TAF4 Inactivation Reveals the 3 Dimensional Growth Promoting Activities of Collagen 6A3
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{"title"=>"TAF4 inactivation reveals the 3 dimensional growth promoting activities of collagen 6A3", "type"=>"journal", "authors"=>[{"first_name"=>"Igor", "last_name"=>"Martianov", "scopus_author_id"=>"6506540495"}, {"first_name"=>"Emilie", "last_name"=>"Cler", "scopus_author_id"=>"16686083400"}, {"first_name"=>"Isabelle", "last_name"=>"Duluc", "scopus_author_id"=>"6603717381"}, {"first_name"=>"Serge", "last_name"=>"Vicaire", "scopus_author_id"=>"7801645131"}, {"first_name"=>"Muriel", "last_name"=>"Philipps", "scopus_author_id"=>"56082876500"}, {"first_name"=>"Jean Noel", "last_name"=>"Freund", "scopus_author_id"=>"7102777375"}, {"first_name"=>"Irwin", "last_name"=>"Davidson", "scopus_author_id"=>"7103402974"}], "year"=>2014, "source"=>"PLoS ONE", "identifiers"=>{"isbn"=>"1932-6203", "sgr"=>"84896858407", "pui"=>"372485656", "pmid"=>"24498316", "issn"=>"19326203", "scopus"=>"2-s2.0-84896858407", "doi"=>"10.1371/journal.pone.0087365"}, "id"=>"7f6e4d38-ec63-3041-b6a1-dee0ec878a2f", "abstract"=>"Collagen 6A3 (Col6a3), a component of extracellular matrix, is often up-regulated in tumours and is believed to play a pro-oncogenic role. However the mechanisms of its tumorigenic activity are poorly understood. We show here that Col6a3 is highly expressed in densely growing mouse embryonic fibroblasts (MEFs). In MEFs where the TAF4 subunit of general transcription factor IID (TFIID) has been inactivated, elevated Col6a3 expression prevents contact inhibition promoting their 3 dimensional growth as foci and fibrospheres. Analyses of gene expression in densely growing Taf4(-/-) MEFs revealed repression of the Hippo pathway and activation of Wnt signalling. The Hippo activator Kibra/Wwc1 is repressed under dense conditions in Taf4(-/-) MEFs, leading to nuclear accumulation of the proliferation factor YAP1 in the cells forming 3D foci. At the same time, Wnt9a is activated and the Sfrp2 antagonist of Wnt signalling is repressed. Surprisingly, treatment of Taf4(-/-) MEFs with all-trans retinoic acid (ATRA) restores contact inhibition suppressing 3D growth. ATRA represses Col6a3 expression independently of TAF4 expression and Col6a3 silencing is sufficient to restore contact inhibition in Taf4(-/-) MEFs and to suppress 3D growth by reactivating Kibra expression to induce Hippo signalling and by inducing Sfrp2 expression to antagonize Wnt signalling. All together, these results reveal a critical role for Col6a3 in regulating both Hippo and Wnt signalling to promote 3D growth, and show that the TFIID subunit TAF4 is essential to restrain the growth promoting properties of Col6a3. Our data provide new insight into the role of extra cellular matrix components in regulating cell growth.", "link"=>"http://www.mendeley.com/research/taf4-inactivation-reveals-3-dimensional-growth-promoting-activities-collagen-6a3", "reader_count"=>18, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>5, "Student > Ph. D. Student"=>6, "Other"=>1, "Student > Bachelor"=>4}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>5, "Student > Ph. D. Student"=>6, "Other"=>1, "Student > Bachelor"=>4}, "reader_count_by_subject_area"=>{"Engineering"=>2, "Unspecified"=>1, "Biochemistry, Genetics and Molecular Biology"=>5, "Agricultural and Biological Sciences"=>9, "Medicine and Dentistry"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>2}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>9}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>5}, "Unspecified"=>{"Unspecified"=>1}}, "reader_count_by_country"=>{"United Kingdom"=>1}, "group_count"=>0}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1376092"], "description"=>"<p><b>A</b>. Phase contrast microscopy (20× magnification) of C3 cells grown as dense cultures for 3 days in presence or absence of ATRA. <b>B</b>. Phase contrast microscopy (12× magnification) of C3 cells in grown for 10 days as fibrospheres in presence or absence of ATRA. <b>C</b>–<b>D</b> Effect of ATRA on <i>Col6a3</i> expression in C3 and C1 cells grown for the indicated number of days in presence or absence of ATRA.