Filters








158,800 Hits in 10.8 sec

An analysis of tissue-specific alternative splicing at the protein level

Jose Manuel Rodriguez, Fernando Pozo, Tomas di Domenico, Jesus Vazquez, Michael L. Tress, Christine A. Orengo
<span title="2020-10-05">2020</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ch57atmlprauhhbqdf7x4ytejm" style="color: black;">PLoS Computational Biology</a> </i> &nbsp;
There is strong evidence for alternative splicing at the transcript level, and transcriptomics experiments show that many splice events are tissue specific.  ...  Although the data supporting alternative splicing is limited at the protein level, clear patterns emerged among the small numbers of alternative splice events that we could detect in the proteomics data  ...  The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pcbi.1008287">doi:10.1371/journal.pcbi.1008287</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33017396">pmid:33017396</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7561204/">pmcid:PMC7561204</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/5azcpwtg7bacnpiwbfqytxdr3e">fatcat:5azcpwtg7bacnpiwbfqytxdr3e</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201006145956/https://journals.plos.org/ploscompbiol/article/file?id=10.1371%2Fjournal.pcbi.1008287&amp;type=printable" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/37/8d/378dce6dd9e68a1ef22f44e35ce3df3678333bf7.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pcbi.1008287"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7561204" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Protein Modularity of Alternatively Spliced Exons Is Associated with Tissue-Specific Regulation of Alternative Splicing

Yi Xing, Christopher J. Lee
<span title="">2005</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/j6fzfstrmzcj3aeps7bx6tpoy4" style="color: black;">PLoS Genetics</a> </i> &nbsp;
The analysis of different subsets of tissueswitched exons shows that the increased protein modularity cannot be explained by the overall exon inclusion level, but is specifically associated with tissue-switched  ...  Recent comparative genomic analysis of alternative splicing has shown that protein modularity is an important criterion for functional alternative splicing events.  ...  This work was supported by National Institutes of Health Grant U54-RR021813, a Teacher-Scholar award to CJL from the Dreyfus Foundation, and Department of Energy Grant DE-FC02-02ER63421.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pgen.0010034">doi:10.1371/journal.pgen.0010034</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/16170410">pmid:16170410</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1201369/">pmcid:PMC1201369</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fa45slhqwfdppkarl34a7kkhru">fatcat:fa45slhqwfdppkarl34a7kkhru</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20171127190813/https://core.ac.uk/download/pdf/3727483.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/40/30/4030f7a9b7284a63e677a348e4056bd92e48524f.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pgen.0010034"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1201369" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Variation in alternative splicing across human tissues

Gene Yeo, Dirk Holste, Gabriel Kreiman, Christopher B Burge
<span title="2004-09-13">2004</span> <i title="BMC"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/6bzsiicmhvczjnsm7jbog7ysaa" style="color: black;">Genome Biology</a> </i> &nbsp;
Alternative pre-mRNA splicing (AS) is widely used by higher eukaryotes to generate different protein isoforms in specific cell or tissue types.  ...  Analysis of available microarray expression data showed that the liver had the most divergent pattern of expression of serine-arginine protein and heterogeneous ribonucleoprotein genes compared to the  ...  This work was supported by grants from the National Science Foundation and the National Institutes of Health (C.B.B.), and by a Lee Kuan Yew fellowship (G.Y.) and a Whiteman fellowship (G.K.).  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/gb-2004-5-10-r74">doi:10.1186/gb-2004-5-10-r74</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/15461793">pmid:15461793</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC545594/">pmcid:PMC545594</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/aprfl7oilvahvkunka5pvvnuyy">fatcat:aprfl7oilvahvkunka5pvvnuyy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190426165734/https://genomebiology.biomedcentral.com/track/pdf/10.1186/gb-2004-5-10-r74" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c3/bd/c3bd25363c9fa2b5bca88ce70cf6bbb0b6937851.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/gb-2004-5-10-r74"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC545594" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Tissue-specific splicing factor gene expression signatures

Ana Rita Grosso, Anita Q. Gomes, Nuno L. Barbosa-Morais, Sandra Caldeira, Natalie P. Thorne, Godfrey Grech, Marieke von Lindern, Maria Carmo-Fonseca
<span title="2008-07-23">2008</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
Our results show that brain and testis, the two tissues with highest levels of alternative splicing events, have the largest number of splicing factor genes that are most highly differentially expressed  ...  It has long been argued that regulation of alternative splicing relies on combinatorial interactions between multiple proteins, and that tissue-specific splicing decisions most likely result from differences  ...  This work was supported by grants from Fundac¸a˜o para a Cieˆncia e Tecnologia, Portugal Conflict of interest statement. None declared.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkn463">doi:10.1093/nar/gkn463</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/18653532">pmid:18653532</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2528195/">pmcid:PMC2528195</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/gtixesoywzdjdfaik4ewyhhzvu">fatcat:gtixesoywzdjdfaik4ewyhhzvu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190224004019/http://pdfs.semanticscholar.org/599d/ea9648f6e109bf5735bd9cb2b08f12b1eb59.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/59/9d/599dea9648f6e109bf5735bd9cb2b08f12b1eb59.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkn463"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2528195" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Global analysis of alternative splicing differences between humans and chimpanzees

