| Year |
Citation |
Score |
| 2022 |
Spruce T, Plass M, Gohr A, Ray D, Martínez de Lagrán M, Rot G, Nóvoa A, Burguera D, Permanyer J, Miret M, Zheng H, Swanson MS, Morris Q, Mallo M, Dierssen M, et al. The X-linked splicing regulator MBNL3 has been co-opted to restrict placental growth in eutherians. Plos Biology. 20: e3001615. PMID 35476669 DOI: 10.1371/journal.pbio.3001615 |
0.341 |
|
| 2020 |
Kosti A, de Araujo PR, Li WQ, Guardia GDA, Chiou J, Yi C, Ray D, Meliso F, Li YM, Delambre T, Qiao M, Burns SS, Lorbeer FK, Georgi F, Flosbach M, ... ... Morris QD, et al. The RNA-binding protein SERBP1 functions as a novel oncogenic factor in glioblastoma by bridging cancer metabolism and epigenetic regulation. Genome Biology. 21: 195. PMID 32762776 DOI: 10.1186/S13059-020-02115-Y |
0.361 |
|
| 2020 |
Jolma A, Zhang J, Mondragón E, Morgunova E, Kivioja T, Laverty KU, Yin Y, Zhu F, Bourenkov G, Morris Q, Hughes TR, Maher LJ, Taipale J. Binding specificities of human RNA-binding proteins toward structured and linear RNA sequences. Genome Research. PMID 32703884 DOI: 10.1101/Gr.258848.119 |
0.307 |
|
| 2020 |
Rodrigues DC, Mufteev M, Weatheritt RJ, Djuric U, Ha KCH, Ross PJ, Wei W, Piekna A, Sartori MA, Byres L, Mok RSF, Zaslavsky K, Pasceri P, Diamandis P, Morris Q, et al. Shifts in Ribosome Engagement Impact Key Gene Sets in Neurodevelopment and Ubiquitination in Rett Syndrome. Cell Reports. 30: 4179-4196.e11. PMID 32209477 DOI: 10.1016/j.celrep.2020.02.107 |
0.307 |
|
| 2019 |
Lambert SA, Yang AWH, Sasse A, Cowley G, Albu M, Caddick MX, Morris QD, Weirauch MT, Hughes TR. Similarity regression predicts evolution of transcription factor sequence specificity. Nature Genetics. PMID 31133749 DOI: 10.1038/S41588-019-0411-1 |
0.307 |
|
| 2018 |
Davis GM, Tu S, Anderson JWT, Colson RN, Gunzburg MJ, Francisco MA, Ray D, Shrubsole SP, Sobotka JA, Seroussi U, Lao RX, Maity T, Wu MZ, McJunkin K, Morris QD, et al. The TRIM-NHL protein NHL-2 is a co-factor in the nuclear and somatic RNAi pathways in . Elife. 7. PMID 30575518 DOI: 10.7554/Elife.35478 |
0.33 |
|
| 2018 |
Sasse A, Laverty KU, Hughes TR, Morris QD. Motif models for RNA-binding proteins. Current Opinion in Structural Biology. 53: 115-123. PMID 30172081 DOI: 10.1016/j.sbi.2018.08.001 |
0.327 |
|
| 2018 |
Ha KCH, Blencowe BJ, Morris Q. QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data. Genome Biology. 19: 45. PMID 29592814 DOI: 10.1186/s13059-018-1414-4 |
0.302 |
|
| 2017 |
Collins KM, Kainov YA, Christodolou E, Ray D, Morris Q, Hughes T, Taylor IA, Makeyev EV, Ramos A. An RRM-ZnF RNA recognition module targets RBM10 to exonic sequences to promote exon exclusion. Nucleic Acids Research. PMID 28379442 DOI: 10.1093/Nar/Gkx225 |
0.305 |
|
| 2016 |
Ray D, C H Ha K, Nie K, Zheng H, Hughes TR, Morris QD. RNAcompete methodology and application to determine sequence preferences of unconventional RNA-binding proteins. Methods (San Diego, Calif.). PMID 27956239 DOI: 10.1016/j.ymeth.2016.12.003 |
0.307 |
|
| 2016 |
Cui A, Quon G, Rosenberg AM, Yeung RS, Morris Q. Gene Expression Deconvolution for Uncovering Molecular Signatures in Response to Therapy in Juvenile Idiopathic Arthritis. Plos One. 11: e0156055. PMID 27244050 DOI: 10.1371/Journal.Pone.0156055 |
0.686 |
|
| 2015 |
