Year |
Citation |
Score |
2023 |
Reynaud K, McGeachy AM, Noble D, Meacham ZA, Ingolia NT. Surveying the global landscape of post-transcriptional regulators. Nature Structural & Molecular Biology. PMID 37231154 DOI: 10.1038/s41594-023-00999-5 |
0.395 |
|
2023 |
Diamond PD, McGlincy NJ, Ingolia NT. Dysregulation of amino acid metabolism upon rapid depletion of cap-binding protein eIF4E. Biorxiv : the Preprint Server For Biology. PMID 37214807 DOI: 10.1101/2023.05.11.540079 |
0.363 |
|
2023 |
Chen M, Kumakura N, Saito H, Muller R, Nishimoto M, Mito M, Gan P, Ingolia NT, Shirasu K, Ito T, Shichino Y, Iwasaki S. A parasitic fungus employs mutated eIF4A to survive on rocaglate-synthesizing plants. Elife. 12. PMID 36852480 DOI: 10.7554/eLife.81302 |
0.59 |
|
2023 |
Fernandez SG, Ferguson L, Ingolia NT. Ribosome rescue factor PELOTA modulates translation start site choice and protein isoform levels of transcription factor C/EBPα. Biorxiv : the Preprint Server For Biology. PMID 36711859 DOI: 10.1101/2023.01.16.524343 |
0.333 |
|
2022 |
Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF, Yang YT, Albà MM, Aspden JL, Baranov PV, Bazzini AA, ... ... Ingolia NT, et al. Standardized annotation of translated open reading frames. Nature Biotechnology. PMID 35831657 DOI: 10.1038/s41587-022-01369-0 |
0.482 |
|
2022 |
Muller RY, Meacham ZA, Ingolia NT. Plasmid and Sequencing Library Preparation for CRISPRi Barcoded Expression Reporter Sequencing (CiBER-seq) in . Bio-Protocol. 12: e4376. PMID 35530514 DOI: 10.21769/BioProtoc.4376 |
0.327 |
|
2022 |
Padrón A, Ingolia N. Analyzing the Composition and Organization of Ribonucleoprotein Complexes by APEX-Seq. Methods in Molecular Biology (Clifton, N.J.). 2428: 277-289. PMID 35171486 DOI: 10.1007/978-1-0716-1975-9_17 |
0.359 |
|
2021 |
Mendez AS, Ly M, González-Sánchez AM, Hartenian E, Ingolia NT, Cate JH, Glaunsinger BA. The N-terminal domain of SARS-CoV-2 nsp1 plays key roles in suppression of cellular gene expression and preservation of viral gene expression. Cell Reports. 109841. PMID 34624207 DOI: 10.1016/j.celrep.2021.109841 |
0.316 |
|
2021 |
Galez HA, Roelants FM, Palm SM, Reynaud KK, Ingolia NT, Thorner J. Phosphorylation of mRNA-Binding Proteins Puf1 and Puf2 by TORC2-Activated Protein Kinase Ypk1 Alleviates Their Repressive Effects. Membranes. 11. PMID 34209236 DOI: 10.3390/membranes11070500 |
0.338 |
|
2020 |
Chen M, Asanuma M, Takahashi M, Shichino Y, Mito M, Fujiwara K, Saito H, Floor SN, Ingolia NT, Sodeoka M, Dodo K, Ito T, Iwasaki S. Dual targeting of DDX3 and eIF4A by the translation inhibitor rocaglamide A. Cell Chemical Biology. PMID 33296667 DOI: 10.1016/j.chembiol.2020.11.008 |
0.687 |
|
2020 |
Matsuki Y, Matsuo Y, Nakano Y, Iwasaki S, Yoko H, Udagawa T, Li S, Saeki Y, Yoshihisa T, Tanaka K, Ingolia NT, Inada T. Ribosomal protein S7 ubiquitination during ER stress in yeast is associated with selective mRNA translation and stress outcome. Scientific Reports. 10: 19669. PMID 33184379 DOI: 10.1038/s41598-020-76239-3 |
0.68 |
|
2020 |
Kim JW, Yin X, Jhaldiyal A, Khan MR, Martin I, Xie Z, Perez-Rosello T, Kumar M, Abalde-Atristain L, Xu J, Chen L, Eacker SM, Surmeier DJ, Ingolia NT, Dawson TM, et al. Defects in mRNA Translation in LRRK2-Mutant hiPSC-Derived Dopaminergic Neurons Lead to Dysregulated Calcium Homeostasis. Cell Stem Cell. PMID 32846140 DOI: 10.1016/J.Stem.2020.08.002 |
0.328 |
|
2019 |
