| Year |
Citation |
Score |
| 2022 |
Mushegian A. Methyltransferases of . Biomolecules. 12. PMID 36139088 DOI: 10.3390/biom12091247 |
0.306 |
|
| 2020 |
Mushegian A, Sorokina I, Eroshkin A, Dlakić M. An ancient evolutionary connection between Ribonuclease A and EndoU families. Rna. 26: 803-813. PMID 32284351 DOI: 10.1261/Rna.074385.119 |
0.421 |
|
| 2018 |
Sorokina I, Mushegian A. Modeling protein folding in vivo. Biology Direct. 13: 13. PMID 29980221 DOI: 10.1186/S13062-018-0217-6 |
0.336 |
|
| 2018 |
Mushegian A, Karin EL, Pupko T. Sequence analysis of malacoherpesvirus proteins: Pan-herpesvirus capsid module and replication enzymes with an ancient connection to "Megavirales". Virology. 513: 114-128. PMID 29065352 DOI: 10.1016/J.Virol.2017.10.009 |
0.426 |
|
| 2017 |
Sorokina I, Mushegian A. Rotational restriction of nascent peptides as an essential element of co-translational protein folding: possible molecular players and structural consequences. Biology Direct. 12: 14. PMID 28569180 DOI: 10.1186/S13062-017-0186-1 |
0.366 |
|
| 2016 |
Sorokina I, Mushegian A. The role of the backbone torsion in protein folding Biology Direct. 11: 64-64. PMID 27906033 DOI: 10.1186/S13062-016-0166-X |
0.36 |
|
| 2016 |
Mushegian A, Shipunov A, Elena SF. Changes in the composition of the RNA virome mark evolutionary transitions in green plants Bmc Biology. 14. DOI: 10.1186/S12915-016-0288-8 |
0.337 |
|
| 2015 |
Artamonova II, Lappi T, Zudina L, Mushegian AR. Prokaryotic genes in eukaryotic genome sequences: when to infer horizontal gene transfer and when to suspect an actual microbe. Environmental Microbiology. 17: 2203-8. PMID 25919787 DOI: 10.1111/1462-2920.12854 |
0.35 |
|
| 2013 |
Kannan L, Li H, Rubinstein B, Mushegian A. Models of gene gain and gene loss for probabilistic reconstruction of gene content in the last universal common ancestor of life. Biology Direct. 8: 32. PMID 24354654 DOI: 10.1186/1745-6150-8-32 |
0.414 |
|
| 2013 |
Artamonova II, Mushegian AR. Genome sequence analysis indicates that the model eukaryote Nematostella vectensis harbors bacterial consorts. Applied and Environmental Microbiology. 79: 6868-73. PMID 23995941 DOI: 10.1128/AEM.01635-13 |
0.365 |
|
| 2013 |
Tsoy O, Yurieva M, Kucharavy A, O'Reilly M, Mushegian A. Minimal genome encoding proteins with constrained amino acid repertoire. Nucleic Acids Research. 41: 8444-51. PMID 23873957 DOI: 10.1093/Nar/Gkt610 |
0.453 |
|
| 2013 |
Kristensen DM, Waller AS, Yamada T, Bork P, Mushegian AR, Koonin EV. Orthologous gene clusters and taxon signature genes for viruses of prokaryotes. Journal of Bacteriology. 195: 941-50. PMID 23222723 DOI: 10.1128/Jb.01801-12 |
0.333 |
|
| 2012 |
Smith KT, Sardiu ME, Martin-Brown SA, Seidel C, Mushegian A, Egidy R, Florens L, Washburn MP, Workman JL. Human family with sequence similarity 60 member A (FAM60A) protein: a new subunit of the Sin3 deacetylase complex. Molecular & Cellular Proteomics : McP. 11: 1815-28. PMID 22984288 DOI: 10.1074/Mcp.M112.020255 |
0.407 |
|
| 2012 |
Mushegian A, Gurevich VV, Gurevich EV. The origin and evolution of G protein-coupled receptor kinases. Plos One. 7: e33806. PMID 22442725 DOI: 10.1371/Journal.Pone.0033806 |
0.342 |
|
| 2012 |
Suganuma T, Mushegian A, Swanson SK, Florens L, Washburn MP, Workman JL. A metazoan ATAC acetyltransferase subunit that regulates mitogen-activated protein kinase signaling is related to an ancient molybdopterin synthase component. Molecular & Cellular Proteomics : McP. 11: 90-9. PMID 22345504 DOI: 10.1074/Mcp.M111.015818 |
