Harmit Singh Malik - Publications

Fred Hutchinson Cancer Research Center, Seattle, WA, United States 
evolution, chromatin

153 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
2023 Henriques WS, Young JM, Nemudryi A, Nemudraia A, Wiedenheft B, Malik HS. The diverse evolutionary histories of domesticated metaviral capsid genes in mammals. Biorxiv : the Preprint Server For Biology. PMID 37745568 DOI: 10.1101/2023.09.17.558119  0.384
2023 Chang CH, Mejia Natividad I, Malik HS. Expansion and loss of sperm nuclear basic protein genes in correspond with genetic conflicts between sex chromosomes. Elife. 12. PMID 36763410 DOI: 10.7554/eLife.85249  0.343
2022 Caro L, Raman P, Steiner FA, Ailion M, Malik HS. Recurrent but short-lived duplications of centromeric proteins in holocentric Caenorhabditis species. Molecular Biology and Evolution. PMID 36173809 DOI: 10.1093/molbev/msac206  0.345
2022 Raman P, Rominger MC, Young JM, Molaro A, Tsukiyama T, Malik HS. Novel classes and evolutionary turnover of histone H2B variants in the mammalian germline. Molecular Biology and Evolution. PMID 35099534 DOI: 10.1093/molbev/msac019  0.76
2022 Tenthorey JL, Emerman M, Malik HS. Evolutionary Landscapes of Host-Virus Arms Races. Annual Review of Immunology. PMID 35080919 DOI: 10.1146/annurev-immunol-072621-084422  0.8
2021 Kursel LE, McConnell H, de la Cruz AFA, Malik HS. Gametic specialization of centromeric histone paralogs in . Life Science Alliance. 4. PMID 33986021 DOI: 10.26508/lsa.202000992  0.808
2021 Ohainle M, Malik HS. A balancing act between primate lentiviruses and their receptor. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33879567 DOI: 10.1073/pnas.2104741118  0.703
2021 Chew GL, Bleakley M, Bradley RK, Malik HS, Henikoff S, Molaro A, Sarthy J. Short H2A histone variants are expressed in cancer. Nature Communications. 12: 490. PMID 33473122 DOI: 10.1038/s41467-020-20707-x  0.761
2020 Molaro A, Wood AJ, Janssens D, Kindelay SM, Eickbush MT, Wu S, Singh P, Muller CH, Henikoff S, Malik HS. Biparental contributions of the H2A.B histone variant control embryonic development in mice. Plos Biology. 18: e3001001. PMID 33362208 DOI: 10.1371/journal.pbio.3001001  0.77
2020 Kasinathan B, Colmenares SU, McConnell H, Young JM, Karpen GH, Malik HS. Innovation of heterochromatin functions drives rapid evolution of essential ZAD-ZNF genes in . Elife. 9. PMID 33169670 DOI: 10.7554/eLife.63368  0.815
2020 Hays M, Young JM, Levan PF, Malik HS. A natural variant of the essential host gene restricts the parasitic 2-micron plasmid in . Elife. 9. PMID 33063663 DOI: 10.7554/eLife.62337  0.802
2020 Tenthorey JL, Young C, Sodeinde A, Emerman M, Malik HS. Mutational resilience of antiviral restriction favors primate TRIM5α in host-virus evolutionary arms races. Elife. 9. PMID 32930662 DOI: 10.7554/eLife.59988  0.786
2020 Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, O'Meara MJ, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, ... ... Malik HS, et al. A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing. Biorxiv : the Preprint Server For Biology. PMID 32511329 DOI: 10.1101/2020.03.22.002386  0.536
2020 Yang L, Emerman M, Malik HS, McLaughlin RN. Retrocopying expands the functional repertoire of APOBEC3 antiviral proteins in primates. Elife. 9. PMID 32479260 DOI: 10.7554/eLife.58436  0.662
2020 Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Huettenhain R, Kaake RM, Richards AL, Tutuncuoglu B, ... ... Malik HS, et al. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. PMID 32353859 DOI: 10.1038/S41586-020-2286-9  0.7
2020 Kursel LE, Welsh FC, Malik HS. Ancient co-retention of paralogs of Cid centromeric histones and Cal1 chaperones in mosquito species. Molecular Biology and Evolution. PMID 32125433 DOI: 10.1093/molbev/msaa056  0.834
2020 Molaro A, Malik HS, Bourc'his D. Dynamic evolution of de novo DNA methyltransferases in rodent and primate genomes. Molecular Biology and Evolution. PMID 32077945 DOI: 10.1093/molbev/msaa044  0.776
2020 Yang L, Emerman M, Malik HS, Jnr RNM. Author response: Retrocopying expands the functional repertoire of APOBEC3 antiviral proteins in primates Elife. DOI: 10.7554/Elife.58436.Sa2  0.573
