| Year |
Citation |
Score |
| 2024 |
Moakley DF, Campbell M, Anglada-Girotto M, Feng H, Califano A, Au E, Zhang C. Reverse engineering neuron type-specific and type-orthogonal splicing-regulatory networks using single-cell transcriptomes. Biorxiv : the Preprint Server For Biology. PMID 38915499 DOI: 10.1101/2024.06.13.597128 |
0.69 |
|
| 2024 |
Recinos Y, Bao S, Wang X, Phillips BL, Yeh YT, Weyn-Vanhentenryck SM, Swanson MS, Zhang C. Lineage-specific splicing regulation of MAPT gene in the primate brain. Cell Genomics. 100563. PMID 38772368 DOI: 10.1016/j.xgen.2024.100563 |
0.814 |
|
| 2024 |
Recinos Y, Ustianenko D, Yeh YT, Wang X, Jacko M, Yesantharao LV, Wu Q, Zhang C. CRISPR-dCas13d-based deep screening of proximal and distal splicing-regulatory elements. Nature Communications. 15: 3839. PMID 38714659 DOI: 10.1038/s41467-024-47140-8 |
0.81 |
|
| 2024 |
Xu C, Bao S, Chen H, Jiang T, Zhang C. Reference-informed prediction of alternative splicing and splicing-altering mutations from sequences. Biorxiv : the Preprint Server For Biology. PMID 38586002 DOI: 10.1101/2024.03.22.586363 |
0.302 |
|
| 2024 |
Feng H, Lu XJ, Maji S, Liu L, Ustianenko D, Rudnick ND, Zhang C. Structure-based prediction and characterization of photo-crosslinking in native protein-RNA complexes. Nature Communications. 15: 2279. PMID 38480694 DOI: 10.1038/s41467-024-46429-y |
0.71 |
|
| 2023 |
Recinos Y, Ustianenko D, Yeh YT, Wang X, Jacko M, Yesantharao LV, Wu Q, Zhang C. Deep screening of proximal and distal splicing-regulatory elements in a native sequence context. Biorxiv : the Preprint Server For Biology. PMID 37662340 DOI: 10.1101/2023.08.21.554109 |
0.811 |
|
| 2023 |
Zheng C, Wei Y, Zhang Q, Sun M, Wang Y, Hou J, Zhang P, Lv X, Su D, Jiang Y, Gumin J, Sahni N, Hu B, Wang W, Chen X, ... ... Zhang C, et al. Multiomics analyses reveal /YBX1-controlled posttranscriptional circuits promoting glioblastoma tumorigenesis/radioresistance. Science Advances. 9: eadf3984. PMID 37540752 DOI: 10.1126/sciadv.adf3984 |
0.325 |
|
| 2023 |
Traunmüller L, Schulz J, Ortiz R, Feng H, Furlanis E, Gomez AM, Schreiner D, Bischofberger J, Zhang C, Scheiffele P. A cell-type-specific alternative splicing regulator shapes synapse properties in a trans-synaptic manner. Cell Reports. 42: 112173. PMID 36862556 DOI: 10.1016/j.celrep.2023.112173 |
0.702 |
|
| 2022 |
Peart NJ, Johnson TA, Lee S, Sears MJ, Yang F, Quesnel-Vallières M, Feng H, Recinos Y, Barash Y, Zhang C, Hermann BP, Wang PJ, Geyer CB, Carstens RP. The germ cell-specific RNA binding protein RBM46 is essential for spermatogonial differentiation in mice. Plos Genetics. 18: e1010416. PMID 36129965 DOI: 10.1371/journal.pgen.1010416 |
0.795 |
|
| 2022 |
Swaminathan B, Youn SW, Naiche LA, Du J, Villa SR, Metz JB, Feng H, Zhang C, Kopan R, Sims PA, Kitajewski JK. Endothelial Notch signaling directly regulates the small GTPase RND1 to facilitate Notch suppression of endothelial migration. Scientific Reports. 12: 1655. PMID 35102202 DOI: 10.1038/s41598-022-05666-1 |