0.402 |
|
| 2012 |
Gurevich EV, Tesmer JJ, Mushegian A, Gurevich VV. G protein-coupled receptor kinases: more than just kinases and not only for GPCRs. Pharmacology & Therapeutics. 133: 40-69. PMID 21903131 DOI: 10.1016/J.Pharmthera.2011.08.001 |
0.315 |
|
| 2012 |
Smith KT, Martin-Brown SA, Seidel C, Mushegian A, Egidy R, Florens L, Washburn MP, Workman JL. Abstract LB-267: A role for the Sin3 histone deacetylase complex in cell migration Cancer Research. 72. DOI: 10.1158/1538-7445.Am2012-Lb-267 |
0.307 |
|
| 2011 |
Mushegian A. Grand challenges in bioinformatics and computational biology. Frontiers in Genetics. 2: 60. PMID 22303355 DOI: 10.3389/Fgene.2011.00060 |
0.414 |
|
| 2011 |
Krol AJ, Roellig D, Dequéant ML, Tassy O, Glynn E, Hattem G, Mushegian A, Oates AC, Pourquié O. Evolutionary plasticity of segmentation clock networks. Development (Cambridge, England). 138: 2783-92. PMID 21652651 DOI: 10.1242/Dev.063834 |
0.322 |
|
| 2011 |
Dlakić M, Mushegian A. Prp8, the pivotal protein of the spliceosomal catalytic center, evolved from a retroelement-encoded reverse transcriptase. Rna (New York, N.Y.). 17: 799-808. PMID 21441348 DOI: 10.1261/Rna.2396011 |
0.393 |
|
| 2011 |
Kristensen DM, Cai X, Mushegian A. Evolutionarily conserved orthologous families in phages are relatively rare in their prokaryotic hosts. Journal of Bacteriology. 193: 1806-14. PMID 21317336 DOI: 10.1128/Jb.01311-10 |
0.479 |
|
| 2011 |
Kristensen D, Mushegian A, Koonin E. Systems biology of phage proteins: using orthologous groups to study bacteriophage evolution; and new dimensions of the virus world discovered through metagenomics F1000research. 2. DOI: 10.7490/F1000Research.1089335.1 |
0.328 |
|
| 2010 |
Suganuma T, Mushegian A, Swanson SK, Abmayr SM, Florens L, Washburn MP, Workman JL. The ATAC acetyltransferase complex coordinates MAP kinases to regulate JNK target genes. Cell. 142: 726-36. PMID 20813260 DOI: 10.1016/J.Cell.2010.07.045 |
0.33 |
|
| 2010 |
Glazko G, Mushegian A. Measuring gene expression divergence: the distance to keep. Biology Direct. 5: 51. PMID 20691088 DOI: 10.1186/1745-6150-5-51 |
0.312 |
|
| 2010 |
Murphy AM, Moerdyk-Schauwecker M, Mushegian A, Grdzelishvili VZ. Sequence-function analysis of the Sendai virus L protein domain VI. Virology. 405: 370-82. PMID 20609457 DOI: 10.1016/J.Virol.2010.06.019 |
0.375 |
|
| 2010 |
Kristensen DM, Kannan L, Coleman MK, Wolf YI, Sorokin A, Koonin EV, Mushegian A. A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches. Bioinformatics (Oxford, England). 26: 1481-7. PMID 20439257 DOI: 10.1093/Bioinformatics/Btq229 |
0.318 |
|
| 2009 |
Weake VM, Swanson SK, Mushegian A, Florens L, Washburn MP, Abmayr SM, Workman JL. A novel histone fold domain-containing protein that replaces TAF6 in Drosophila SAGA is required for SAGA-dependent gene expression. Genes & Development. 23: 2818-23. PMID 20008933 DOI: 10.1101/Gad.1846409 |
0.36 |
|
| 2009 |
Tsoy O, Ravcheev D, Mushegian A. Comparative genomics of ethanolamine utilization. Journal of Bacteriology. 191: 7157-64. PMID 19783625 DOI: 10.1128/Jb.00838-09 |
0.428 |
|
| 2009 |
Li H, Kristensen DM, Coleman MK, Mushegian A. Detection of biochemical pathways by probabilistic matching of phyletic vectors. Plos One. 4: e5326. PMID 19390636 DOI: 10.1371/Journal.Pone.0005326 |