2019 Lamelza P, Young JM, Noble LM, Caro L, Isakharov A, Palanisamy M, Rockman MV, Malik HS, Ailion M. Hybridization promotes asexual reproduction in Caenorhabditis nematodes. Plos Genetics. 15: e1008520. PMID 31841515 DOI: 10.1371/Journal.Pgen.1008520  0.356
2019 Schroeder CM, Malik HS. Meiosis: How Gambling Chromosomes Beat the Rules. Current Biology : Cb. 29: R1247-R1248. PMID 31794760 DOI: 10.1016/j.cub.2019.10.056  0.349
2019 Schroeder CM, Valenzuela JR, Natividad IM, Hocky GM, Malik HS. A burst of genetic innovation in Drosophila actin-related proteins for testis-specific function. Molecular Biology and Evolution. PMID 31697328 DOI: 10.1093/Molbev/Msz262  0.397
2019 Colón-Thillet R, Hsieh E, Graf L, McLaughlin RN, Young JM, Kochs G, Emerman M, Malik HS. Combinatorial mutagenesis of rapidly evolving residues yields super-restrictor antiviral proteins. Plos Biology. 17: e3000181. PMID 31574080 DOI: 10.1371/Journal.Pbio.3000181  0.793
2019 Drinnenberg IA, Berger F, Elsässer SJ, Andersen PR, Ausió J, Bickmore WA, Blackwell AR, Erwin DH, Gahan JM, Gaut BS, Harvey ZH, Henikoff S, Kao JY, Kurdistani SK, Lemos B, ... ... Malik HS, et al. EvoChromo: towards a synthesis of chromatin biology and evolution. Development (Cambridge, England). 146. PMID 31558570 DOI: 10.1242/Dev.178962  0.775
2019 Forsberg KJ, Bhatt IV, Schmidtke DT, Javanmardi K, Dillard KE, Stoddard BL, Finkelstein IJ, Kaiser BK, Malik HS. Functional metagenomics-guided discovery of potent Cas9 inhibitors in the human microbiome. Elife. 8. PMID 31502535 DOI: 10.7554/Elife.46540  0.349
2019 Levin TC, Goldspiel BP, Malik HS. Density-dependent resistance protects from its own antimicrobial metabolite, HGA. Elife. 8. PMID 31134893 DOI: 10.7554/eLife.46086  0.549
2019 Levin TC, Goldspiel BP, Malik HS. Author response: Density-dependent resistance protects Legionella pneumophila from its own antimicrobial metabolite, HGA Elife. DOI: 10.7554/Elife.46086.024  0.503
2018 Forsberg KJ, Malik HS. Microbial Genomics: The Expanding Universe of Bacterial Defense Systems. Current Biology : Cb. 28: R361-R364. PMID 29689213 DOI: 10.1016/j.cub.2018.02.053  0.324
2018 Molaro A, Young JM, Malik HS. Evolutionary origins and diversification of testis-specific short histone H2A variants in mammals. Genome Research. PMID 29549088 DOI: 10.1101/gr.229799.117  0.773
2018 Kursel LE, Malik HS. The cellular mechanisms and consequences of centromere drive. Current Opinion in Cell Biology. 52: 58-65. PMID 29454259 DOI: 10.1016/j.ceb.2018.01.011  0.794
2017 Molaro A, Malik HS. Culture shock. Elife. 6. PMID 29251593 DOI: 10.7554/eLife.33312  0.735
2017 Ailion M, Malik HS. Genetics: Master Regulator or Master of Disguise? Current Biology : Cb. 27: R844-R847. PMID 28898647 DOI: 10.1016/J.Cub.2017.07.030  0.345
2017 Kasinathan B, Ahmad K, Malik HS. Waddington Redux: De Novo Mutations Underlie the Genetic Assimilation of Stress-Induced Phenocopies in Drosophila melanogaster. Genetics. 207: 49-51. PMID 28874454 DOI: 10.1534/genetics.117.205039  0.761
2017 Bull JJ, Malik HS. The gene drive bubble: New realities. Plos Genetics. 13: e1006850. PMID 28727819 DOI: 10.1371/journal.pgen.1006850  0.349
2017 Nuckolls NL, Bravo Núñez MA, Eickbush MT, Young JM, Lange JJ, Yu JS, Smith GR, Jaspersen SL, Malik HS, Zanders SE. genes are prolific dual poison-antidote meiotic drivers. Elife. 6. PMID 28631612 DOI: 10.7554/Elife.26033  0.803
2017 Levin TC, Malik HS. Rapidly evolving Toll-3/4 genes encode male-specific Toll-like receptors in Drosophila. Molecular Biology and Evolution. PMID 28541576 DOI: 10.1093/molbev/msx168  0.63
2017 Kursel LE, Malik HS. Recurrent gene duplication leads to diverse repertoires of centromeric histones in Drosophila species. Molecular Biology and Evolution. PMID 28333217 DOI: 10.1093/molbev/msx091  0.833
2017 McLaughlin RN, Malik HS. Genetic conflicts: the usual suspects and beyond. The Journal of Experimental Biology. 220: 6-17. PMID 28057823 DOI: 10.1242/jeb.148148  0.329
2017 Nuckolls NL, Núñez MAB, Eickbush MT, Young JM, Lange JJ, Yu JS, Smith GR, Jaspersen SL, Malik HS, Zanders SE. Author response: wtf genes are prolific dual poison-antidote meiotic drivers Elife. DOI: 10.7554/Elife.26033.024  0.781