J. A. Calarco, Y. Xing, M. Caceres, J. P. Calarco, X. Xiao, Q. Pan, C. Lee, T. M. Preuss, B. J. Blencowe
<span title="2007-11-15">2007</span> <i title="Cold Spring Harbor Laboratory"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/g3c3nr2oafg6jb6ivw6sj5giuu" style="color: black;">Genes &amp; Development</a> </i> &nbsp;
Differences in expression at the protein level of the major splice variant of Glutathione S-transferase omega-2 (GSTO2), which functions in the protection against oxidative stress and is associated with  ...  Surprisingly, 6%-8% of profiled orthologous exons display pronounced splicing level differences in the corresponding tissues from the two species.  ...  We also thank Chris Burge and James Thomas for support, Steve Scherer and The Centre for Applied Genomics (Hospital for Sick Children, Toronto) for technical assistance, and the staff of the  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/gad.1606907">doi:10.1101/gad.1606907</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17978102">pmid:17978102</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2049197/">pmcid:PMC2049197</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/u7o5gq44irbinkpi6syqbomgeu">fatcat:u7o5gq44irbinkpi6syqbomgeu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170706044124/http://sites.utoronto.ca/intron/calarco2007.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/9f/09/9f09af732bfb0d4817ca84c643c458e7d9e84ca0.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/gad.1606907"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2049197" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Splicing factor and exon profiling across human tissues

Pierre de la Grange, Lise Gratadou, Marc Delord, Martin Dutertre, Didier Auboeuf
<span title="2010-01-27">2010</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
Variations at the exon level correlated with a larger number of splicing factors being expressed at a high level in the cerebellum, testis and spleen than in other tissues.  ...  Paired comparisons between tissues and an original exon-based statistical group analysis demonstrated after extensive RT-PCR validation that the cerebellum, testis, and spleen had the largest proportion  ...  It has been well-established that variations of the expression level of trans-acting splicing factors play a critical role in tissue-specific alternative splicing.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkq008">doi:10.1093/nar/gkq008</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20110256">pmid:20110256</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2875023/">pmcid:PMC2875023</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/5ahwzzmuajhj5ba6spzv5fm3pq">fatcat:5ahwzzmuajhj5ba6spzv5fm3pq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190223105425/http://pdfs.semanticscholar.org/462a/a03c3f4d7c6ebc52a88e6f6b2cc688ac1f5e.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/46/2a/462aa03c3f4d7c6ebc52a88e6f6b2cc688ac1f5e.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkq008"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2875023" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Alternative splicing: global insights

Martina Hallegger, Miriam Llorian, Christopher W. J. Smith
<span title="2010-01-15">2010</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/6sl6l3ojendhnjf3odmmtutouq" style="color: black;">The FEBS Journal</a> </i> &nbsp;
like; PTB, polypyrimidine tract binding protein; SELEX, selective evolution of ligands by exponential enrichment; SR protein, serine-arginine rich protein.  ...  Abbreviations CLIP, UV cross-linking and immunoprecipitation; CELF, CUGBP and ETR3 like family (of RNA binding proteins); CUGBP, CUG binding protein; miRNA, micro-RNA; RNP, ribonucleoprotein; MBNL, muscleblind  ...  Work in the CWJS laboratory is funded by the Wellcome Trust (programme grant 077877) and by EC grant EURASNET-LSHG-CT-2005-518238.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/j.1742-4658.2009.07521.x">doi:10.1111/j.1742-4658.2009.07521.x</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20082635">pmid:20082635</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fifttoq6orbv7jybpjoumpyd6m">fatcat:fifttoq6orbv7jybpjoumpyd6m</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200323023221/https://febs.onlinelibrary.wiley.com/doi/pdfdirect/10.1111/j.1742-4658.2009.07521.x" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d2/7e/d27ebb41bcb885ee5c3a2de732ed64b993c2f656.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/j.1742-4658.2009.07521.x"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Inhibitory PAS Domain Protein (IPAS) Is a Hypoxia-inducible Splicing Variant of the Hypoxia-inducible Factor-3alpha Locus