0.427 |
|
| 2009 |
Asai-Coakwell M, French CR, Ye M, Garcha K, Bigot K, Perera AG, Staehling-Hampton K, Mema SC, Chanda B, Mushegian A, Bamforth S, Doschak MR, Li G, Dobbs MB, Giampietro PF, et al. Incomplete penetrance and phenotypic variability characterize Gdf6-attributable oculo-skeletal phenotypes. Human Molecular Genetics. 18: 1110-21. PMID 19129173 DOI: 10.1093/Hmg/Ddp008 |
0.301 |
|
| 2008 |
Baumann D, Cook M, Ma L, Mushegian A, Sanders E, Schwartz J, Yu CR. A family of GFP-like proteins with different spectral properties in lancelet Branchiostoma floridae. Biology Direct. 3: 28. PMID 18598356 DOI: 10.1186/1745-6150-3-28 |
0.38 |
|
| 2008 |
Mushegian A. Gene content of LUCA, the last universal common ancestor. Frontiers in Bioscience : a Journal and Virtual Library. 13: 4657-66. PMID 18508537 DOI: 10.2741/3031 |
0.393 |
|
| 2008 |
Minakhin L, Goel M, Berdygulova Z, Ramanculov E, Florens L, Glazko G, Karamychev VN, Slesarev AI, Kozyavkin SA, Khromov I, Ackermann HW, Washburn M, Mushegian A, Severinov K. Genome comparison and proteomic characterization of Thermus thermophilus bacteriophages P23-45 and P74-26: siphoviruses with triplex-forming sequences and the longest known tails. Journal of Molecular Biology. 378: 468-80. PMID 18355836 DOI: 10.1016/J.Jmb.2008.02.018 |
0.409 |
|
| 2008 |
Savalia D, Westblade LF, Goel M, Florens L, Kemp P, Akulenko N, Pavlova O, Padovan JC, Chait BT, Washburn MP, Ackermann HW, Mushegian A, Gabisonia T, Molineux I, Severinov K. Genomic and proteomic analysis of phiEco32, a novel Escherichia coli bacteriophage. Journal of Molecular Biology. 377: 774-89. PMID 18294652 DOI: 10.1016/J.Jmb.2007.12.077 |
0.427 |
|
| 2008 |
Roux MM, Radeke MJ, Goel M, Mushegian A, Foltz KR. 2DE identification of proteins exhibiting turnover and phosphorylation dynamics during sea urchin egg activation. Developmental Biology. 313: 630-47. PMID 18082677 DOI: 10.1016/J.Ydbio.2007.10.053 |
0.352 |
|
| 2007 |
Glazko G, Makarenkov V, Liu J, Mushegian A. Evolutionary history of bacteriophages with double-stranded DNA genomes. Biology Direct. 2: 36. PMID 18062816 DOI: 10.1186/1745-6150-2-36 |
0.455 |
|
| 2007 |
Banks CA, Kong SE, Spahr H, Florens L, Martin-Brown S, Washburn MP, Conaway JW, Mushegian A, Conaway RC. Identification and Characterization of a Schizosaccharomyces pombe RNA Polymerase II Elongation Factor with Similarity to the Metazoan Transcription Factor ELL. The Journal of Biological Chemistry. 282: 5761-9. PMID 17150956 DOI: 10.1074/Jbc.M610393200 |
0.303 |
|
| 2007 |
Mushegian AR. Foundations of Comparative Genomics Foundations of Comparative Genomics. |
0.316 |
|
| 2006 |
Sodergren E, Weinstock GM, Davidson EH, Cameron RA, Gibbs RA, Angerer RC, Angerer LM, Arnone MI, Burgess DR, Burke RD, Coffman JA, Dean M, Elphick MR, Ettensohn CA, ... ... Mushegian A, et al. The genome of the sea urchin Strongylocentrotus purpuratus. Science (New York, N.Y.). 314: 941-52. PMID 17095691 DOI: 10.1126/Science.1133609 |
0.397 |
|
| 2006 |
Bradham CA, Foltz KR, Beane WS, Arnone MI, Rizzo F, Coffman JA, Mushegian A, Goel M, Morales J, Geneviere AM, Lapraz F, Robertson AJ, Kelkar H, Loza-Coll M, Townley IK, et al. The sea urchin kinome: a first look. Developmental Biology. 300: 180-93. PMID 17027740 DOI: 10.1016/J.Ydbio.2006.08.074 |
0.351 |
|
| 2006 |