2016 Cheng CY, Young JM, Lin CG, Chao JL, Malik HS, Yao MC. The piggyBac transposon-derived genes TPB1 and TPB6 mediate essential transposon-like excision during the developmental rearrangement of key genes in Tetrahymena thermophila. Genes & Development. 30: 2724-2736. PMID 28087716 DOI: 10.1101/Gad.290460.116  0.463
2016 Patel MR, Miriyala GK, Littleton AJ, Yang H, Trinh K, Young JM, Kennedy SR, Yamashita YM, Pallanck LJ, Malik HS. A mitochondrial DNA hypomorph of cytochrome oxidase specifically impairs male fertility in Drosophila melanogaster. Elife. 5. PMID 27481326 DOI: 10.7554/Elife.16923  0.462
2016 Kursel LE, Malik HS. Centromeres. Current Biology : Cb. 26: R487-R490. PMID 27326706 DOI: 10.1016/j.cub.2016.05.031  0.792
2016 Daugherty MD, Schaller AM, Geballe AP, Malik HS. Evolution-guided functional analyses reveal diverse antiviral specificities encoded by IFIT1 genes in mammals. Elife. 5. PMID 27240734 DOI: 10.7554/Elife.14228  0.725
2016 Franks TM, Benner C, Narvaiza I, Marchetto MC, Young JM, Malik HS, Gage FH, Hetzer MW. Evolution of a transcriptional regulator from a transmembrane nucleoporin. Genes & Development. PMID 27198230 DOI: 10.1101/Gad.280941.116  0.4
2016 McLaughlin RN, Gable JT, Wittkopp CJ, Emerman M, Malik HS. Conservation and Innovation of APOBEC3A Restriction Functions during Primate Evolution. Molecular Biology and Evolution. PMID 27189538 DOI: 10.1093/Molbev/Msw070  0.645
2016 Levine MT, Vander Wende HM, Hsieh E, Baker EP, Malik HS. Recurrent gene duplication diversifies genome defense repertoire in Drosophila. Molecular Biology and Evolution. PMID 26979388 DOI: 10.1093/Molbev/Msw053  0.781
2016 Drinnenberg IA, Henikoff S, Malik HS. Evolutionary Turnover of Kinetochore Proteins: A Ship of Theseus? Trends in Cell Biology. PMID 26877204 DOI: 10.1016/J.Tcb.2016.01.005  0.795
2016 Molaro A, Malik HS. Hide and seek: how chromatin-based pathways silence retroelements in the mammalian germline. Current Opinion in Genetics & Development. 37: 51-58. PMID 26821364 DOI: 10.1016/j.gde.2015.12.001  0.789
2016 Daugherty MD, Schaller AM, Geballe AP, Malik HS. Author response: Evolution-guided functional analyses reveal diverse antiviral specificities encoded by IFIT1 genes in mammals Elife. DOI: 10.7554/Elife.14228.023  0.721
2015 Phadnis N, Baker EP, Cooper JC, Frizzell KA, Hsieh E, de la Cruz AF, Shendure J, Kitzman JO, Malik HS. An essential cell cycle regulation gene causes hybrid inviability in Drosophila. Science (New York, N.Y.). 350: 1552-5. PMID 26680200 DOI: 10.1126/Science.Aac7504  0.784
2015 Mitchell PS, Young JM, Emerman M, Malik HS. Evolutionary Analyses Suggest a Function of MxB Immunity Proteins Beyond Lentivirus Restriction. Plos Pathogens. 11: e1005304. PMID 26658285 DOI: 10.1371/Journal.Ppat.1005304  0.744
2015 Zanders SE, Malik HS. Chromosome segregation: human female meiosis breaks all the rules. Current Biology : Cb. 25: R654-6. PMID 26241139 DOI: 10.1016/J.Cub.2015.06.054  0.722
2015 Akbari OS, Bellen HJ, Bier E, Bullock SL, Burt A, Church GM, Cook KR, Duchek P, Edwards OR, Esvelt KM, Gantz VM, Golic KG, Gratz SJ, Harrison MM, Hayes KR, ... ... Malik HS, et al. BIOSAFETY. Safeguarding gene drive experiments in the laboratory. Science (New York, N.Y.). 349: 927-9. PMID 26229113 DOI: 10.1126/Science.Aac7932  0.333
2015 McLaughlin RN, Malik HS. LINE-1 Retroelements Get ZAPped! Plos Genetics. 11: e1005364. PMID 26182081 DOI: 10.1371/journal.pgen.1005364  0.394
2015 Levine MT, Vander Wende HM, Malik HS. Mitotic fidelity requires transgenerational action of a testis-restricted HP1. Elife. 4. PMID 26151671 DOI: 10.7554/Elife.07378  0.734
2015 Zanders SE, Malik HS. R2d2 and Hyperdrive Mechanisms (in Mouse Meiosis). Plos Genetics. 11: e1004950. PMID 25680097 DOI: 10.1371/Journal.Pgen.1004950  0.739
2015 Chou S, Daugherty MD, Peterson SB, Biboy J, Yang Y, Jutras BL, Fritz-Laylin LK, Ferrin MA, Harding BN, Jacobs-Wagner C, Yang XF, Vollmer W, Malik HS, Mougous JD. Transferred interbacterial antagonism genes augment eukaryotic innate immune function. Nature. 518: 98-101. PMID 25470067 DOI: 10.1038/Nature13965  0.725
2015 Levine MT, Wende HMV, Malik HS. Author response: Mitotic fidelity requires transgenerational action of a testis-restricted HP1 Elife. DOI: 10.7554/Elife.07378.032  0.687