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "induced", "c3"], "article_id"=>926080, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g007", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_ATRA_induced_changes_in_properties_of_C3_MEFs_/926080", "title"=>"ATRA induced changes in properties of C3 MEFs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376095"], "description"=>"<p><b>A</b>. RT-qPCR of <i>Col6a3</i> expression in cells expressing control shRNA or two independent shRNAs directed against <i>Col6a3</i> after the indicated number of days in culture. <b>B</b>. Phase contrast microscopy (12× magnification) of C3 cells expressing control shRNA or shRNAs directed against <i>Col6a3</i> grown for 10 days as fibrospheres. <b>C</b>. Phase contrast microscopy (20× magnification) of C3 MEFs in the presence and absence of ATRA showing the characteristic changes in cell morphology induced by RA and compared with C3 cells expressing shRNAs directed against <i>Col6a3</i>. <i>Col6a3</i> knockdown induces changes in cell morphology analogous to those seen in the presence of RA. <b>D</b>. Effects of <i>Col6a3</i> silencing on gene expression.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "3d", "mef"], "article_id"=>926083, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g008", "stats"=>{"downloads"=>2, "page_views"=>22, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Col6a3_is_required_for_3D_MEF_growth_/926083", "title"=>"<i>Col6a3</i> is required for 3D MEF growth.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373291"], "description"=>"<p><b>A</b> Results of RT-qPCR analysis of the indicated genes in C1 or C3 cells grown for 3 and 10 days in monolayer culture, or 10 days as fibrospheres (F1). <b>B</b> Immunostaining of C1 and C3 MEFs for YAP1 at low or high densities. <b>C</b> Immunostaining of C3 MEFs grown at high density for YAP1, SOX2 or β-catenin as indicated.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "hippo", "signalling", "c1", "c3"], "article_id"=>923718, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g005", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Differential_regulation_of_Hippo_signalling_in_C1_and_C3_MEFs_/923718", "title"=>"Differential regulation of Hippo signalling in C1 and C3 MEFs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373293"], "description"=>"<p><b>A–C</b>. Results of RT-qPCR analysis of the indicated genes in C1 or C3 cells grown for 3 and 9–10 days in monolayer cluture, 10 days as fibrospheres (F1 and F2) or in C3 cells expressing the indicated shRNAs. <b>D</b> Phase contrast microscopy (20× magnification) of C3 cells grown in presence or absence of the indicated Wnt pathway inhibitors or expressing control shRNA and shRNA directed againt <i>Wnt9a</i>. <b>E</b>. Confocal microscopy sections through foci grown in the presence or absence of XAV939 showing that the nuclear β-catenin localisation seen in the control C3 cells is lost in presence of XAV939. <b>F</b>. Immunostaining for YAP1 and SOX2 in foci in presence or absence of XAV939.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "signalling", "3d"], "article_id"=>923720, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g006", "stats"=>{"downloads"=>2, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Wnt_signalling_is_required_for_3D_growth_/923720", "title"=>"Wnt signalling is required for 3D growth.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376101"], "description"=>"<p><b>A</b>. Expression of YAP1 and SOX2 in low-density sh<i>Col6a3</i> knockdown cells grown for 2 days as monolayers. Cells expressing low or high levels of SOX2 are indicated by arrows. <b>B</b>. Expression of YAP1 and SOX2 expression in dense sh<i>Col6a3</i> silenced cells grown for 8 days as monolayers. <i>Col6a3</i> silencing leads to diminished YAP1 and SOX2 expression.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "hippo", "signalling", "col6a3"], "article_id"=>926089, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g009", "stats"=>{"downloads"=>1, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Reactivation_of_Hippo_signalling_upon_Col6a3_silencing_/926089", "title"=>"Reactivation of Hippo signalling upon Col6a3 silencing.