Naryshkina T, Liu J, Florens L, Swanson SK, Pavlov AR, Pavlova NV, Inman R, Minakhin L, Kozyavkin SA, Washburn M, Mushegian A, Severinov K. Thermus thermophilus bacteriophage phiYS40 genome and proteomic characterization of virions. Journal of Molecular Biology. 364: 667-77. PMID 17027029 DOI: 10.1016/J.Jmb.2006.08.087 |
0.489 |
|
| 2006 |
Goel M, Mushegian A. Intermediary metabolism in sea urchin: the first inferences from the genome sequence. Developmental Biology. 300: 282-92. PMID 16979151 DOI: 10.1016/J.Ydbio.2006.08.030 |
0.42 |
|
| 2006 |
Rai R, Mushegian A, Makarova K, Kashina A. Molecular dissection of arginyltransferases guided by similarity to bacterial peptidoglycan synthases. Embo Reports. 7: 800-5. PMID 16826240 DOI: 10.1038/Sj.Embor.7400747 |
0.387 |
|
| 2006 |
Glazko G, Coleman M, Mushegian A. Similarity searches in genome-wide numerical data sets. Biology Direct. 1: 13. PMID 16734895 DOI: 10.1186/1745-6150-1-13 |
0.324 |
|
| 2006 |
Liu J, Glazko G, Mushegian A. Protein repertoire of double-stranded DNA bacteriophages. Virus Research. 117: 68-80. PMID 16490276 DOI: 10.1016/J.Virusres.2006.01.015 |
0.473 |
|
| 2005 |
Minakhin L, Semenova E, Liu J, Vasilov A, Severinova E, Gabisonia T, Inman R, Mushegian A, Severinov K. Genome sequence and gene expression of Bacillus anthracis bacteriophage Fah. Journal of Molecular Biology. 354: 1-15. PMID 16226766 DOI: 10.1016/J.Jmb.2005.09.052 |
0.444 |
|
| 2005 |
Mushegian A. Protein content of minimal and ancestral ribosome. Rna (New York, N.Y.). 11: 1400-6. PMID 16043494 DOI: 10.1261/Rna.2180205 |
0.464 |
|
| 2004 |
Liu J, Mushegian A. Displacements of prohead protease genes in the late operons of double-stranded-DNA bacteriophages. Journal of Bacteriology. 186: 4369-75. PMID 15205439 DOI: 10.1128/Jb.186.13.4369-4375.2004 |
0.387 |
|
| 2004 |
Gensheimer M, Mushegian A. Chalcone isomerase family and fold: no longer unique to plants. Protein Science : a Publication of the Protein Society. 13: 540-4. PMID 14718655 DOI: 10.1110/Ps.03395404 |
0.376 |
|
| 2003 |
Yuzenkova J, Nechaev S, Berlin J, Rogulja D, Kuznedelov K, Inman R, Mushegian A, Severinov K. Genome of Xanthomonas oryzae bacteriophage Xp10: an odd T-odd phage. Journal of Molecular Biology. 330: 735-48. PMID 12850143 DOI: 10.1016/S0022-2836(03)00634-X |
0.457 |
|
| 2003 |
Liu J, Mushegian A. Three monophyletic superfamilies account for the majority of the known glycosyltransferases. Protein Science : a Publication of the Protein Society. 12: 1418-31. PMID 12824488 DOI: 10.1110/Ps.0302103 |
0.418 |
|
| 2003 |
Rennert J, Coffman JA, Mushegian AR, Robertson AJ. The evolution of Runx genes I. A comparative study of sequences from phylogenetically diverse model organisms. Bmc Evolutionary Biology. 3: 4. PMID 12659662 DOI: 10.1186/1471-2148-3-4 |
0.342 |
|
| 2002 |
Mushegian A. Refining structural and functional predictions for secretasome components by comparative sequence analysis. Proteins. 47: 69-74. PMID 11870866 DOI: 10.1002/Prot.10073 |
0.364 |
|
| 2000 |
Smit A, Mushegian A. Biosynthesis of isoprenoids via mevalonate in archaea: The lost pathway Genome Research. 10: 1468-1484. PMID 11042147 DOI: 10.1101/Gr.145600 |
0.392 |
|
| 1999 |
Mushegian A. The minimal genome concept Current Opinion in Genetics and Development. 9: 709-714. PMID 10607608 DOI: 10.1016/S0959-437X(99)00023-4 |
0.454 |
|
| 1999 |