Padrón A, Iwasaki S, Ingolia NT. Proximity RNA Labeling by APEX-Seq Reveals the Organization of Translation Initiation Complexes and Repressive RNA Granules. Molecular Cell. 75: 875-887.e5. PMID 31442426 DOI: 10.1016/J.Molcel.2019.07.030 |
0.698 |
|
2019 |
Pulos-Holmes MC, Srole DN, Juarez MG, Lee AS, McSwiggen DT, Ingolia NT, Cate JH. Repression of ferritin light chain translation by human eIF3. Elife. 8. PMID 31414986 DOI: 10.7554/Elife.48193 |
0.412 |
|
2019 |
McGeachy AM, Meacham ZA, Ingolia NT. An Accessible Continuous-Culture Turbidostat for Pooled Analysis of Complex Libraries. Acs Synthetic Biology. 8: 844-856. PMID 30908907 DOI: 10.1021/Acssynbio.8B00529 |
0.371 |
|
2019 |
Walczak CP, Leto DE, Zhang L, Riepe C, Muller RY, DaRosa PA, Ingolia NT, Elias JE, Kopito RR. Ribosomal protein RPL26 is the principal target of UFMylation. Proceedings of the National Academy of Sciences of the United States of America. PMID 30626644 DOI: 10.1073/Pnas.1816202116 |
0.411 |
|
2018 |
Iwasaki S, Iwasaki W, Takahashi M, Sakamoto A, Watanabe C, Shichino Y, Floor SN, Fujiwara K, Mito M, Dodo K, Sodeoka M, Imataka H, Honma T, Fukuzawa K, Ito T, ... Ingolia NT, et al. The Translation Inhibitor Rocaglamide Targets a Bimolecular Cavity between eIF4A and Polypurine RNA. Molecular Cell. PMID 30595437 DOI: 10.1016/J.Molcel.2018.11.026 |
0.705 |
|
2018 |
Ingolia NT, Hussmann JA, Weissman JS. Ribosome Profiling: Global Views of Translation. Cold Spring Harbor Perspectives in Biology. PMID 30037969 DOI: 10.1101/Cshperspect.A032698 |
0.664 |
|
2017 |
Matsuo Y, Ikeuchi K, Saeki Y, Iwasaki S, Schmidt C, Udagawa T, Sato F, Tsuchiya H, Becker T, Tanaka K, Ingolia NT, Beckmann R, Inada T. Ubiquitination of stalled ribosome triggers ribosome-associated quality control. Nature Communications. 8: 159. PMID 28757607 DOI: 10.1038/S41467-017-00188-1 |
0.714 |
|
2017 |
Ingolia NT. Tracking the Missing Footprints of Idle Ribosomes. Cell Systems. 4: 583-584. PMID 28662383 DOI: 10.1016/J.Cels.2017.06.008 |
0.403 |
|
2017 |
McGlincy NJ, Ingolia NT. Transcriptome-wide measurement of translation by ribosome profiling. Methods (San Diego, Calif.). PMID 28579404 DOI: 10.1016/J.Ymeth.2017.05.028 |
0.482 |
|
2017 |
Iwasaki S, Ingolia NT. The Growing Toolbox for Protein Synthesis Studies. Trends in Biochemical Sciences. PMID 28566214 DOI: 10.1016/J.Tibs.2017.05.004 |
0.71 |
|
2017 |
Barry KC, Ingolia NT, Vance RE. Global analysis of gene expression reveals mRNA superinduction is required for the inducible immune response to a bacterial pathogen. Elife. 6. PMID 28383283 DOI: 10.7554/Elife.22707 |
0.334 |
|
2017 |
Mills EW, Green R, Ingolia NT. Slowed decay of mRNAs enhances platelet specific translation. Blood. PMID 28213379 DOI: 10.1182/Blood-2016-08-736108 |
0.393 |
|
2017 |
Ishikawa K, Makanae K, Iwasaki S, Ingolia NT, Moriya H. Post-Translational Dosage Compensation Buffers Genetic Perturbations to Stoichiometry of Protein Complexes. Plos Genetics. 13: e1006554. PMID 28121980 DOI: 10.1371/Journal.Pgen.1006554 |
0.696 |
|
2017 |
Barry KC, Ingolia NT, Vance RE. Author response: Global analysis of gene expression reveals mRNA superinduction is required for the inducible immune response to a bacterial pathogen Elife. DOI: 10.7554/Elife.22707.022 |
0.31 |
|
2016 |
Mills EW, Wangen J, Green R, Ingolia NT. Dynamic Regulation of a Ribosome Rescue Pathway in Erythroid Cells and Platelets. Cell Reports. 17: 1-10. PMID 27681415 DOI: 10.1016/J.Celrep.2016.08.088 |