0.633 |
|
| 2021 |
Genestine M, Ambriz D, Crabtree GW, Dummer P, Molotkova A, Quintero M, Mela A, Biswas S, Feng H, Zhang C, Canoll P, Hargus G, Agalliu D, Gogos JA, Au E. Vascular-derived SPARC and SerpinE1 regulate interneuron tangential migration and maturation. Elife. 10. PMID 33904394 DOI: 10.7554/eLife.56063 |
0.635 |
|
| 2021 |
Van Alstyne M, Tattoli I, Delestrée N, Recinos Y, Workman E, Shihabuddin LS, Zhang C, Mentis GZ, Pellizzoni L. Gain of toxic function by long-term AAV9-mediated SMN overexpression in the sensorimotor circuit. Nature Neuroscience. PMID 33795885 DOI: 10.1038/s41593-021-00827-3 |
0.771 |
|
| 2021 |
Feng H, Moakley DF, Chen S, McKenzie MG, Menon V, Zhang C. Complexity and graded regulation of neuronal cell-type-specific alternative splicing revealed by single-cell RNA sequencing. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33674385 DOI: 10.1073/pnas.2013056118 |
0.713 |
|
| 2020 |
Oku S, Feng H, Connor S, Toledo A, Zhang P, Zhang Y, Thoumine O, Zhang C, Craig AM. Alternative splicing at neuroligin site A regulates glycan interaction and synaptogenic activity. Elife. 9. PMID 32915137 DOI: 10.7554/Elife.58668 |
0.7 |
|
| 2020 |
Ustianenko D, McKenzie MG, Zhang C. Brain Translation: A Feather Tips the Scale. Molecular Cell. 77: 1155-1156. PMID 32200794 DOI: 10.1016/J.Molcel.2020.02.027 |
0.363 |
|
| 2020 |
Oku S, Feng H, Connor S, Toledo A, Zhang P, Zhang Y, Thoumine O, Zhang C, Craig AM. Author response: Alternative splicing at neuroligin site A regulates glycan interaction and synaptogenic activity Elife. DOI: 10.7554/Elife.58668.Sa2 |
0.675 |
|
| 2019 |
Feng H, Bao S, Rahman MA, Weyn-Vanhentenryck SM, Khan A, Wong J, Shah A, Flynn ED, Krainer AR, Zhang C. Modeling RNA-Binding Protein Specificity In Vivo by Precisely Registering Protein-RNA Crosslink Sites. Molecular Cell. 74: 1189-1204.e6. PMID 31226278 DOI: 10.1016/J.Molcel.2019.02.002 |
0.799 |
|
| 2019 |
Lee H, Bao S, Qian Y, Geula S, Leslie J, Zhang C, Hanna JH, Ding L. Stage-specific requirement for Mettl3-dependent mA mRNA methylation during haematopoietic stem cell differentiation. Nature Cell Biology. PMID 31061465 DOI: 10.1038/S41556-019-0318-1 |
0.409 |
|
| 2019 |
Wu D, Schieren I, Qian Y, Zhang C, Jessell TM, de Nooij JC. A role for sensory end organ-derived signals in regulating muscle spindle proprioceptor phenotype. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. PMID 30926747 DOI: 10.1523/Jneurosci.2671-18.2019 |
0.331 |
|
| 2019 |
Bao S, Moakley DF, Zhang C. The Splicing Code Goes Deep. Cell. 176: 414-416. PMID 30682368 DOI: 10.1016/J.Cell.2019.01.013 |
0.318 |
|
| 2019 |
Luo W, Zhang C, Brouwer C. Systematic Reconstruction Of Autism Biology With Multi-Level Whole Exome Analysis European Neuropsychopharmacology. 29. DOI: 10.1016/J.Euroneuro.2017.08.012 |
0.332 |
|