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376083"], "description"=>"<p><b>A</b> Results of RT-qPCR analysis of the indicated genes in C1 or C3 cells grown for 3 and 10 days in monolayer culture, or 10 days as fibrospheres (F1). <b>B</b> Immunostaining of C1 and C3 MEFs for YAP1 at low or high densities. <b>C</b> Immunostaining of C3 MEFs grown at high density for YAP1, SOX2 or β-catenin as indicated.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "hippo", "signalling", "c1", "c3"], "article_id"=>926071, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g005", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Differential_regulation_of_Hippo_signalling_in_C1_and_C3_MEFs_/926071", "title"=>"Differential regulation of Hippo signalling in C1 and C3 MEFs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373368", "https://ndownloader.figshare.com/files/1373369", "https://ndownloader.figshare.com/files/1373370", "https://ndownloader.figshare.com/files/1373371"], "description"=>"<div><p>Collagen 6A3 (<i>Col6a3</i>), a component of extracellular matrix, is often up-regulated in tumours and is believed to play a pro-oncogenic role. However the mechanisms of its tumorigenic activity are poorly understood. We show here that <i>Col6a3</i> is highly expressed in densely growing mouse embryonic fibroblasts (MEFs). In MEFs where the TAF4 subunit of general transcription factor IID (TFIID) has been inactivated, elevated <i>Col6a3</i> expression prevents contact inhibition promoting their 3 dimensional growth as foci and fibrospheres. Analyses of gene expression in densely growing <i>Taf4<sup>−/−</sup></i> MEFs revealed repression of the Hippo pathway and activation of Wnt signalling. The Hippo activator Kibra/Wwc1 is repressed under dense conditions in <i>Taf4<sup>−/−</sup></i> MEFs, leading to nuclear accumulation of the proliferation factor YAP1 in the cells forming 3D foci. At the same time, <i>Wnt9a</i> is activated and the <i>Sfrp2</i> antagonist of Wnt signalling is repressed. Surprisingly, treatment of <i>Taf4<sup>−/−</sup></i> MEFs with all-trans retinoic acid (ATRA) restores contact inhibition suppressing 3D growth. ATRA represses <i>Col6a3</i> expression independently of TAF4 expression and <i>Col6a3</i> silencing is sufficient to restore contact inhibition in <i>Taf4<sup>−/−</sup></i> MEFs and to suppress 3D growth by reactivating Kibra expression to induce Hippo signalling and by inducing <i>Sfrp2</i> expression to antagonize Wnt signalling. All together, these results reveal a critical role for <i>Col6a3</i> in regulating both Hippo and Wnt signalling to promote 3D growth, and show that the TFIID subunit TAF4 is essential to restrain the growth promoting properties of <i>Col6a3</i>. Our data provide new insight into the role of extra cellular matrix components in regulating cell growth.</p></div>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "inactivation", "reveals", "dimensional", "promoting", "activities", "collagen"], "article_id"=>923788, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0087365.s001", "https://dx.doi.org/10.1371/journal.pone.0087365.s002", "https://dx.doi.org/10.1371/journal.pone.0087365.s003", "https://dx.doi.org/10.1371/journal.pone.0087365.s004"], "stats"=>{"downloads"=>4, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_TAF4_Inactivation_Reveals_the_3_Dimensional_Growth_Promoting_Activities_of_Collagen_6A3_/923788", "title"=>"TAF4 Inactivation Reveals the 3 Dimensional Growth Promoting Activities of Collagen 6A3", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373299"], "description"=>"<p><b>A</b>. RT-qPCR of <i>Col6a3</i> expression in cells expressing control shRNA or two independent shRNAs directed against <i>Col6a3</i> after the indicated number of days in culture. <b>B</b>. Phase contrast microscopy (12× magnification) of C3 cells expressing control shRNA or shRNAs directed against <i>Col6a3</i> grown for 10 days as fibrospheres. <b>C</b>. Phase contrast microscopy (20× magnification) of C3 MEFs in the presence and absence of ATRA showing the characteristic changes in cell morphology induced by RA and compared with C3 cells expressing shRNAs directed against <i>Col6a3</i>. <i>Col6a3</i> knockdown induces changes in cell morphology analogous to those seen in the presence of RA. <b>D</b>. Effects of <i>Col6a3</i> silencing on gene expression.