0.432 |
|
2016 |
Sen ND, Zhou F, Harris MS, Ingolia NT, Hinnebusch AG. eIF4B stimulates translation of long mRNAs with structured 5' UTRs and low closed-loop potential but weak dependence on eIF4G. Proceedings of the National Academy of Sciences of the United States of America. PMID 27601676 DOI: 10.1073/Pnas.1612398113 |
0.461 |
|
2016 |
Iwasaki S, Ingolia NT. PROTEIN TRANSLATION. Seeing translation. Science (New York, N.Y.). 352: 1391-2. PMID 27313023 DOI: 10.1126/Science.Aag1039 |
0.715 |
|
2016 |
Iwasaki S, Floor SN, Ingolia NT. Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor. Nature. PMID 27309803 DOI: 10.1038/Nature17978 |
0.726 |
|
2016 |
Ingolia NT. Ribosome Footprint Profiling of Translation throughout the Genome. Cell. 165: 22-33. PMID 27015305 DOI: 10.1016/J.Cell.2016.02.066 |
0.524 |
|
2016 |
McGeachy AM, Ingolia NT. Starting too soon: upstream reading frames repress downstream translation. The Embo Journal. PMID 26896443 DOI: 10.15252/Embj.201693946 |
0.424 |
|
2015 |
Ori A, Toyama BH, Harris MS, Bock T, Iskar M, Bork P, Ingolia NT, Hetzer MW, Beck M. Integrated Transcriptome and Proteome Analyses Reveal Organ-Specific Proteome Deterioration in Old Rats. Cell Systems. 1: 224-237. PMID 27135913 DOI: 10.1016/J.Cels.2015.08.012 |
0.782 |
|
2015 |
Stern-Ginossar N, Ingolia NT. Ribosome Profiling as a Tool to Decipher Viral Complexity. Annual Review of Virology. 2: 335-49. PMID 26958919 DOI: 10.1146/Annurev-Virology-100114-054854 |
0.471 |
|
2015 |
Fields AP, Rodriguez EH, Jovanovic M, Stern-Ginossar N, Haas BJ, Mertins P, Raychowdhury R, Hacohen N, Carr SA, Ingolia NT, Regev A, Weissman JS. A Regression-Based Analysis of Ribosome-Profiling Data Reveals a Conserved Complexity to Mammalian Translation. Molecular Cell. 60: 816-27. PMID 26638175 DOI: 10.1016/J.Molcel.2015.11.013 |
0.801 |
|
2015 |
Werner A, Iwasaki S, McGourty CA, Medina-Ruiz S, Teerikorpi N, Fedrigo I, Ingolia NT, Rape M. Cell-fate determination by ubiquitin-dependent regulation of translation. Nature. 525: 523-7. PMID 26399832 DOI: 10.1038/Nature14978 |
0.67 |
|
2015 |
Sen ND, Zhou F, Ingolia NT, Hinnebusch AG. Genome-wide analysis of translational efficiency reveals distinct but overlapping functions of yeast DEAD-box RNA helicases Ded1 and eIF4A. Genome Research. 25: 1196-205. PMID 26122911 DOI: 10.1101/Gr.191601.115 |
0.323 |
|
2015 |
Sidrauski C, McGeachy AM, Ingolia NT, Walter P. The small molecule ISRIB reverses the effects of eIF2α phosphorylation on translation and stress granule assembly. Elife. 4. PMID 25719440 DOI: 10.7554/Elife.05033 |
0.388 |
|
2015 |
Sen ND, Zhou F, Ingolia NT, Hinnebusch AG. Genome-wide analysis of translational efficiency reveals distinct but overlapping functions of yeast DEAD-box RNA helicases Ded1 and eIF4A Genome Research. 25: 1196-1205. DOI: 10.1101/gr.191601.115 |
0.303 |
|
2015 |
Ori A, Toyama BH, Harris MS, Bock T, Iskar M, Bork P, Ingolia NT, Hetzer MW, Beck M. Integrated Transcriptome and Proteome Analyses Reveal Organ-Specific Proteome Deterioration in Old Rats Cell Systems. 1: 224-237. DOI: 10.1016/j.cels.2015.08.012 |
0.74 |
|
2014 |
Pop C, Rouskin S, Ingolia NT, Han L, Phizicky EM, Weissman JS, Koller D. Causal signals between codon bias, mRNA structure, and the efficiency of translation and elongation. Molecular Systems Biology. 10: 770. PMID 25538139 DOI: 10.15252/Msb.20145524 |
0.784 |
|
2014 |
