Additional file 6: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

Open link

Publication date

March 2019

DOI

10.6084/m9.figshare.7813103.v1

Abstract

Table S5. List of genes that were hypomethylated after CX-4945 incubation (FC<0.25) compared to controls. (XLSX 11 kb

Extracted data

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Data Protection

Additional file 6: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

Open link

Publication date

March 2019

DOI

10.6084/m9.figshare.7813103.v1

Abstract

Table S5. List of genes that were hypomethylated after CX-4945 incubation (FC<0.25) compared to controls. (XLSX 11 kb

Extracted data

Nataly Cruz-Rodriguez (3474320)
Alba Combita (3474341)
Leonardo Enciso (3474326)
Sandra Quijano (3474329)
Paula Pinzon (3474350)
Olga Lozano (3474332)
Juan Castillo (2003587)
Li Li (14993)
Jose BareĂąo (3474323)
Claudia Cardozo (3474344)
Julio Solano (3474347)
Maria Herrera (3474338)
Jennifer Cudris (3474335)
Jovanny Zabaleta (631135)

April 2016

Table S3. Complete list of signaling pathways dysregulated in patients who failed to complete remiss...

Additional file 7: of The epigenetically downregulated factor CYGB suppresses breast cancer through inhibition of glucose metabolism

Yixiao Feng (1754200)
Mingjun Wu (1807558)
Shuman Li (652613)
Xiaoqian He (5594474)
Jun Tang (32983)
Weiyan Peng (652612)
Beilei Zeng (5414132)
Chuxia Deng (401689)
Guosheng Ren (334816)
Tingxiu Xiang (334805)

December 2018

Figure S6. Ectopic HXK2 expression partially reversed CYGB’s effect on proliferation and apoptosis. ...

Additional file 4: of Effect of IKZF1 deletions on signal transduction pathways in Philadelphia chromosome negative pediatric B-cell precursor acute lymphoblastic leukemia (BCP-ALL)

Naomi van der Sligte (3484220)
Frank Scherpen (3432566)
Arja ter Elst (87560)
Victor Guryev (9901)
Frank van Leeuwen (3484217)
Eveline de Bont (3421859)

August 2015

Figure S2. Absolute phosphorylation intensities of 38 differentially phosphorylated peptides. Superv...

Additional file 7: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Table S6. List of genes that were hypomethylated after combined CX-4945 and DEC incubation (FC<0.25)...

Additional file 8: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Table S7. List of Biological processes regulated by CX-4945 incubation. (XLSX 15 kb

Additional file 9: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Figure S2. Genes and processes highly regulated by combined CX-4945 and DEC incubation. Hypomethylat...

Additional file 5: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Figure S1. Evaluation of CX-4945- and DEC-induced effects on global methylation in SEM and RS4;11 ce...

Additional file 2: of In vitro and in vivo single-agent efficacy of checkpoint kinase inhibition in acute lymphoblastic leukemia

Ilaria Iacobucci (148414)
Andrea Di RorĂ (3512690)
Maria Falzacappa (3512693)
Claudio Agostinelli (758334)
Enrico Derenzini (3471326)
Anna Ferrari (148439)
Cristina Papayannidis (148445)
Annalisa Lonetti (148423)
Simona Righi (196551)
Enrica Imbrogno (3471317)
Silvia Pomella (3512699)
Claudia Venturi (3512696)
Viviana Guadagnuolo (148482)
Federica Cattina (3512705)
Emanuela Ottaviani (148476)
Maria Abbenante (3512687)
Antonella Vitale (148463)
Loredana Elia (3512702)
Domenico Russo (3042681)
Pier Zinzani (3471323)
Stefano Pileri (813858)
Pier Pelicci (3419363)
Giovanni Martinelli (148520)

November 2015

Treatment resulted in a differential expression of 941 genes ( pâ <â0.05). (PDF 256 kb

Additional file 6: of Effect of IKZF1 deletions on signal transduction pathways in Philadelphia chromosome negative pediatric B-cell precursor acute lymphoblastic leukemia (BCP-ALL)

Naomi van der Sligte (3484220)
Frank Scherpen (3432566)
Arja ter Elst (87560)
Victor Guryev (9901)
Frank van Leeuwen (3484217)
Eveline de Bont (3421859)

August 2015

Table S4. List of proteins involved in important signaling pathways for BCP-ALL. Shown are proteins ...