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "3d", "mef"], "article_id"=>923725, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g008", "stats"=>{"downloads"=>2, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Col6a3_is_required_for_3D_MEF_growth_/923725", "title"=>"<i>Col6a3</i> is required for 3D MEF growth.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376113", "https://ndownloader.figshare.com/files/1376114", "https://ndownloader.figshare.com/files/1376115", "https://ndownloader.figshare.com/files/1376116", "https://ndownloader.figshare.com/files/1376117", "https://ndownloader.figshare.com/files/1376118", "https://ndownloader.figshare.com/files/1376119", "https://ndownloader.figshare.com/files/1376120", "https://ndownloader.figshare.com/files/1376121"], "description"=>"<div><p>Collagen 6A3 (<i>Col6a3</i>), a component of extracellular matrix, is often up-regulated in tumours and is believed to play a pro-oncogenic role. However the mechanisms of its tumorigenic activity are poorly understood. We show here that <i>Col6a3</i> is highly expressed in densely growing mouse embryonic fibroblasts (MEFs). In MEFs where the TAF4 subunit of general transcription factor IID (TFIID) has been inactivated, elevated <i>Col6a3</i> expression prevents contact inhibition promoting their 3 dimensional growth as foci and fibrospheres. Analyses of gene expression in densely growing <i>Taf4<sup>−/−</sup></i> MEFs revealed repression of the Hippo pathway and activation of Wnt signalling. The Hippo activator Kibra/Wwc1 is repressed under dense conditions in <i>Taf4<sup>−/−</sup></i> MEFs, leading to nuclear accumulation of the proliferation factor YAP1 in the cells forming 3D foci. At the same time, <i>Wnt9a</i> is activated and the <i>Sfrp2</i> antagonist of Wnt signalling is repressed. Surprisingly, treatment of <i>Taf4<sup>−/−</sup></i> MEFs with all-trans retinoic acid (ATRA) restores contact inhibition suppressing 3D growth. ATRA represses <i>Col6a3</i> expression independently of TAF4 expression and <i>Col6a3</i> silencing is sufficient to restore contact inhibition in <i>Taf4<sup>−/−</sup></i> MEFs and to suppress 3D growth by reactivating Kibra expression to induce Hippo signalling and by inducing <i>Sfrp2</i> expression to antagonize Wnt signalling. All together, these results reveal a critical role for <i>Col6a3</i> in regulating both Hippo and Wnt signalling to promote 3D growth, and show that the TFIID subunit TAF4 is essential to restrain the growth promoting properties of <i>Col6a3</i>. Our data provide new insight into the role of extra cellular matrix components in regulating cell growth.</p></div>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "inactivation", "reveals", "dimensional", "promoting", "activities", "collagen"], "article_id"=>926101, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0087365.s001", "https://dx.doi.org/10.1371/journal.pone.0087365.s002", "https://dx.doi.org/10.1371/journal.pone.0087365.s003", "https://dx.doi.org/10.1371/journal.pone.0087365.s004", "https://dx.doi.org/10.1371/journal.pone.0087365.s005", "https://dx.doi.org/10.1371/journal.pone.0087365.s006", "https://dx.doi.org/10.1371/journal.pone.0087365.s007", "https://dx.doi.org/10.1371/journal.pone.0087365.s008", "https://dx.doi.org/10.1371/journal.pone.0087365.s009"], "stats"=>{"downloads"=>31, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_TAF4_Inactivation_Reveals_the_3_Dimensional_Growth_Promoting_Activities_of_Collagen_6A3_/926101", "title"=>"TAF4 Inactivation Reveals the 3 Dimensional Growth Promoting Activities of Collagen 6A3", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373316"], "description"=>"<p><b>A</b>. Expression of YAP1 and SOX2 in low-density sh<i>Col6a3</i> knockdown cells grown for 2 days as monolayers. Cells expressing low or high levels of SOX2 are indicated by arrows. <b>B</b>. Expression of YAP1 and SOX2 expression in dense sh<i>Col6a3</i> silenced cells grown for 8 days as monolayers. <i>Col6a3</i> silencing leads to diminished YAP1 and SOX2 expression.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "hippo", "signalling", "col6a3"], "article_id"=>923743, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g009", "stats"=>{"downloads"=>2, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Reactivation_of_Hippo_signalling_upon_Col6a3_silencing_/923743", "title"=>"Reactivation of Hippo signalling upon Col6a3 silencing.