Yoon JH, De S, Srikantan S, Abdelmohsen K, Grammatikakis I, Kim J, Kim KM, Noh JH, White EJ, Martindale JL, Yang X, Kang MJ, Wood WH, Noren Hooten N, Evans MK, ... ... Ingolia NT, et al. PAR-CLIP analysis uncovers AUF1 impact on target RNA fate and genome integrity. Nature Communications. 5: 5248. PMID 25366541 DOI: 10.1038/Ncomms6248 |
0.467 |
|
2014 |
Jensen BC, Ramasamy G, Vasconcelos EJ, Ingolia NT, Myler PJ, Parsons M. Extensive stage-regulation of translation revealed by ribosome profiling of Trypanosoma brucei. Bmc Genomics. 15: 911. PMID 25331479 DOI: 10.1186/1471-2164-15-911 |
0.474 |
|
2014 |
Ingolia NT, Brar GA, Stern-Ginossar N, Harris MS, Talhouarne GJ, Jackson SE, Wills MR, Weissman JS. Ribosome profiling reveals pervasive translation outside of annotated protein-coding genes. Cell Reports. 8: 1365-79. PMID 25159147 DOI: 10.1016/J.Celrep.2014.07.045 |
0.624 |
|
2014 |
Castañeda J, Genzor P, van der Heijden GW, Sarkeshik A, Yates JR, Ingolia NT, Bortvin A. Reduced pachytene piRNAs and translation underlie spermiogenic arrest in Maelstrom mutant mice. The Embo Journal. 33: 1999-2019. PMID 25063675 DOI: 10.15252/Embj.201386855 |
0.457 |
|
2014 |
Brubaker SW, Gauthier AE, Mills EW, Ingolia NT, Kagan JC. A bicistronic MAVS transcript highlights a class of truncated variants in antiviral immunity. Cell. 156: 800-11. PMID 24529381 DOI: 10.1016/J.Cell.2014.01.021 |
0.456 |
|
2014 |
Ingolia NT. Ribosome profiling: new views of translation, from single codons to genome scale. Nature Reviews. Genetics. 15: 205-13. PMID 24468696 DOI: 10.1038/Nrg3645 |
0.483 |
|
2013 |
Toyama BH, Savas JN, Park SK, Harris MS, Ingolia NT, Yates JR, Hetzer MW. Identification of long-lived proteins reveals exceptional stability of essential cellular structures. Cell. 154: 971-82. PMID 23993091 DOI: 10.1016/J.Cell.2013.07.037 |
0.765 |
|
2013 |
Ingolia NT, Brar GA, Rouskin S, McGeachy AM, Weissman JS. Genome-wide annotation and quantitation of translation by ribosome profiling. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. Unit 4.18. PMID 23821443 DOI: 10.1002/0471142727.Mb0418S103 |
0.801 |
|
2013 |
Guttman M, Russell P, Ingolia NT, Weissman JS, Lander ES. Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins. Cell. 154: 240-51. PMID 23810193 DOI: 10.1016/J.Cell.2013.06.009 |
0.629 |
|
2013 |
Thorburn RR, Gonzalez C, Brar GA, Christen S, Carlile TM, Ingolia NT, Sauer U, Weissman JS, Amon A. Aneuploid yeast strains exhibit defects in cell growth and passage through START. Molecular Biology of the Cell. 24: 1274-89. PMID 23468524 DOI: 10.1091/Mbc.E12-07-0520 |
0.464 |
|
2013 |
Yang WR, Mills EW, Rodic N, Ingolia NT, Boeke JD, Levitsky HI, Burns KH. What transposable elements are differentially translated in lung cancer? Journal For Immunotherapy of Cancer. 1. DOI: 10.1186/2051-1426-1-S1-P139 |
0.359 |
|
2012 |
Stern-Ginossar N, Weisburd B, Michalski A, Le VT, Hein MY, Huang SX, Ma M, Shen B, Qian SB, Hengel H, Mann M, Ingolia NT, Weissman JS. Decoding human cytomegalovirus. Science (New York, N.Y.). 338: 1088-93. PMID 23180859 DOI: 10.1126/Science.1227919 |
0.609 |
|
2012 |
Ingolia NT, Brar GA, Rouskin S, McGeachy AM, Weissman JS. The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments. Nature Protocols. 7: 1534-50. PMID 22836135 DOI: 10.1038/Nprot.2012.086 |
0.801 |
|
2012 |
Michel AM, Choudhury KR, Firth AE, Ingolia NT, Atkins JF, Baranov PV. Observation of dually decoded regions of the human genome using ribosome profiling data. Genome Research. 22: 2219-29. PMID 22593554 DOI: 10.1101/Gr.133249.111 |