2015 Malik H. ID: 253 Cytokine. 76: 59. DOI: 10.1016/j.cyto.2015.08.017  0.456
2015 Zanders SE, Malik HS. Chromosome Segregation: Human Female Meiosis Breaks All the Rules Current Biology. 25: R654-R656. DOI: 10.1016/j.cub.2015.06.054  0.703
2014 Singh PK, Bourque G, Craig NL, Dubnau JT, Feschotte C, Flasch DA, Gunderson KL, Malik HS, Moran JV, Peters JE, Slotkin RK, Levin HL. Mobile genetic elements and genome evolution 2014. Mobile Dna. 5: 26. PMID 30117500 DOI: 10.1186/1759-8753-5-26  0.616
2014 Phadnis N, Malik HS. Speciation via autoimmunity: a dangerous mix. Cell. 159: 1247-9. PMID 25480288 DOI: 10.1016/j.cell.2014.11.028  0.723
2014 Ross BD, Malik HS. Genetic conflicts: stronger centromeres win tug-of-war in female meiosis. Current Biology : Cb. 24: R966-8. PMID 25291640 DOI: 10.1016/J.Cub.2014.08.053  0.613
2014 Drinnenberg IA, deYoung D, Henikoff S, Malik HS. Recurrent loss of CenH3 is associated with independent transitions to holocentricity in insects. Elife. 3. PMID 25247700 DOI: 10.7554/Elife.03676  0.8
2014 McLaughlin RN, Young JM, Yang L, Neme R, Wichman HA, Malik HS. Positive selection and multiple losses of the LINE-1-derived L1TD1 gene in mammals suggest a dual role in genome defense and pluripotency. Plos Genetics. 10: e1004531. PMID 25211013 DOI: 10.1371/Journal.Pgen.1004531  0.455
2014 Daugherty MD, Malik HS. How a virus blocks a cellular emergency access lane to the nucleus, STAT! Cell Host & Microbe. 16: 150-2. PMID 25121743 DOI: 10.1016/J.Chom.2014.07.013  0.659
2014 Zanders SE, Eickbush MT, Yu JS, Kang JW, Fowler KR, Smith GR, Malik HS. Genome rearrangements and pervasive meiotic drive cause hybrid infertility in fission yeast. Elife. 3: e02630. PMID 24963140 DOI: 10.7554/Elife.02630  0.748
2014 Daugherty MD, Young JM, Kerns JA, Malik HS. Rapid evolution of PARP genes suggests a broad role for ADP-ribosylation in host-virus conflicts. Plos Genetics. 10: e1004403. PMID 24875882 DOI: 10.1371/Journal.Pgen.1004403  0.761
2014 Tenthorey JL, Kofoed EM, Daugherty MD, Malik HS, Vance RE. Molecular basis for specific recognition of bacterial ligands by NAIP/NLRC4 inflammasomes. Molecular Cell. 54: 17-29. PMID 24657167 DOI: 10.1016/J.Molcel.2014.02.018  0.77
2014 Drinnenberg IA, deYoung D, Henikoff S, Malik HS. Author response: Recurrent loss of CenH3 is associated with independent transitions to holocentricity in insects Elife. DOI: 10.7554/Elife.03676.020  0.748
2014 Zanders SE, Eickbush MT, Yu JS, Kang J, Fowler KR, Smith GR, Malik HS. Author response: Genome rearrangements and pervasive meiotic drive cause hybrid infertility in fission yeast Elife. DOI: 10.7554/Elife.02630.036  0.735
2014 Singh PK, Bourque G, Craig NL, Dubnau JT, Feschotte C, Flasch DA, Gunderson KL, Malik HS, Moran JV, Peters JE, Slotkin RK, Levin HL. Mobile genetic elements and genome evolution 2014 Mobile Dna. 5. DOI: 10.1186/1759-8753-5-26  0.559
2013 Malfavon-Borja R, Sawyer SL, Wu LI, Emerman M, Malik HS. An evolutionary screen highlights canonical and noncanonical candidate antiviral genes within the primate TRIM gene family. Genome Biology and Evolution. 5: 2141-54. PMID 24158625 DOI: 10.1093/Gbe/Evt163  0.809
2013 Compton AA, Malik HS, Emerman M. Host gene evolution traces the evolutionary history of ancient primate lentiviruses. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 368: 20120496. PMID 23938749 DOI: 10.1098/Rstb.2012.0496  0.633
2013 Carter JJ, Daugherty MD, Qi X, Bheda-Malge A, Wipf GC, Robinson K, Roman A, Malik HS, Galloway DA. Identification of an overprinting gene in Merkel cell polyomavirus provides evolutionary insight into the birth of viral genes. Proceedings of the National Academy of Sciences of the United States of America. 110: 12744-9. PMID 23847207 DOI: 10.1073/Pnas.1303526110  0.724
2013 Ross BD, Rosin L, Thomae AW, Hiatt MA, Vermaak D, de la Cruz AF, Imhof A, Mellone BG, Malik HS. Stepwise evolution of essential centromere function in a Drosophila neogene. Science (New York, N.Y.). 340: 1211-4. PMID 23744945 DOI: 10.1126/Science.1234393  0.682