Additional file 1: of Targeting WEE1 to enhance conventional therapies for acute lymphoblastic leukemia

Andrea Ghelli Luserna Di Rorà (5581550)
Neil Beeharry (154698)
Enrica Imbrogno (3471317)
Anna Ferrari (148439)
Valentina Robustelli (5581553)
Simona Righi (196551)
Elena Sabattini (5581556)
Maria Verga Falzacappa (5581562)
Chiara Ronchini (5581568)
Nicoletta Testoni (495238)
Carmen Baldazzi (5581577)
Cristina Papayannidis (148445)
Maria Abbenante (3512687)
Giovanni Marconi (5581580)
Stefania Paolini (196601)
Sarah Parisi (4334455)
Chiara Sartor (4334452)
Maria Fontana (5581583)
Serena De Matteis (5581586)
Ilaria Iacobucci (148414)
Pier Pelicci (3419363)
Michele Cavo (463532)
Timothy Yen (5581589)
Giovanni Martinelli (148520)

August 2018

Table S1. Patient’s characteristic of gene expression cohort. Table S2. Patient’s characteristic ex ...

Additional file 1: of DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia

Magnus Borssén (419233)
Jessica Nordlund (172693)
Zahra Haider (4913311)
Mattias Landfors (195135)
Pär Larsson (171191)
Jukka Kanerva (4913308)
Kjeld Schmiegelow (3633592)
Trond Flaegstad (4721907)
Ólafur Jónsson (4913305)
Britt-Marie Frost (4913299)
Josefine Palle (4913302)
Erik Forestier (419238)
Mats Heyman (4354924)
Magnus Hultdin (245971)
Gudmar Lönnerholm (172700)
Sofie Degerman (419239)

March 2018

Methods description, figures, and tables can be found at the Clinical Epigenetics webpage. (DOCX 282...

Additional file 5: of Long non-coding RNAs defining major subtypes of B cell precursor acute lymphoblastic leukemia

Alva Rani James (6206588)
Michael Schroeder (10133)
Martin Neumann (276593)
Lorenz Bastian (6206591)
Cornelia Eckert (6206594)
Nicola GĂśkbuget (4035542)
Jutta Tanchez (6206597)
Cornelia Schlee (105296)
Konstandina Isaakidis (6206600)
Stefan Schwartz (276600)
Thomas Burmeister (276604)
Arend Stackelberg (6206603)
Michael Rieger (590736)
Stefanie GĂśllner (6206609)
Martin Horstman (6206606)
Martin Schrappe (5413889)
Renate Kirschner-Schwabe (49606)
Monika BrĂźggemann (5840558)
Carsten MĂźller-Tidow (5817026)
Hubert Serve (106786)
Altuna Akalin (28028)
Claudia Baldus (3579098)

January 2019

Table S4. DNA methylation array dataset. The differentially methylated lncRNAs from three subtypes. ...

Additional file 2: of Effect of IKZF1 deletions on signal transduction pathways in Philadelphia chromosome negative pediatric B-cell precursor acute lymphoblastic leukemia (BCP-ALL)

Naomi van der Sligte (3484220)
Frank Scherpen (3432566)
Arja ter Elst (87560)
Victor Guryev (9901)
Frank van Leeuwen (3484217)
Eveline de Bont (3421859)

August 2015

Figure S1. Supplementary unsupervised hierarchical clustering. Kinase activity profiles of 45 pediat...