0.401 |
|
2012 |
Hsieh AC, Liu Y, Edlind MP, Ingolia NT, Janes MR, Sher A, Shi EY, Stumpf CR, Christensen C, Bonham MJ, Wang S, Ren P, Martin M, Jessen K, Feldman ME, et al. The translational landscape of mTOR signalling steers cancer initiation and metastasis. Nature. 485: 55-61. PMID 22367541 DOI: 10.1038/Nature10912 |
0.519 |
|
2012 |
Brar GA, Yassour M, Friedman N, Regev A, Ingolia NT, Weissman JS. High-resolution view of the yeast meiotic program revealed by ribosome profiling. Science (New York, N.Y.). 335: 552-7. PMID 22194413 DOI: 10.1126/Science.1215110 |
0.648 |
|
2011 |
Ingolia NT, Lareau LF, Weissman JS. Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes. Cell. 147: 789-802. PMID 22056041 DOI: 10.1016/J.Cell.2011.10.002 |
0.66 |
|
2011 |
Gracheva EO, Cordero-Morales JF, González-Carcacía JA, Ingolia NT, Manno C, Aranguren CI, Weissman JS, Julius D. Ganglion-specific splicing of TRPV1 underlies infrared sensation in vampire bats. Nature. 476: 88-91. PMID 21814281 DOI: 10.1038/Nature10245 |
0.469 |
|
2011 |
Ingolia N. Many paths to the same end: histone transcripts recruit canonical initiation factors through unconventional interactions. Molecular Cell. 41: 133-5. PMID 21255723 DOI: 10.1016/J.Molcel.2011.01.004 |
0.362 |
|
2011 |
Takacs JE, Neary TB, Ingolia NT, Saini AK, Martin-Marcos P, Pelletier J, Hinnebusch AG, Lorsch JR. Identification of compounds that decrease the fidelity of start codon recognition by the eukaryotic translational machinery. Rna (New York, N.Y.). 17: 439-52. PMID 21220547 DOI: 10.1261/Rna.2475211 |
0.366 |
|
2010 |
Ingolia NT. Genome-wide translational profiling by ribosome footprinting. Methods in Enzymology. 470: 119-42. PMID 20946809 DOI: 10.1016/S0076-6879(10)70006-9 |
0.524 |
|
2010 |
Guo H, Ingolia NT, Weissman JS, Bartel DP. Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature. 466: 835-40. PMID 20703300 DOI: 10.1038/Nature09267 |
0.587 |
|
2010 |
Gracheva EO, Ingolia NT, Kelly YM, Cordero-Morales JF, Hollopeter G, Chesler AT, Sánchez EE, Perez JC, Weissman JS, Julius D. Molecular basis of infrared detection by snakes. Nature. 464: 1006-11. PMID 20228791 DOI: 10.1038/Nature08943 |
0.457 |
|
2009 |
Bassik MC, Lebbink RJ, Churchman LS, Ingolia NT, Patena W, LeProust EM, Schuldiner M, Weissman JS, McManus MT. Rapid creation and quantitative monitoring of high coverage shRNA libraries. Nature Methods. 6: 443-5. PMID 19448642 DOI: 10.1038/Nmeth.1330 |
0.769 |
|
2009 |
Ingolia NT, Ghaemmaghami S, Newman JR, Weissman JS. Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling. Science (New York, N.Y.). 324: 218-23. PMID 19213877 DOI: 10.1126/Science.1168978 |
0.767 |
|
2008 |
Ingolia NT, Weissman JS. Systems biology: Reverse engineering the cell. Nature. 454: 1059-62. PMID 18756243 DOI: 10.1038/4541059A |
0.467 |
|
2007 |
Ingolia NT, Murray AW. Positive-feedback loops as a flexible biological module. Current Biology : Cb. 17: 668-77. PMID 17398098 DOI: 10.1016/J.Cub.2007.03.016 |
0.472 |
|
2004 |
Ingolia NT, Murray AW. The ups and downs of modeling the cell cycle. Current Biology : Cb. 14: R771-7. PMID 15380091 DOI: 10.1016/J.Cub.2004.09.018 |
0.464 |
|
2002 |
Ingolia NT, Murray AW. Signal transduction. History matters. Science (New York, N.Y.). 297: 948-9. PMID 12169717 DOI: 10.1126/Science.1075222 |
0.412 |
|
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