2013 Mitchell PS, Emerman M, Malik HS. An evolutionary perspective on the broad antiviral specificity of MxA. Current Opinion in Microbiology. 16: 493-9. PMID 23725670 DOI: 10.1016/J.Mib.2013.04.005  0.69
2013 Levine MT, Malik HS. A rapidly evolving genomic toolkit for Drosophila heterochromatin. Fly. 7: 137-41. PMID 23519206 DOI: 10.4161/Fly.24335  0.78
2013 Malfavon-Borja R, Wu LI, Emerman M, Malik HS. Birth, decay, and reconstruction of an ancient TRIMCyp gene fusion in primate genomes. Proceedings of the National Academy of Sciences of the United States of America. 110: E583-92. PMID 23319649 DOI: 10.1073/Pnas.1216542110  0.82
2013 Phadnis N, Malik HS. The molecular and evolutionary basis of hybrid sterility: From Odysseus to Overdrive Speciation: Natural Processes, Genetics and Biodiversity. 207-225.  0.66
2012 Daugherty MD, Malik HS. Rules of engagement: molecular insights from host-virus arms races. Annual Review of Genetics. 46: 677-700. PMID 23145935 DOI: 10.1146/Annurev-Genet-110711-155522  0.727
2012 Mitchell PS, Patzina C, Emerman M, Haller O, Malik HS, Kochs G. Evolution-guided identification of antiviral specificity determinants in the broadly acting interferon-induced innate immunity factor MxA. Cell Host & Microbe. 12: 598-604. PMID 23084925 DOI: 10.1016/J.Chom.2012.09.005  0.673
2012 Brunette RL, Young JM, Whitley DG, Brodsky IE, Malik HS, Stetson DB. Extensive evolutionary and functional diversity among mammalian AIM2-like receptors. The Journal of Experimental Medicine. 209: 1969-83. PMID 23045604 DOI: 10.1084/Jem.20121960  0.354
2012 Elde NC, Child SJ, Eickbush MT, Kitzman JO, Rogers KS, Shendure J, Geballe AP, Malik HS. Poxviruses deploy genomic accordions to adapt rapidly against host antiviral defenses. Cell. 150: 831-41. PMID 22901812 DOI: 10.1016/J.Cell.2012.05.049  0.731
2012 Levine MT, McCoy C, Vermaak D, Lee YC, Hiatt MA, Matsen FA, Malik HS. Phylogenomic analysis reveals dynamic evolutionary history of the Drosophila heterochromatin protein 1 (HP1) gene family. Plos Genetics. 8: e1002729. PMID 22737079 DOI: 10.1371/Journal.Pgen.1002729  0.79
2012 Lim ES, Wu LI, Malik HS, Emerman M. The function and evolution of the restriction factor Viperin in primates was not driven by lentiviruses. Retrovirology. 9: 55. PMID 22734835 DOI: 10.1186/1742-4690-9-55  0.582
2012 Talbert PB, Ahmad K, Almouzni G, Ausió J, Berger F, Bhalla PL, Bonner WM, Cande WZ, Chadwick BP, Chan SW, Cross GA, Cui L, Dimitrov SI, Doenecke D, Eirin-López JM, ... ... Malik HS, et al. A unified phylogeny-based nomenclature for histone variants. Epigenetics & Chromatin. 5: 7. PMID 22650316 DOI: 10.1186/1756-8935-5-7  0.638
2012 Patel MR, Loo YM, Horner SM, Gale M, Malik HS. Convergent evolution of escape from hepaciviral antagonism in primates. Plos Biology. 10: e1001282. PMID 22427742 DOI: 10.1371/Journal.Pbio.1001282  0.482
2012 Malik HS. Retroviruses push the envelope for mammalian placentation. Proceedings of the National Academy of Sciences of the United States of America. 109: 2184-5. PMID 22308481 DOI: 10.1073/pnas.1121365109  0.446
2012 Lim ES, Fregoso OI, McCoy CO, Matsen FA, Malik HS, Emerman M. The ability of primate lentiviruses to degrade the monocyte restriction factor SAMHD1 preceded the birth of the viral accessory protein Vpx. Cell Host & Microbe. 11: 194-204. PMID 22284954 DOI: 10.1016/J.Chom.2012.01.004  0.636
2012 Phadnis N, Hsieh E, Malik HS. Birth, death, and replacement of karyopherins in Drosophila. Molecular Biology and Evolution. 29: 1429-40. PMID 22160828 DOI: 10.1093/molbev/msr306  0.719
2011 Levine MT, Malik HS. Learning to protect your genome on the fly. Cell. 147: 1440-1. PMID 22196722 DOI: 10.1016/J.Cell.2011.12.001  0.722
2011 Patel MR, Emerman M, Malik HS. Paleovirology - ghosts and gifts of viruses past. Current Opinion in Virology. 1: 304-9. PMID 22003379 DOI: 10.1016/J.Coviro.2011.06.007  0.695
2011 Duggal NK, Malik HS, Emerman M. The breadth of antiviral activity of Apobec3DE in chimpanzees has been driven by positive selection. Journal of Virology. 85: 11361-71. PMID 21835794 DOI: 10.1128/Jvi.05046-11  0.621
2011 Elde NC, Roach KC, Yao MC, Malik HS. Absence of positive selection on centromeric histones in Tetrahymena suggests unsuppressed centromere: drive in lineages lacking male meiosis. Journal of Molecular Evolution. 72: 510-20. PMID 21643829 DOI: 10.1007/S00239-011-9449-0  0.754