| 2018 |
Zagore LL, Sweet TJ, Hannigan MM, Weyn-Vanhentenryck SM, Jobava R, Hatzoglou M, Zhang C, Licatalosi DD. DAZL Regulates Germ Cell Survival through a Network of PolyA-Proximal mRNA Interactions. Cell Reports. 25: 1225-1240.e6. PMID 30380414 DOI: 10.1016/J.Celrep.2018.10.012 |
0.525 |
|
| 2018 |
Yuan Y, Xie S, Darnell JC, Darnell AJ, Saito Y, Phatnani H, Murphy EA, Zhang C, Maniatis T, Darnell RB. Cell type-specific CLIP reveals that NOVA regulates cytoskeleton interactions in motoneurons. Genome Biology. 19: 117. PMID 30111345 DOI: 10.1186/S13059-018-1493-2 |
0.703 |
|
| 2018 |
Ustianenko D, Chiu HS, Treiber T, Weyn-Vanhentenryck SM, Treiber N, Meister G, Sumazin P, Zhang C. LIN28 Selectively Modulates a Subclass of Let-7 MicroRNAs. Molecular Cell. 71: 271-283.e5. PMID 30029005 DOI: 10.1016/J.Molcel.2018.06.029 |
0.434 |
|
| 2018 |
Weyn-Vanhentenryck SM, Feng H, Ustianenko D, Duffié R, Yan Q, Jacko M, Martinez JC, Goodwin M, Zhang X, Hengst U, Lomvardas S, Swanson MS, Zhang C. Precise temporal regulation of alternative splicing during neural development. Nature Communications. 9: 2189. PMID 29875359 DOI: 10.1038/S41467-018-04559-0 |
0.719 |
|
| 2018 |
Luo W, Zhang C, Jiang YH, Brouwer CR. Systematic reconstruction of autism biology from massive genetic mutation profiles. Science Advances. 4: e1701799. PMID 29651456 DOI: 10.1126/Sciadv.1701799 |
0.332 |
|
| 2018 |
Bao X, Guo X, Yin M, Tariq M, Lai Y, Kanwal S, Zhou J, Li N, Lv Y, Pulido-Quetglas C, Wang X, Ji L, Khan MJ, Zhu X, Luo Z, ... ... Zhang C, et al. Capturing the interactome of newly transcribed RNA. Nature Methods. PMID 29431736 DOI: 10.1038/Nmeth.4595 |
0.461 |
|
| 2018 |
Jacko M, Weyn-Vanhentenryck SM, Smerdon JW, Yan R, Feng H, Williams DJ, Pai J, Xu K, Wichterle H, Zhang C. Rbfox Splicing Factors Promote Neuronal Maturation and Axon Initial Segment Assembly. Neuron. PMID 29398366 DOI: 10.1016/J.Neuron.2018.01.020 |
0.702 |
|
| 2017 |
Ustianenko D, Weyn-Vanhentenryck SM, Zhang C. Microexons: discovery, regulation, and function. Wiley Interdisciplinary Reviews. Rna. PMID 28188674 DOI: 10.1002/Wrna.1418 |
0.466 |
|
| 2016 |
Zhang C, Shen Y. A Cell Type-Specific Expression Signature Predicts Haploinsufficient Autism-Susceptibility Genes. Human Mutation. PMID 27860035 DOI: 10.1002/Humu.23147 |
0.387 |
|
| 2016 |
Shah A, Qian Y, Weyn-Vanhentenryck SM, Zhang C. CLIP Tool Kit (CTK): a flexible and robust pipeline to analyze CLIP sequencing data. Bioinformatics (Oxford, England). PMID 27797762 DOI: 10.1093/Bioinformatics/Btw653 |
0.376 |
|
| 2016 |
Weyn-Vanhentenryck SM, Zhang C. mCarts: Genome-Wide Prediction of Clustered Sequence Motifs as Binding Sites for RNA-Binding Proteins. Methods in Molecular Biology (Clifton, N.J.). 1421: 215-26. PMID 26965268 DOI: 10.1007/978-1-4939-3591-8_17 |
0.472 |
|
| 2016 |