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373284"], "description"=>"<p><b>A</b>. Immunostaining of dense C3 MEFs for COL6A3. Two distinct fields are shown. COL6A3 is not homogeneously expressed, but strong expression is limited to the cells forming the 3D foci. B–C. Immunostaining of dense C3 cells expressing shRNAs directed against <i>Col6a3</i> demonstrating the specificity of the staining.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "col6a3", "mefs", "3d"], "article_id"=>923711, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g004", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Elevated_COL6A3_expression_in_MEFs_growing_as_3D_foci_/923711", "title"=>"Elevated COL6A3 expression in MEFs growing as 3D foci.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376068"], "description"=>"<p><b>A</b>. Phase contrast microscopy (20× magnification) of C1 and C3 cells grown as dense cultures for 3 days. <b>B</b>. Growth of C1 and C3 cells after 10 days in soft agar. <b>C</b>. Phase contrast microscopy (12× magnification) of C1 cells or C3 cells in grown for 10 days under non-adherent conditions.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "c3"], "article_id"=>926059, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g001", "stats"=>{"downloads"=>1, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_3D_growth_of_C3_cells_/926059", "title"=>"3D growth of C3 cells.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376070"], "description"=>"<p><b>A–B</b> Venn diagrammes showing overlapping changes in gene expression upon growth as dense cultures or fibrospheres. <b>C–F</b>. Ontology analysis (<a href=\"http://david.abcc.ncifcrf.gov/\" target=\"_blank\">http://david.abcc.ncifcrf.gov/</a>) of the deregulated genes showing some relevant categories from the CC-FAT and BP FAT classifications. The number of genes and the associated <i>P</i> values for each category are indicated.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "3d", "c3"], "article_id"=>926061, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g002", "stats"=>{"downloads"=>1, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Changes_in_gene_expression_upon_3D_growth_of_C3_cells_/926061", "title"=>"Changes in gene expression upon 3D growth of C3 cells.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376071"], "description"=>"<p><b>A–I</b>. Results of RT-qPCR analysis of the indicated genes in C1 or C3 cells grown for 3 and 10 days in monolayer cluture or 10 days as fibrospheres (F1 and F2).</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "c1", "c3"], "article_id"=>926062, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g003", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparative_gene_expression_in_C1_and_C3_cells_/926062", "title"=>"Comparative gene expression in C1 and C3 cells.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376079"], "description"=>"<p><b>A</b>. Immunostaining of dense C3 MEFs for COL6A3. Two distinct fields are shown. COL6A3 is not homogeneously expressed, but strong expression is limited to the cells forming the 3D foci. B–C. Immunostaining of dense C3 cells expressing shRNAs directed against <i>Col6a3</i> demonstrating the specificity of the staining.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "col6a3", "mefs", "3d"], "article_id"=>926069, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g004", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Elevated_COL6A3_expression_in_MEFs_growing_as_3D_foci_/926069", "title"=>"Elevated COL6A3 expression in MEFs growing as 3D foci.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373294"], "description"=>"<p><b>A</b>. Phase contrast microscopy (20× magnification) of C3 cells grown as dense cultures for 3 days in presence or absence of ATRA. <b>B</b>. Phase contrast microscopy (12× magnification) of C3 cells in grown for 10 days as fibrospheres in presence or absence of ATRA. <b>C</b>–<b>D</b> Effect of ATRA on <i>Col6a3</i> expression in C3 and C1 cells grown for the indicated number of days in presence or absence of ATRA.