Loedige I, Jakob L, Treiber T, Ray D, Stotz M, Treiber N, Hennig J, Cook KB, Morris Q, Hughes TR, Engelmann JC, Krahn MP, Meister G. The Crystal Structure of the NHL Domain in Complex with RNA Reveals the Molecular Basis of Drosophila Brain-Tumor-Mediated Gene Regulation. Cell Reports. PMID 26527002 DOI: 10.1016/j.celrep.2015.09.068 |
0.305 |
|
| 2015 |
Anghel CV, Quon G, Haider S, Nguyen F, Deshwar AG, Morris QD, Boutros PC. ISOpureR: an R implementation of a computational purification algorithm of mixed tumour profiles. Bmc Bioinformatics. 16: 156. PMID 25972088 DOI: 10.1186/S12859-015-0597-X |
0.658 |
|
| 2015 |
Laver JD, Li X, Ray D, Cook KB, Hahn NA, Nabeel-Shah S, Kekis M, Luo H, Marsolais AJ, Fung KY, Hughes TR, Westwood JT, Sidhu SS, Morris Q, Lipshitz HD, et al. Brain tumor is a sequence-specific RNA-binding protein that directs maternal mRNA clearance during the Drosophila maternal-to-zygotic transition. Genome Biology. 16: 94. PMID 25962635 DOI: 10.1186/S13059-015-0659-4 |
0.303 |
|
| 2015 |
Cook KB, Hughes TR, Morris QD. High-throughput characterization of protein-RNA interactions. Briefings in Functional Genomics. 14: 74-89. PMID 25504152 DOI: 10.1093/bfgp/elu047 |
0.328 |
|
| 2015 |
Anghel CV, Quon G, Haider S, Nguyen F, Deshwar AG, Morris QD, Boutros PC. ISOpureR: An R implementation of a computational purification algorithm of mixed tumour profiles Bmc Bioinformatics. DOI: 10.1186/s12859-015-0597-x |
0.617 |
|
| 2014 |
Re A, Joshi T, Kulberkyte E, Morris Q, Workman CT. RNA-protein interactions: an overview. Methods in Molecular Biology (Clifton, N.J.). 1097: 491-521. PMID 24639174 DOI: 10.1007/978-1-62703-709-9_23 |
0.317 |
|
| 2014 |
Li X, Kazan H, Lipshitz HD, Morris QD. Finding the target sites of RNA-binding proteins. Wiley Interdisciplinary Reviews. Rna. 5: 111-30. PMID 24217996 DOI: 10.1002/Wrna.1201 |
0.689 |
|
| 2013 |
Laver JD, Li X, Ancevicius K, Westwood JT, Smibert CA, Morris QD, Lipshitz HD. Genome-wide analysis of Staufen-associated mRNAs identifies secondary structures that confer target specificity. Nucleic Acids Research. 41: 9438-60. PMID 23945942 DOI: 10.1093/Nar/Gkt702 |
0.32 |
|
| 2013 |
Ray D, Kazan H, Cook KB, Weirauch MT, Najafabadi HS, Li X, Gueroussov S, Albu M, Zheng H, Yang A, Na H, Irimia M, Matzat LH, Dale RK, Smith SA, ... ... Morris QD, et al. A compendium of RNA-binding motifs for decoding gene regulation. Nature. 499: 172-7. PMID 23846655 DOI: 10.1038/Nature12311 |
0.7 |
|
| 2013 |
Kazan H, Morris Q. RBPmotif: a web server for the discovery of sequence and structure preferences of RNA-binding proteins. Nucleic Acids Research. 41: W180-6. PMID 23754853 DOI: 10.1093/Nar/Gkt463 |
0.67 |
|
| 2013 |
Quon G, Haider S, Deshwar AG, Cui A, Boutros PC, Morris Q. Computational purification of individual tumor gene expression profiles leads to significant improvements in prognostic prediction. Genome Medicine. 5: 29. PMID 23537167 DOI: 10.1186/Gm433 |
0.687 |
|
| 2012 |
Mostafavi S, Goldenberg A, Morris Q. Labeling nodes using three degrees of propagation. Plos One. 7: e51947. PMID 23284828 DOI: 10.1371/Journal.Pone.0051947 |
0.451 |
|
| 2012 |
Qiao W, Quon G, Csaszar E, Yu M, Morris Q, Zandstra PW. PERT: a method for expression deconvolution of human blood samples from varied microenvironmental and developmental conditions. Plos Computational Biology. 8: e1002838. PMID 23284283 DOI: 10.1371/journal.pcbi.1002838 |
0.683 |
|
| 2012 |