2010 Lim ES, Malik HS, Emerman M. Ancient adaptive evolution of tetherin shaped the functions of Vpu and Nef in human immunodeficiency virus and primate lentiviruses. Journal of Virology. 84: 7124-34. PMID 20444900 DOI: 10.1128/Jvi.00468-10  0.639
2010 Emerman M, Malik HS. Paleovirology--modern consequences of ancient viruses. Plos Biology. 8: e1000301. PMID 20161719 DOI: 10.1371/Journal.Pbio.1000301  0.619
2009 Oliver PL, Goodstadt L, Bayes JJ, Birtle Z, Roach KC, Phadnis N, Beatson SA, Lunter G, Malik HS, Ponting CP. Accelerated evolution of the Prdm9 speciation gene across diverse metazoan taxa. Plos Genetics. 5: e1000753. PMID 19997497 DOI: 10.1371/Journal.Pgen.1000753  0.817
2009 Moran JV, Malik HS. Diamonds and rust: how transposable elements influence mammalian genomes. Conference on Mobile Elements in Mammalian Genomes. Embo Reports. 10: 1306-10. PMID 19949412 DOI: 10.1038/embor.2009.248  0.366
2009 Bayes JJ, Malik HS. Altered heterochromatin binding by a hybrid sterility protein in Drosophila sibling species. Science (New York, N.Y.). 326: 1538-41. PMID 19933102 DOI: 10.1126/Science.1181756  0.757
2009 Vermaak D, Malik HS. Multiple roles for heterochromatin protein 1 genes in Drosophila. Annual Review of Genetics. 43: 467-92. PMID 19919324 DOI: 10.1146/annurev-genet-102108-134802  0.485
2009 Elde NC, Malik HS. The evolutionary conundrum of pathogen mimicry. Nature Reviews. Microbiology. 7: 787-97. PMID 19806153 DOI: 10.1038/Nrmicro2222  0.684
2009 Malik HS, Henikoff S. Major evolutionary transitions in centromere complexity. Cell. 138: 1067-82. PMID 19766562 DOI: 10.1016/j.cell.2009.08.036  0.557
2009 Vermaak D, Bayes JJ, Malik HS. A surrogate approach to study the evolution of noncoding DNA elements that organize eukaryotic genomes. The Journal of Heredity. 100: 624-36. PMID 19635763 DOI: 10.1093/Jhered/Esp063  0.761
2009 Malik HS. The centromere-drive hypothesis: a simple basis for centromere complexity. Progress in Molecular and Subcellular Biology. 48: 33-52. PMID 19521811 DOI: 10.1007/978-3-642-00182-6_2  0.405
2009 Smith EE, Malik HS. The apolipoprotein L family of programmed cell death and immunity genes rapidly evolved in primates at discrete sites of host-pathogen interactions. Genome Research. 19: 850-8. PMID 19299565 DOI: 10.1101/gr.085647.108  0.386
2009 Tareen SU, Sawyer SL, Malik HS, Emerman M. An expanded clade of rodent Trim5 genes. Virology. 385: 473-83. PMID 19147168 DOI: 10.1016/J.Virol.2008.12.018  0.768
2009 Elde NC, Child SJ, Geballe AP, Malik HS. Protein kinase R reveals an evolutionary model for defeating viral mimicry. Nature. 457: 485-9. PMID 19043403 DOI: 10.1038/Nature07529  0.694
2009 LaRue RS, Andrésdóttir V, Blanchard Y, Conticello SG, Derse D, Emerman M, Greene WC, Jónsson SR, Landau NR, Löchelt M, Malik HS, Malim MH, Münk C, O'Brien SJ, Pathak VK, et al. Guidelines for naming nonprimate APOBEC3 genes and proteins. Journal of Virology. 83: 494-7. PMID 18987154 DOI: 10.1128/Jvi.01976-08  0.571
2009 Malik HS. Evolution of TRIM antiviral genes in primate genomes Retrovirology. 6: I12. DOI: 10.1186/1742-4690-6-S2-I12  0.451
2008 OhAinle M, Kerns JA, Li MM, Malik HS, Emerman M. Antiretroelement activity of APOBEC3H was lost twice in recent human evolution. Cell Host & Microbe. 4: 249-59. PMID 18779051 DOI: 10.1016/J.Chom.2008.07.005  0.801
2008 Kerns JA, Emerman M, Malik HS. Positive selection and increased antiviral activity associated with the PARP-containing isoform of human zinc-finger antiviral protein. Plos Genetics. 4: e21. PMID 18225958 DOI: 10.1371/Journal.Pgen.0040021  0.647
2007 Wiggins BL, Malik HS. Molecular evolution of Drosophila Cdc6, an essential DNA replication-licensing gene, suggests an adaptive choice of replication origins. Fly. 1: 155-63. PMID 18618020 DOI: 10.4161/fly.4599  0.444
2007 Sawyer SL, Emerman M, Malik HS. Discordant evolution of the adjacent antiretroviral genes TRIM22 and TRIM5 in mammals. Plos Pathogens. 3: e197. PMID 18159944 DOI: 10.1371/Journal.Ppat.0030197  0.768