Y. Makino
<span title="2002-07-15">2002</span> <i title="American Society for Biochemistry &amp; Molecular Biology (ASBMB)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/mryncoafc5cxdicldzfm4vlsze" style="color: black;">Journal of Biological Chemistry</a> </i> &nbsp;
In experiments using normal mice and mice exposed to hypoxia (6% O 2 ) for 6 h we observed alternative splicing of the HIF-3␣ transcript in the heart and lung.  ...  of angiogenesis and maintenance of an avascular phenotype.  ...  Here we demonstrate that IPAS is an alternative splicing product of the HIF-3␣ locus.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1074/jbc.c200328200">doi:10.1074/jbc.c200328200</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/12119283">pmid:12119283</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/rtynjvsfrnexfeutsmq2attve4">fatcat:rtynjvsfrnexfeutsmq2attve4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180719012011/http://www.jbc.org/content/277/36/32405.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d9/9e/d99e2a32e950dde0a45c114c572503823e016c1f.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1074/jbc.c200328200"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a>

Species- and tissue-specific expression of the C-terminal alternatively spliced form of the tumor suppressor p53

Katrin Will, Gabriele Warnecke, Steffi Bergmann, Wolfgang Deppert
<span title="">1995</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
Alternatively spliced mRNA was found at -25-30% the level of the normally spliced p53 mRNA in most tissues analyzed.  ...  These findings imply that the generation of functionally different forms of p53 by alternative splicing of p53 transcripts is a species-specific event, possibly indicating species-specific mechanisms for  ...  ACKNOWLEDGEMENTS We would like to thank Frank Schnieders and Professor Jorg Schmidtke (Institute of Human Genetics, Medizinische Hochschule Hannover) for providing the human tissues.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/23.20.4023">doi:10.1093/nar/23.20.4023</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/7479059">pmid:7479059</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC307337/">pmcid:PMC307337</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/2p5e5cspjvcidosv7m54is3xsy">fatcat:2p5e5cspjvcidosv7m54is3xsy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170808133751/http://edoc.mdc-berlin.de/2349/1/2349.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d1/f7/d1f772e7d61ae39609c0d3dcbe82cc9eb579e022.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/23.20.4023"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC307337" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Role of alternative splicing in modulating protein-protein interactions

V Bianchi, A Colantoni, M Helmer-Citterich, F Ferrè
<span title="2012-04-29">2012</span> <i title="EMBnet Stichting"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/safaaq4uondrvmmn5dstg3qpp4" style="color: black;">EMBnet journal</a> </i> &nbsp;
Motivations Alternative splicing (AS) permits the synthesis of multiple transcript variants from a single gene increasing the diversity of proteins encoded by a genome.  ...  We aim at a detailed analysis of how AS can modulate protein interactions by the differential expression of isoforms encoding or not for the interaction interfaces.  ...  are lost due to an alternative splicing event.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.14806/ej.18.a.428">doi:10.14806/ej.18.a.428</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/dtrr2odsk5hodbxybn5rmghcuq">fatcat:dtrr2odsk5hodbxybn5rmghcuq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170705073656/http://journal.embnet.org/index.php/embnetjournal/article/download/428/616/" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/ac/9c/ac9c688bb00978f5924c48aa7da56ce5c4943e74.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.14806/ej.18.a.428"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Alternative splicing of EKLF/KLF1 in murine primary erythroid tissues

Yvette Y. Yien, Merlin Nithya Gnanapragasam, Ritama Gupta, Stefano Rivella, James J. Bieker
<span title="">2015</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tm6ufftkbnhrnmxsc57eapmwxe" style="color: black;">Experimental Hematology</a> </i> &nbsp;
Alternative splicing has emerged as a vital way to expand the functional repertoire of a set number of mammalian genes.  ...  We find that Eklf mRNA undergoes exon skipping only in primary tissues and that this splice variant remains at a very low level in both embryonic and adult erythroid cells, and during terminal differentiation  ...  Acknowledgments We thank Li Xue for isolation of mouse tissues and Dr. Barry Paw for technical advice. We thank Drs. Scott Friedman and Xiajun Li for productive scientific discussions.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.exphem.2014.08.007">doi:10.1016/j.exphem.2014.08.007</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25283745">pmid:25283745</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4268327/">pmcid:PMC4268327</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/4frwysmxxbgltl3xor6oye2tca">fatcat:4frwysmxxbgltl3xor6oye2tca</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200210160112/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC4268327&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/47/20/4720a432058529ec91f4f6bf06704c8654cbefd9.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.exphem.2014.08.007"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4268327" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Global regulatory features of alternative splicing across tissues and within the nervous system of C. elegans