Moore MJ, Zhang C, Gantman EC, Mele A, Darnell JC, Darnell RB. Erratum: Mapping Argonaute and conventional RNA-binding protein interactions with RNA at single-nucleotide resolution using HITS-CLIP and CIMS analysis. Nature Protocols. 11: 616. PMID 26914319 DOI: 10.1038/nprot0316-616c |
0.577 |
|
| 2015 |
Goodwin M, Mohan A, Batra R, Lee KY, Charizanis K, Gómez FJ, Eddarkaoui S, Sergeant N, Buée L, Kimura T, Clark HB, Dalton J, Takamura K, Weyn-Vanhentenryck SM, Zhang C, et al. MBNL Sequestration by Toxic RNAs and RNA Misprocessing in the Myotonic Dystrophy Brain. Cell Reports. PMID 26257173 DOI: 10.1016/J.Celrep.2015.07.029 |
0.488 |
|
| 2015 |
Feng H, Zhang X, Zhang C. mRIN for direct assessment of genome-wide and gene-specific mRNA integrity from large-scale RNA-sequencing data. Nature Communications. 6: 7816. PMID 26234653 DOI: 10.1038/Ncomms8816 |
0.742 |
|
| 2015 |
Yan Q, Weyn-Vanhentenryck SM, Wu J, Sloan SA, Zhang Y, Chen K, Wu JQ, Barres BA, Zhang C. Systematic discovery of regulated and conserved alternative exons in the mammalian brain reveals NMD modulating chromatin regulators. Proceedings of the National Academy of Sciences of the United States of America. 112: 3445-50. PMID 25737549 DOI: 10.1073/Pnas.1502849112 |
0.536 |
|
| 2014 |
Batra R, Charizanis K, Manchanda M, Mohan A, Li M, Finn DJ, Goodwin M, Zhang C, Sobczak K, Thornton CA, Swanson MS. Loss of MBNL leads to disruption of developmentally regulated alternative polyadenylation in RNA-mediated disease. Molecular Cell. 56: 311-22. PMID 25263597 DOI: 10.1016/J.Molcel.2014.08.027 |
0.538 |
|
| 2014 |
Zhang Y, Chen K, Sloan SA, Bennett ML, Scholze AR, O'Keeffe S, Phatnani HP, Guarnieri P, Caneda C, Ruderisch N, Deng S, Liddelow SA, Zhang C, Daneman R, Maniatis T, et al. An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 34: 11929-47. PMID 25186741 DOI: 10.1523/Jneurosci.1860-14.2014 |
0.595 |
|
| 2014 |
Weyn-Vanhentenryck SM, Mele A, Yan Q, Sun S, Farny N, Zhang Z, Xue C, Herre M, Silver PA, Zhang MQ, Krainer AR, Darnell RB, Zhang C. HITS-CLIP and integrative modeling define the Rbfox splicing-regulatory network linked to brain development and autism. Cell Reports. 6: 1139-52. PMID 24613350 DOI: 10.1016/J.Celrep.2014.02.005 |
0.77 |
|
| 2014 |
Moore MJ, Zhang C, Gantman EC, Mele A, Darnell JC, Darnell RB. Mapping Argonaute and conventional RNA-binding protein interactions with RNA at single-nucleotide resolution using HITS-CLIP and CIMS analysis. Nature Protocols. 9: 263-93. PMID 24407355 DOI: 10.1038/Nprot.2014.012 |
0.653 |
|
| 2013 |
Zhang C, Lee KY, Swanson MS, Darnell RB. Prediction of clustered RNA-binding protein motif sites in the mammalian genome. Nucleic Acids Research. 41: 6793-807. PMID 23685613 DOI: 10.1093/Nar/Gkt421 |
0.649 |
|
| 2013 |
Poulos MG, Batra R, Li M, Yuan Y, Zhang C, Darnell RB, Swanson MS. Progressive impairment of muscle regeneration in muscleblind-like 3 isoform knockout mice. Human Molecular Genetics. 22: 3547-58. PMID 23660517 DOI: 10.1093/Hmg/Ddt209 |
0.603 |
|
| 2013 |