2007 Rodriguez MA, Vermaak D, Bayes JJ, Malik HS. Species-specific positive selection of the male-specific lethal complex that participates in dosage compensation in Drosophila. Proceedings of the National Academy of Sciences of the United States of America. 104: 15412-7. PMID 17878295 DOI: 10.1073/Pnas.0707445104  0.779
2007 Kaiser SM, Malik HS, Emerman M. Restriction of an extinct retrovirus by the human TRIM5alpha antiviral protein. Science (New York, N.Y.). 316: 1756-8. PMID 17588933 DOI: 10.1126/Science.1140579  0.617
2007 Malik HS. Genes get diabolical Nature Genetics. 39: 577-577. DOI: 10.1038/ng0507-577  0.368
2006 Sawyer SL, Malik HS. Positive selection of yeast nonhomologous end-joining genes and a retrotransposon conflict hypothesis. Proceedings of the National Academy of Sciences of the United States of America. 103: 17614-9. PMID 17101967 DOI: 10.1073/Pnas.0605468103  0.7
2006 Malik HS. A hitchhiker's guide to survival finally makes CENs. The Journal of Cell Biology. 174: 747-9. PMID 16966417 DOI: 10.1083/jcb.200608107  0.309
2006 Malik HS, Bayes JJ. Genetic conflicts during meiosis and the evolutionary origins of centromere complexity. Biochemical Society Transactions. 34: 569-73. PMID 16856863 DOI: 10.1042/Bst0340569  0.777
2006 OhAinle M, Kerns JA, Malik HS, Emerman M. Adaptive evolution and antiviral activity of the conserved mammalian cytidine deaminase APOBEC3H. Journal of Virology. 80: 3853-62. PMID 16571802 DOI: 10.1128/Jvi.80.8.3853-3862.2006  0.826
2006 Sawyer SL, Wu LI, Akey JM, Emerman M, Malik HS. High-frequency persistence of an impaired allele of the retroviral defense gene TRIM5alpha in humans. Current Biology : Cb. 16: 95-100. PMID 16401428 DOI: 10.1016/J.Cub.2005.11.045  0.731
2006 Cervantes MD, Xi X, Vermaak D, Yao MC, Malik HS. The CNA1 histone of the ciliate Tetrahymena thermophila is essential for chromosome segregation in the germline micronucleus. Molecular Biology of the Cell. 17: 485-97. PMID 16251352 DOI: 10.1091/Mbc.E05-07-0698  0.367
2005 Malik HS. Mimulus finds centromeres in the driver's seat. Trends in Ecology & Evolution. 20: 151-4. PMID 16701359 DOI: 10.1016/j.tree.2005.01.014  0.339
2005 Malik HS, Henikoff S. Positive selection of Iris, a retroviral envelope-derived host gene in Drosophila melanogaster. Plos Genetics. 1: e44. PMID 16244705 DOI: 10.1371/journal.pgen.0010044  0.631
2005 Vermaak D, Henikoff S, Malik HS. Positive selection drives the evolution of rhino, a member of the heterochromatin protein 1 family in Drosophila. Plos Genetics. 1: 96-108. PMID 16103923 DOI: 10.1371/journal.pgen.0010009  0.631
2005 Malik HS. Ribonuclease H evolution in retrotransposable elements. Cytogenetic and Genome Research. 110: 392-401. PMID 16093691 DOI: 10.1159/000084971  0.334
2005 Sawyer SL, Wu LI, Emerman M, Malik HS. Positive selection of primate TRIM5alpha identifies a critical species-specific retroviral restriction domain. Proceedings of the National Academy of Sciences of the United States of America. 102: 2832-7. PMID 15689398 DOI: 10.1073/Pnas.0409853102  0.765
2004 Sawyer SL, Emerman M, Malik HS. Ancient adaptive evolution of the primate antiviral DNA-editing enzyme APOBEC3G. Plos Biology. 2: E275. PMID 15269786 DOI: 10.1371/Journal.Pbio.0020275  0.774
2003 Malik HS, Henikoff S. Phylogenomics of the nucleosome. Nature Structural Biology. 10: 882-91. PMID 14583738 DOI: 10.1038/nsb996  0.554
2002 Malik HS, Henikoff S. Conflict begets complexity: the evolution of centromeres. Current Opinion in Genetics & Development. 12: 711-8. PMID 12433586 DOI: 10.1016/S0959-437X(02)00351-9  0.561
2002 Henikoff S, Malik HS. Centromeres: selfish drivers. Nature. 417: 227. PMID 12015578 DOI: 10.1038/417227a  0.493
2002 Burke WD, Malik HS, Rich SM, Eickbush TH. Ancient lineages of non-LTR retrotransposons in the primitive eukaryote, Giardia lamblia. Molecular Biology and Evolution. 19: 619-30. PMID 11961096 DOI: 10.1093/Oxfordjournals.Molbev.A004121  0.615
2002 Malik HS, Vermaak D, Henikoff S. Recurrent evolution of DNA-binding motifs in the Drosophila centromeric histone. Proceedings of the National Academy of Sciences of the United States of America. 99: 1449-54. PMID 11805302 DOI: 10.1073/pnas.032664299  0.544
2001 Borodin PM, Henikoff S, Ahmad K, Malik HS. Speciation and centromere evolution [3] (multiple letters) Science. 294: 2478-2480. PMID 11770517 DOI: 10.1126/science.294.5551.2478  0.608
