics.115.176594  0.337
2015 Malhotra A, Wang Y, Waters J, Chen K, Meric-Bernstam F, Hall IM, Navin NE. Ploidy-Seq: inferring mutational chronology by sequencing polyploid tumor subpopulations. Genome Medicine. 7: 6. PMID 25729435 DOI: 10.1186/S13073-015-0127-5  0.411
2014 Inaki K, Menghi F, Woo XY, Wagner JP, Jacques PÉ, Lee YF, Shreckengast PT, Soon WW, Malhotra A, Teo AS, Hillmer AM, Khng AJ, Ruan X, Ong SH, Bertrand D, et al. Systems consequences of amplicon formation in human breast cancer. Genome Research. 24: 1559-71. PMID 25186909 DOI: 10.1101/Gr.164871.113  0.414
2013 Malhotra A, Shibata Y, Hall IM, Dutta A. Chromosomal structural variations during progression of a prostate epithelial cell line to a malignant metastatic state inactivate the NF2, NIPSNAP1, UGT2B17, and LPIN2 genes. Cancer Biology & Therapy. 14: 840-52. PMID 23792589 DOI: 10.4161/Cbt.25329  0.54
2013 Malhotra A, Lindberg M, Faust GG, Leibowitz ML, Clark RA, Layer RM, Quinlan AR, Hall IM. Breakpoint profiling of 64 cancer genomes reveals numerous complex rearrangements spawned by homology-independent mechanisms. Genome Research. 23: 762-76. PMID 23410887 DOI: 10.1101/Gr.143677.112  0.331
2012 Navin NE, Wang Y, Waters J, Chen K, Hall I, Malhotra A, Quinlan A. Abstract 5054: Inferring mutational chronology in breast cancer by deep-sequencing tumor subpopulations Cancer Research. 72: 5054-5054. DOI: 10.1158/1538-7445.Am2012-5054  0.346
2011 Sun D, Lee YS, Malhotra A, Kim HK, Matecic M, Evans C, Jensen RV, Moskaluk CA, Dutta A. miR-99 family of MicroRNAs suppresses the expression of prostate-specific antigen and prostate cancer cell proliferation. Cancer Research. 71: 1313-24. PMID 21212412 DOI: 10.1158/0008-5472.Can-10-1031  0.478
2010 Shibata Y, Malhotra A, Dutta A. Detection of DNA fusion junctions for BCR-ABL translocations by Anchored ChromPET. Genome Medicine. 2: 70. PMID 20860819 DOI: 10.1186/Gm191  0.537
2010 Karnani N, Taylor CM, Malhotra A, Dutta A. Genomic study of replication initiation in human chromosomes reveals the influence of transcription regulation and chromatin structure on origin selection. Molecular Biology of the Cell. 21: 393-404. PMID 19955211 DOI: 10.1091/Mbc.E09-08-0707  0.557
2009 Lee YS, Shibata Y, Malhotra A, Dutta A. A novel class of small RNAs: tRNA-derived RNA fragments (tRFs). Genes & Development. 23: 2639-49. PMID 19933153 DOI: 10.1101/Gad.1837609  0.531
2009 Shibata Y, Malhotra A, Bekiranov S, Dutta A. Yeast genome analysis identifies chromosomal translocation, gene conversion events and several sites of Ty element insertion. Nucleic Acids Research. 37: 6454-65. PMID 19710036 DOI: 10.1093/Nar/Gkp650  0.556
2007 Birney E, Stamatoyannopoulos JA, Dutta A, Guigó R, Gingeras TR, Margulies EH, Weng Z, Snyder M, Dermitzakis ET, Thurman RE, Kuehn MS, Taylor CM, Neph S, Koch CM, ... ... Malhotra A, et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature. 447: 799-816. PMID 17571346 DOI: 10.1038/Nature05874  0.554
2007 Karnani N, Taylor C, Malhotra A, Dutta A. Pan-S replication patterns and chromosomal domains defined by genome-tiling arrays of ENCODE genomic areas. Genome Research. 17: 865-76. PMID 17568004 DOI: 10.1101/Gr.5427007  0.546
2006 Machida YJ, Chen Y, Machida Y, Malhotra A, Sarkar S, Dutta A. Targeted comparative RNA interference analysis reveals differential requirement of genes essential for cell proliferation. Molecular Biology of the Cell. 17: 4837-45. PMID 16957053 DOI: 10.1091/Mbc.E06-04-0340  0.512
2006 Kim HK, Lee YS, Sivaprasad U, Malhotra A, Dutta A. Muscle-specific microRNA miR-206 promotes muscle differentiation. The Journal of Cell Biology. 174: 677-87. PMID 16923828 DOI: 10.1083/Jcb.200603008  0.465
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