Wu J, Anczuków O, Krainer AR, Zhang MQ, Zhang C. OLego: fast and sensitive mapping of spliced mRNA-Seq reads using small seeds. Nucleic Acids Research. 41: 5149-63. PMID 23571760 DOI: 10.1093/Nar/Gkt216 |
0.649 |
|
| 2013 |
Eom T, Zhang C, Wang H, Lay K, Fak J, Noebels JL, Darnell RB. NOVA-dependent regulation of cryptic NMD exons controls synaptic protein levels after seizure. Elife. 2: e00178. PMID 23359859 DOI: 10.7554/Elife.00178 |
0.662 |
|
| 2012 |
Ince-Dunn G, Okano HJ, Jensen KB, Park WY, Zhong R, Ule J, Mele A, Fak JJ, Yang C, Zhang C, Yoo J, Herre M, Okano H, Noebels JL, Darnell RB. Neuronal Elav-like (Hu) proteins regulate RNA splicing and abundance to control glutamate levels and neuronal excitability. Neuron. 75: 1067-80. PMID 22998874 DOI: 10.1016/J.Neuron.2012.07.009 |
0.75 |
|
| 2012 |
Charizanis K, Lee KY, Batra R, Goodwin M, Zhang C, Yuan Y, Shiue L, Cline M, Scotti MM, Xia G, Kumar A, Ashizawa T, Clark HB, Kimura T, Takahashi MP, et al. Muscleblind-like 2-mediated alternative splicing in the developing brain and dysregulation in myotonic dystrophy. Neuron. 75: 437-50. PMID 22884328 DOI: 10.1016/J.Neuron.2012.05.029 |
0.618 |
|
| 2012 |
Zhang B, Arun G, Mao YS, Lazar Z, Hung G, Bhattacharjee G, Xiao X, Booth CJ, Wu J, Zhang C, Spector DL. The lncRNA Malat1 is dispensable for mouse development but its transcription plays a cis-regulatory role in the adult. Cell Reports. 2: 111-23. PMID 22840402 DOI: 10.1016/J.Celrep.2012.06.003 |
0.494 |
|
| 2012 |
Licatalosi DD, Yano M, Fak JJ, Mele A, Grabinski SE, Zhang C, Darnell RB. Ptbp2 represses adult-specific splicing to regulate the generation of neuronal precursors in the embryonic brain. Genes & Development. 26: 1626-42. PMID 22802532 DOI: 10.1101/Gad.191338.112 |
0.657 |
|
| 2011 |
Rajan P, Dalgliesh C, Carling PJ, Buist T, Zhang C, Grellscheid SN, Armstrong K, Stockley J, Simillion C, Gaughan L, Kalna G, Zhang MQ, Robson CN, Leung HY, Elliott DJ. Identification of novel androgen-regulated pathways and mRNA isoforms through genome-wide exon-specific profiling of the LNCaP transcriptome. Plos One. 6: e29088. PMID 22194994 DOI: 10.1371/Journal.Pone.0029088 |
0.579 |
|
| 2011 |
Watts JA, Zhang C, Klein-Szanto AJ, Kormish JD, Fu J, Zhang MQ, Zaret KS. Study of FoxA pioneer factor at silent genes reveals Rfx-repressed enhancer at Cdx2 and a potential indicator of esophageal adenocarcinoma development. Plos Genetics. 7: e1002277. PMID 21935353 DOI: 10.1371/Journal.Pgen.1002277 |
0.6 |
|
| 2011 |
Darnell JC, Van Driesche SJ, Zhang C, Hung KY, Mele A, Fraser CE, Stone EF, Chen C, Fak JJ, Chi SW, Licatalosi DD, Richter JD, Darnell RB. FMRP stalls ribosomal translocation on mRNAs linked to synaptic function and autism. Cell. 146: 247-61. PMID 21784246 DOI: 10.1016/J.Cell.2011.06.013 |
0.664 |
|
| 2011 |
Zhang C, Darnell RB. Mapping in vivo protein-RNA interactions at single-nucleotide resolution from HITS-CLIP data. Nature Biotechnology. 29: 607-14. PMID 21633356 DOI: 10.1038/Nbt.1873 |