Wilbert ML, Huelga SC, Kapeli K, Stark TJ, Liang TY, Chen SX, Yan BY, Nathanson JL, Hutt KR, Lovci MT, Kazan H, Vu AQ, Massirer KB, Morris Q, Hoon S, et al. LIN28 binds messenger RNAs at GGAGA motifs and regulates splicing factor abundance. Molecular Cell. 48: 195-206. PMID 22959275 DOI: 10.1016/J.Molcel.2012.08.004 |
0.681 |
|
| 2012 |
Mostafavi S, Morris Q. Combining many interaction networks to predict gene function and analyze gene lists. Proteomics. 12: 1687-96. PMID 22589215 DOI: 10.1002/Pmic.201100607 |
0.551 |
|
| 2011 |
Goldenberg A, Mostafavi S, Quon G, Boutros PC, Morris QD. Unsupervised detection of genes of influence in lung cancer using biological networks. Bioinformatics (Oxford, England). 27: 3166-72. PMID 21965819 DOI: 10.1093/Bioinformatics/Btr533 |
0.742 |
|
| 2011 |
Mostafavi S, Goldenberg A, Morris Q. Predicting node characteristics from molecular networks. Methods in Molecular Biology (Clifton, N.J.). 781: 399-414. PMID 21877293 DOI: 10.1007/978-1-61779-276-2_20 |
0.504 |
|
| 2011 |
Schimmer BP, Tsao J, Cordova M, Mostafavi S, Morris Q, Scheys JO. Contributions of steroidogenic factor 1 to the transcription landscape of Y1 mouse adrenocortical tumor cells. Molecular and Cellular Endocrinology. 336: 85-91. PMID 21111771 DOI: 10.1016/J.Mce.2010.11.024 |
0.553 |
|
| 2011 |
Cook KB, Kazan H, Zuberi K, Morris Q, Hughes TR. RBPDB: a database of RNA-binding specificities. Nucleic Acids Research. 39: D301-8. PMID 21036867 DOI: 10.1093/Nar/Gkq1069 |
0.681 |
|
| 2011 |
Deshwar A, Quon G, Morris Q. Computational purification of tumor gene expression data Bmc Bioinformatics. 12. DOI: 10.1186/1471-2105-12-S11-A9 |
0.68 |
|
| 2011 |
Quon G, Haider S, Boutros PC, Morris QD. Abstract 4847: Purifying tumor gene expression profiles leads to predictive models of patient outcome Cancer Research. 71: 4847-4847. DOI: 10.1158/1538-7445.Am2011-4847 |
0.679 |
|
| 2010 |
Montojo J, Zuberi K, Rodriguez H, Kazi F, Wright G, Donaldson SL, Morris Q, Bader GD. GeneMANIA Cytoscape plugin: fast gene function predictions on the desktop. Bioinformatics (Oxford, England). 26: 2927-8. PMID 20926419 DOI: 10.1093/bioinformatics/btq562 |
0.319 |
|
| 2010 |
Kazan H, Ray D, Chan ET, Hughes TR, Morris Q. RNAcontext: a new method for learning the sequence and structure binding preferences of RNA-binding proteins. Plos Computational Biology. 6: e1000832. PMID 20617199 DOI: 10.1371/Journal.Pcbi.1000832 |
0.702 |
|
| 2010 |
Warde-Farley D, Donaldson SL, Comes O, Zuberi K, Badrawi R, Chao P, Franz M, Grouios C, Kazi F, Lopes CT, Maitland A, Mostafavi S, Montojo J, Shao Q, Wright G, ... ... Morris Q, et al. The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function. Nucleic Acids Research. 38: W214-20. PMID 20576703 DOI: 10.1093/Nar/Gkq537 |
0.559 |
|
| 2010 |
Mostafavi S, Morris Q. Fast integration of heterogeneous data sources for predicting gene function with limited annotation. Bioinformatics (Oxford, England). 26: 1759-65. PMID 20507895 DOI: 10.1093/Bioinformatics/Btq262 |
0.501 |
|
| 2010 |
Li X, Quon G, Lipshitz HD, Morris Q. Predicting in vivo binding sites of RNA-binding proteins using mRNA secondary structure. Rna (New York, N.Y.). 16: 1096-107. PMID 20418358 DOI: 10.1261/Rna.2017210 |
0.697 |
|
| 2010 |
Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED, Sevier CS, Ding H, Koh JL, Toufighi K, Mostafavi S, Prinz J, St Onge RP, VanderSluis B, Makhnevych T, Vizeacoumar FJ, ... ... Morris QD, et al. The genetic landscape of a cell. Science (New York, N.Y.). 327: 425-31. PMID 20093466 DOI: 10.1126/Science.1180823 |