2001 Henikoff S, Ahmad K, Malik HS. The centromere paradox: stable inheritance with rapidly evolving DNA. Science (New York, N.Y.). 293: 1098-102. PMID 11498581 DOI: 10.1126/science.1062939  0.67
2001 Malik HS, Eickbush TH. Phylogenetic analysis of ribonuclease H domains suggests a late, chimeric origin of LTR retrotransposable elements and retroviruses. Genome Research. 11: 1187-97. PMID 11435400 DOI: 10.1101/Gr.185101  0.638
2001 Malik HS, Henikoff S. Adaptive evolution of Cid, a centromere-specific histone in Drosophila. Genetics. 157: 1293-8. PMID 11238413  0.503
2001 Claypool JA, Malik HS, Eickbush TH, Sandmeyer SB. Ten-kilodalton domain in Ty3 Gag3-Pol3p between PR and RT is dispensable for Ty3 transposition. Journal of Virology. 75: 1557-60. PMID 11152529 DOI: 10.1128/Jvi.75.3.1557-1560.2001  0.612
2000 Malik HS, Henikoff S, Eickbush TH. Poised for contagion: evolutionary origins of the infectious abilities of invertebrate retroviruses. Genome Research. 10: 1307-18. PMID 10984449 DOI: 10.1101/Gr.145000  0.726
2000 Malik HS, Henikoff S. Dual recognition-incision enzymes might be involved in mismatch repair and meiosis. Trends in Biochemical Sciences. 25: 414-8. PMID 10973051 DOI: 10.1016/S0968-0004(00)01623-6  0.568
2000 Malik HS, Burke WD, Eickbush TH. Putative telomerase catalytic subunits from Giardia lamblia and Caenorhabditis elegans. Gene. 251: 101-8. PMID 10876087 DOI: 10.1016/S0378-1119(00)00207-9  0.631
2000 Malik HS, Eickbush TH. NeSL-1, an ancient lineage of site-specific non-LTR retrotransposons from Caenorhabditis elegans. Genetics. 154: 193-203. PMID 10628980  0.587
1999 Yang J, Malik HS, Eickbush TH. Identification of the endonuclease domain encoded by R2 and other site-specific, non-long terminal repeat retrotransposable elements. Proceedings of the National Academy of Sciences of the United States of America. 96: 7847-52. PMID 10393910 DOI: 10.1073/Pnas.96.14.7847  0.62
1999 Malik HS, Burke WD, Eickbush TH. The age and evolution of non-LTR retrotransposable elements. Molecular Biology and Evolution. 16: 793-805. PMID 10368957 DOI: 10.1093/Oxfordjournals.Molbev.A026164  0.602
1999 Burke WD, Malik HS, Jones JP, Eickbush TH. The domain structure and retrotransposition mechanism of R2 elements are conserved throughout arthropods. Molecular Biology and Evolution. 16: 502-11. PMID 10331276 DOI: 10.1093/Oxfordjournals.Molbev.A026132  0.614
1999 Malik HS, Eickbush TH. Modular evolution of the integrase domain in the Ty3/Gypsy class of LTR retrotransposons. Journal of Virology. 73: 5186-90. PMID 10233986 DOI: 10.1128/Jvi.73.6.5186-5190.1999  0.607
1999 Malik HS, Eickbush TH. Retrotransposable elements R1 and R2 in the rDNA units of Drosophila mercatorum: abnormal abdomen revisited. Genetics. 151: 653-65. PMID 9927458  0.535
1999 Malik HS, Eickbush TH. Modular Evolution of the Integrase Domain in the Ty3/Gypsy Class of LTR Retrotransposons Journal of Virology. 73: 5186-5190. DOI: 10.1128/jvi.73.6.5186-5190.1999  0.567
1998 Spinelli SL, Malik HS, Consaul SA, Phizicky EM. A functional homolog of a yeast tRNA splicing enzyme is conserved in higher eukaryotes and in Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America. 95: 14136-41. PMID 9826666 DOI: 10.1073/Pnas.95.24.14136  0.355
1998 Malik HS, Eickbush TH. The RTE class of non-LTR retrotransposons is widely distributed in animals and is the origin of many SINEs. Molecular Biology and Evolution. 15: 1123-34. PMID 9729877 DOI: 10.1093/Oxfordjournals.Molbev.A026020  0.631
1998 Hall BG, Malik HS. Determining the evolutionary potential of a gene. Molecular Biology and Evolution. 15: 1055-61. PMID 9718732 DOI: 10.1093/Oxfordjournals.Molbev.A026004  0.305
1998 Burke WD, Malik HS, Lathe WC, Eickbush TH. Are retrotransposons long-term hitchhikers? Nature. 392: 141-2. PMID 9515960 DOI: 10.1038/32330  0.599
1997 Malik HS, Eickbush TH, Goldfarb DS. Evolutionary specialization of the nuclear targeting apparatus. Proceedings of the National Academy of Sciences of the United States of America. 94: 13738-42. PMID 9391096 DOI: 10.1073/Pnas.94.25.13738  0.56
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