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "induced", "c3"], "article_id"=>923721, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g007", "stats"=>{"downloads"=>2, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_ATRA_induced_changes_in_properties_of_C3_MEFs_/923721", "title"=>"ATRA induced changes in properties of C3 MEFs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373279"], "description"=>"<p><b>A</b>. Phase contrast microscopy (20× magnification) of C1 and C3 cells grown as dense cultures for 3 days. <b>B</b>. Growth of C1 and C3 cells after 10 days in soft agar. <b>C</b>. Phase contrast microscopy (12× magnification) of C1 cells or C3 cells in grown for 10 days under non-adherent conditions.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "c3"], "article_id"=>923706, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g001", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_3D_growth_of_C3_cells_/923706", "title"=>"3D growth of C3 cells.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373280"], "description"=>"<p><b>A–B</b> Venn diagrammes showing overlapping changes in gene expression upon growth as dense cultures or fibrospheres. <b>C–F</b>. Ontology analysis (<a href=\"http://david.abcc.ncifcrf.gov/\" target=\"_blank\">http://david.abcc.ncifcrf.gov/</a>) of the deregulated genes showing some relevant categories from the CC-FAT and BP FAT classifications. The number of genes and the associated <i>P</i> values for each category are indicated.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "3d", "c3"], "article_id"=>923707, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g002", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Changes_in_gene_expression_upon_3D_growth_of_C3_cells_/923707", "title"=>"Changes in gene expression upon 3D growth of C3 cells.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1373281"], "description"=>"<p><b>A–I</b>. Results of RT-qPCR analysis of the indicated genes in C1 or C3 cells grown for 3 and 10 days in monolayer cluture or 10 days as fibrospheres (F1 and F2).</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "c1", "c3"], "article_id"=>923708, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g003", "stats"=>{"downloads"=>4, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparative_gene_expression_in_C1_and_C3_cells_/923708", "title"=>"Comparative gene expression in C1 and C3 cells.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 02:51:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/1376091"], "description"=>"<p><b>A–C</b>. Results of RT-qPCR analysis of the indicated genes in C1 or C3 cells grown for 3 and 9–10 days in monolayer cluture, 10 days as fibrospheres (F1 and F2) or in C3 cells expressing the indicated shRNAs. <b>D</b> Phase contrast microscopy (20× magnification) of C3 cells grown in presence or absence of the indicated Wnt pathway inhibitors or expressing control shRNA and shRNA directed againt <i>Wnt9a</i>. <b>E</b>. Confocal microscopy sections through foci grown in the presence or absence of XAV939 showing that the nuclear β-catenin localisation seen in the control C3 cells is lost in presence of XAV939. <b>F</b>. Immunostaining for YAP1 and SOX2 in foci in presence or absence of XAV939.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "Cell physiology", "Biochemistry", "cytochemistry", "Extracellular matrix", "Extracellular matrix composition", "proteins", "Extracellular matrix proteins", "Molecular cell biology", "Signal transduction", "Signaling cascades", "Wnt signaling cascade", "Signaling in cellular processes", "Extracellular matrix signaling", "gene expression", "signalling", "3d"], "article_id"=>926079, "categories"=>["Biological Sciences"], "users"=>["Igor Martianov", "Emilie Cler", "Isabelle Duluc", "Serge Vicaire", "Muriel Philipps", "Jean-Noël Freund", "Irwin Davidson"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0087365.g006", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Wnt_signalling_is_required_for_3D_growth_/926079", "title"=>"Wnt signalling is required for 3D growth.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-02-03 07:54:41"}

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Relative Metric

{"start_date"=>"2014-01-01T00:00:00Z", "end_date"=>"2014-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences/Cell biology", "average_usage"=>[286]}, {"subject_area"=>"/Biology and life sciences/Genetics", "average_usage"=>[306, 482]}]}
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