0.497 |
|
| 2009 |
Ray D, Kazan H, Chan ET, Peña Castillo L, Chaudhry S, Talukder S, Blencowe BJ, Morris Q, Hughes TR. Rapid and systematic analysis of the RNA recognition specificities of RNA-binding proteins. Nature Biotechnology. 27: 667-70. PMID 19561594 DOI: 10.1038/Nbt.1550 |
0.676 |
|
| 2009 |
Quon G, Morris Q. ISOLATE: a computational strategy for identifying the primary origin of cancers using high-throughput sequencing. Bioinformatics (Oxford, England). 25: 2882-9. PMID 19542156 DOI: 10.1093/bioinformatics/btp378 |
0.691 |
|
| 2009 |
Chan ET, Quon GT, Chua G, Babak T, Trochesset M, Zirngibl RA, Aubin J, Ratcliffe MJ, Wilde A, Brudno M, Morris QD, Hughes TR. Conservation of core gene expression in vertebrate tissues. Journal of Biology. 8: 33. PMID 19371447 DOI: 10.1186/Jbiol130 |
0.704 |
|
| 2009 |
Mostafavi S, Morris Q. Using the Gene Ontology hierarchy when predicting gene function Proceedings of the 25th Conference On Uncertainty in Artificial Intelligence, Uai 2009. 419-427. |
0.551 |
|
| 2009 |
Quon G, Teh YW, Chan E, Hughes T, Brudno M, Morris Q. A mixture model for the evolution of gene expression in non-homogeneous datasets Advances in Neural Information Processing Systems 21 - Proceedings of the 2008 Conference. 1297-1304. |
0.685 |
|
| 2008 |
Mostafavi S, Ray D, Warde-Farley D, Grouios C, Morris Q. GeneMANIA: a real-time multiple association network integration algorithm for predicting gene function. Genome Biology. 9: S4. PMID 18613948 DOI: 10.1186/Gb-2008-9-S1-S4 |
0.527 |
|
| 2008 |
Peña-Castillo L, Tasan M, Myers CL, Lee H, Joshi T, Zhang C, Guan Y, Leone M, Pagnani A, Kim WK, Krumpelman C, Tian W, Obozinski G, Qi Y, Mostafavi S, ... ... Morris Q, et al. A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome Biology. 9: S2. PMID 18613946 DOI: 10.1186/Gb-2008-9-S1-S2 |
0.529 |
|
| 2006 |
Shai O, Morris QD, Blencowe BJ, Frey BJ. Inferring global levels of alternative splicing isoforms using a generative model of microarray data. Bioinformatics (Oxford, England). 22: 606-13. PMID 16403798 DOI: 10.1093/Bioinformatics/Btk028 |
0.344 |
|
| 2006 |
Shenouda EA, Morris Q, Bonner AJ. Connectionist approaches for predicting mouse gene function from gene expression Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 4232: 280-289. |
0.323 |
|
| 2005 |
Frey BJ, Mohammad N, Morris QD, Zhang W, Robinson MD, Mnaimneh S, Chang R, Pan Q, Sat E, Rossant J, Bruneau BG, Aubin JE, Blencowe BJ, Hughes TR. Genome-wide analysis of mouse transcripts using exon microarrays and factor graphs. Nature Genetics. 37: 991-6. PMID 16127451 DOI: 10.1038/Ng1630 |
0.351 |
|
| 2005 |
Frey BJ, Morris QD, Zhang W, Mohammad N, Hughes TR. Genrate: a generative model that finds and scores new genes and exons in genomic microarray data. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 495-506. PMID 15759654 |
0.313 |
|
| 2004 |
Zhang W, Morris QD, Chang R, Shai O, Bakowski MA, Mitsakakis N, Mohammad N, Robinson MD, Zirngibl R, Somogyi E, Laurin N, Eftekharpour E, Sat E, Grigull J, Pan Q, et al. The functional landscape of mouse gene expression. Journal of Biology. 3: 21. PMID 15588312 DOI: 10.1186/Jbiol16 |
0.375 |
|
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