Eroshkin A, Mushegian A. Conserved transactivation domain shared by interferon regulatory factors and Smad morphogens Journal of Molecular Medicine. 77: 403-405. PMID 10426188 DOI: 10.1007/S001090050369 |
0.359 |
|
| 1998 |
Wang J, Li C, Yang H, Mushegian A, Jin S. A novel serine/threonine protein kinase homologue of Pseudomonas aeruginosa is specifically inducible within the host infection site and is required for full virulence in neutropenic mice Journal of Bacteriology. 180: 6764-6768. PMID 9852028 DOI: 10.1128/Jb.180.24.6764-6768.1998 |
0.34 |
|
| 1998 |
Mushegian AR, Garey JR, Martin J, Liu LX. Large-scale taxonomic profiling of eukaryotic model organisms: A comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes Genome Research. 8: 590-598. PMID 9647634 DOI: 10.1101/Gr.8.6.590 |
0.389 |
|
| 1997 |
Koonin EV, Mushegian AR, Galperin MY, Walker DR. Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea. Molecular Microbiology. 25: 619-37. PMID 9379893 |
0.398 |
|
| 1997 |
Mushegian AR, Bassett DE, Boguski MS, Bork P, Koonin EV. Positionally cloned human disease genes: patterns of evolutionary conservation and functional motifs. Proceedings of the National Academy of Sciences of the United States of America. 94: 5831-6. PMID 9159160 DOI: 10.1073/Pnas.94.11.5831 |
0.355 |
|
| 1996 |
Koonin EV, Mushegian AR. Complete genome sequences of cellular life forms: Glimpses of theoretical evolutionary genomics Current Opinion in Genetics and Development. 6: 757-762. PMID 8994848 DOI: 10.1016/S0959-437X(96)80032-3 |
0.348 |
|
| 1996 |
Mushegian AR, Koonin EV. Sequence analysis of eukaryotic developmental proteins: Ancient and novel domains Genetics. 144: 817-828. PMID 8889542 |
0.372 |
|
| 1996 |
Wang J, Mushegian A, Lory S, Jin S. Large-scale isolation of candidate virulence genes of Pseudomonas aeruginosa by in vivo selection Proceedings of the National Academy of Sciences of the United States of America. 93: 10434-10439. PMID 8816818 DOI: 10.1073/Pnas.93.19.10434 |
0.35 |
|
| 1996 |
Mushegian AR, Koonin EV. A minimal gene set for cellular life derived by comparison of complete bacterial genomes Proceedings of the National Academy of Sciences of the United States of America. 93: 10268-10273. PMID 8816789 DOI: 10.1073/pnas.93.19.10268 |
0.35 |
|
| 1996 |
Tatusov RL, Mushegian AR, Bork P, Brown NP, Hayes WS, Borodovsky M, Rudd KE, Koonin EV. Metabolism and evolution of Haemophilus influenzae deduced from a whole-genome comparison with Escherichia coli. Current Biology : Cb. 6: 279-91. PMID 8805245 DOI: 10.1016/S0960-9822(02)00478-5 |
0.33 |
|
| 1996 |
Mushegian AR, Fullner KJ, Koonin EV, Nester EW. A family of lysozyme-like virulence factors in bacterial pathogens of plants and animals Proceedings of the National Academy of Sciences of the United States of America. 93: 7321-7326. PMID 8692991 DOI: 10.1073/Pnas.93.14.7321 |
0.341 |
|
| 1996 |
Karasev AV, Nikolaeva OV, Mushegian AR, Lee RF, Dawson WO. Organization of the 3'-terminal half of beet yellow stunt virus genome and implications for the evolution of closteroviruses Virology. 221: 199-207. PMID 8661428 DOI: 10.1006/viro.1996.0366 |
0.412 |
|
| 1995 |
Mushegian AR, Wolff JA, Richins RD, Shepherd RJ. Molecular analysis of the essential and nonessential genetic elements in the genome of peanut chlorotic streak caulimovirus Virology. 206: 823-834. PMID 7531917 DOI: 10.1006/viro.1995.1005 |
0.341 |
|
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