Bina Koterniak, Pallavi P Pilaka, Xicotencatl Gracida, Lisa-Marie Schneider, Iva Pritišanac, Yun Zhang, John A Calarco
<span title="2020-10-30">2020</span> <i title="Cold Spring Harbor Laboratory"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/nwro4atxwbec5pfkpfslaxbdae" style="color: black;">Genome Research</a> </i> &nbsp;
Collectively, our results indicate a rich layer of tissue-specific gene regulation at the level of alternative splicing in C. elegans that parallel the evolutionary forces and constraints observed across  ...  Among the broad tissue types present in metazoans, the central nervous system contains some of the highest levels of alternative splicing.  ...  I.P. helped with analysis of overlap of alternative exons with regions encoding intrinsically disordered proteins.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/gr.267328.120">doi:10.1101/gr.267328.120</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33127752">pmid:33127752</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7706725/">pmcid:PMC7706725</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/udoj2svwxjaglp3qbhcmdsycyi">fatcat:udoj2svwxjaglp3qbhcmdsycyi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201228174315/https://genome.cshlp.org/content/30/12/1766.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/2d/fc/2dfcd3ec5911c59d27d5818f89e21579a0c0c5bf.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/gr.267328.120"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7706725" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Alternative splicing is frequent during early embryonic development in mouse

Timothée Revil, Daniel Gaffney, Christel Dias, Jacek Majewski, Loydie A Jerome-Majewska
<span title="">2010</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/4srzxifvfrdlhjhg3dimznkp7m" style="color: black;">BMC Genomics</a> </i> &nbsp;
Using an example of a well characterized splicing factor, Fox2, we demonstrate that changes in Fox2 expression levels can be used to predict changes in inclusion levels of alternative exons that are flanked  ...  We further propose that gene expression should routinely be monitored at both the whole transcript and the isoform level in developmental studies  ...  LAJM is a member of the Research Institute of the McGill University Health Centre, which is supported in part by the FRSQ.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2164-11-399">doi:10.1186/1471-2164-11-399</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20573213">pmid:20573213</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2898759/">pmcid:PMC2898759</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/s5ecc7dad5gxpncljpams743m4">fatcat:s5ecc7dad5gxpncljpams743m4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170830094555/https://bmcgenomics.biomedcentral.com/track/pdf/10.1186/1471-2164-11-399?site=http://bmcgenomics.biomedcentral.com" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/dc/e9/dce9c07f496c4045a82d323bfe17bbde4956ae56.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2164-11-399"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2898759" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Alternative Splicing: New Insights from Global Analyses

Benjamin J. Blencowe
<span title="">2006</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/iwommhyo5bdk7c3u37mhjzexfe" style="color: black;">Cell</a> </i> &nbsp;
physiology, and how alternative splicing is coordinated on a global level to achieve cell-and tissue-specific functions.  ...  Efforts are now being directed at establishing the full repertoire of functionally relevant transcript variants generated by alternative splicing, the specific roles of such variants in normal and disease  ...  Research in my group is supported by grants from the Canadian Institutes of Health Research, the Canada Foundation for Innovation, the National Cancer Institute of Canada, and Genome Canada.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.cell.2006.06.023">doi:10.1016/j.cell.2006.06.023</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/16839875">pmid:16839875</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/wx2ma3g3qnbn7bpxbldvkrr4oi">fatcat:wx2ma3g3qnbn7bpxbldvkrr4oi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170810013325/http://sites.utoronto.ca/intron/blencowecell2006.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/04/97/049724305ed60528958073d0c64d39977bb82c72.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.cell.2006.06.023"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a>

Prediction of alternatively skipped exons and splicing enhancers from exon junction arrays

Katerina Kechris, Yee Yang, Ru-Fang Yeh
<span title="2008-11-20">2008</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/4srzxifvfrdlhjhg3dimznkp7m" style="color: black;">BMC Genomics</a> </i> &nbsp;
Sequence analysis of our predicted exons confirms the presence of known splicing regulatory sequences.  ...  Alternative splicing of exons in a pre-mRNA transcript is an important mechanism which contributes to protein diversity in human.  ...  Acknowledgements This research was supported by the Center for Bioinformatics and Molecular Biostatistics at University of California, San Francisco and a Sloan Foundation/DOE post-doctoral fellowship  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2164-9-551">doi:10.1186/1471-2164-9-551</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19021909">pmid:19021909</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2631580/">pmcid:PMC2631580</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/bxxuwl6tgjapldtsszrmj7oyoy">fatcat:bxxuwl6tgjapldtsszrmj7oyoy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170830064820/https://bmcgenomics.biomedcentral.com/track/pdf/10.1186/1471-2164-9-551?site=http://bmcgenomics.biomedcentral.com" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d7/8a/d78a6f224943ecabd362dc320a3d0b945eebb8aa.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2164-9-551"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2631580" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>
&laquo; Previous Showing results 1 &mdash; 15 out of 158,800 results