0.664 |
|
| 2010 |
Zhang C, Frias MA, Mele A, Ruggiu M, Eom T, Marney CB, Wang H, Licatalosi DD, Fak JJ, Darnell RB. Integrative modeling defines the Nova splicing-regulatory network and its combinatorial controls. Science (New York, N.Y.). 329: 439-43. PMID 20558669 DOI: 10.1126/Science.1191150 |
0.658 |
|
| 2010 |
Chicas A, Wang X, Zhang C, McCurrach M, Zhao Z, Mert O, Dickins RA, Narita M, Zhang M, Lowe SW. Dissecting the unique role of the retinoblastoma tumor suppressor during cellular senescence. Cancer Cell. 17: 376-87. PMID 20385362 DOI: 10.1016/J.Ccr.2010.01.023 |
0.476 |
|
| 2008 |
Castle JC, Zhang C, Shah JK, Kulkarni AV, Kalsotra A, Cooper TA, Johnson JM. Expression of 24,426 human alternative splicing events and predicted cis regulation in 48 tissues and cell lines. Nature Genetics. 40: 1416-25. PMID 18978788 DOI: 10.1038/Ng.264 |
0.474 |
|
| 2008 |
Zhang C, Zhang Z, Castle J, Sun S, Johnson J, Krainer AR, Zhang MQ. Defining the regulatory network of the tissue-specific splicing factors Fox-1 and Fox-2. Genes & Development. 22: 2550-63. PMID 18794351 DOI: 10.1101/Gad.1703108 |
0.72 |
|
| 2008 |
Zhang C, Li WH, Krainer AR, Zhang MQ. RNA landscape of evolution for optimal exon and intron discrimination. Proceedings of the National Academy of Sciences of the United States of America. 105: 5797-802. PMID 18391195 DOI: 10.1073/Pnas.0801692105 |
0.723 |
|
| 2007 |
Zhang C, Hastings ML, Krainer AR, Zhang MQ. Dual-specificity splice sites function alternatively as 5' and 3' splice sites. Proceedings of the National Academy of Sciences of the United States of America. 104: 15028-33. PMID 17848517 DOI: 10.1073/Pnas.0703773104 |
0.783 |
|
| 2007 |
Zhang C, Krainer AR, Zhang MQ. Evolutionary impact of limited splicing fidelity in mammalian genes. Trends in Genetics : Tig. 23: 484-8. PMID 17719121 DOI: 10.1016/J.Tig.2007.08.001 |
0.636 |
|
| 2007 |
Zhang C, Zhang X, Zhang MQ, Li Y. Neighbor number, valley seeking and clustering Pattern Recognition Letters. 28: 173-180. DOI: 10.1016/J.Patrec.2006.07.003 |
0.416 |
|
| 2006 |
Smith PJ, Zhang C, Wang J, Chew SL, Zhang MQ, Krainer AR. An increased specificity score matrix for the prediction of SF2/ASF-specific exonic splicing enhancers. Human Molecular Genetics. 15: 2490-508. PMID 16825284 DOI: 10.1093/Hmg/Ddl171 |
0.692 |
|
| 2006 |
Zhang C, Xuan Z, Otto S, Hover JR, McCorkle SR, Mandel G, Zhang MQ. A clustering property of highly-degenerate transcription factor binding sites in the mammalian genome. Nucleic Acids Research. 34: 2238-46. PMID 16670430 DOI: 10.1093/Nar/Gkl248 |
0.729 |
|
| 2006 |
Zhang C, Li HR, Fan JB, Wang-Rodriguez J, Downs T, Fu XD, Zhang MQ. Profiling alternatively spliced mRNA isoforms for prostate cancer classification. Bmc Bioinformatics. 7: 202. PMID 16608523 DOI: 10.1186/1471-2105-7-202 |
0.508 |
|
| Show low-probability matches. |