Nataly Cruz-Rodriguez (3474320)
Alba Combita (3474341)
Leonardo Enciso (3474326)
Sandra Quijano (3474329)
Paula Pinzon (3474350)
Olga Lozano (3474332)
Juan Castillo (2003587)
Li Li (14993)
Jose BareĂąo (3474323)
Claudia Cardozo (3474344)
Julio Solano (3474347)
Maria Herrera (3474338)
Jennifer Cudris (3474335)
Jovanny Zabaleta (631135)

April 2016

Table S3. Complete list of signaling pathways dysregulated in patients who failed to complete remiss...

Additional file 7: of The epigenetically downregulated factor CYGB suppresses breast cancer through inhibition of glucose metabolism

Yixiao Feng (1754200)
Mingjun Wu (1807558)
Shuman Li (652613)
Xiaoqian He (5594474)
Jun Tang (32983)
Weiyan Peng (652612)
Beilei Zeng (5414132)
Chuxia Deng (401689)
Guosheng Ren (334816)
Tingxiu Xiang (334805)

December 2018

Figure S6. Ectopic HXK2 expression partially reversed CYGB’s effect on proliferation and apoptosis. ...

Additional file 4: of Effect of IKZF1 deletions on signal transduction pathways in Philadelphia chromosome negative pediatric B-cell precursor acute lymphoblastic leukemia (BCP-ALL)

Naomi van der Sligte (3484220)
Frank Scherpen (3432566)
Arja ter Elst (87560)
Victor Guryev (9901)
Frank van Leeuwen (3484217)
Eveline de Bont (3421859)

August 2015

Figure S2. Absolute phosphorylation intensities of 38 differentially phosphorylated peptides. Superv...

Additional file 7: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Table S6. List of genes that were hypomethylated after combined CX-4945 and DEC incubation (FC<0.25)...

Additional file 8: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Table S7. List of Biological processes regulated by CX-4945 incubation. (XLSX 15 kb

Additional file 9: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Figure S2. Genes and processes highly regulated by combined CX-4945 and DEC incubation. Hypomethylat...

Additional file 5: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Anna Richter (6431501)
Catrin Roolf (6249917)
Mohamed Hamed (114597)
Yvonne Gladbach (5504516)
Sina Sender (6431504)
Christoph Konkolefski (6431507)
Gudrun KnĂźbel (6431510)
Anett Sekora (6431513)
Georg Fuellen (16022)
Brigitte Vollmar (22920)
Hugo Murua Escobar (50025)
Christian Junghanss (719129)

March 2019

Figure S1. Evaluation of CX-4945- and DEC-induced effects on global methylation in SEM and RS4;11 ce...

Additional file 2: of In vitro and in vivo single-agent efficacy of checkpoint kinase inhibition in acute lymphoblastic leukemia

Ilaria Iacobucci (148414)
Andrea Di RorĂ (3512690)
Maria Falzacappa (3512693)
Claudio Agostinelli (758334)
Enrico Derenzini (3471326)
Anna Ferrari (148439)
Cristina Papayannidis (148445)
Annalisa Lonetti (148423)
Simona Righi (196551)
Enrica Imbrogno (3471317)
Silvia Pomella (3512699)
Claudia Venturi (3512696)
Viviana Guadagnuolo (148482)
Federica Cattina (3512705)
Emanuela Ottaviani (148476)
Maria Abbenante (3512687)
Antonella Vitale (148463)
Loredana Elia (3512702)
Domenico Russo (3042681)
Pier Zinzani (3471323)
Stefano Pileri (813858)
Pier Pelicci (3419363)
Giovanni Martinelli (148520)

November 2015

Treatment resulted in a differential expression of 941 genes ( pâ <â0.05). (PDF 256 kb

Additional file 6: of Effect of IKZF1 deletions on signal transduction pathways in Philadelphia chromosome negative pediatric B-cell precursor acute lymphoblastic leukemia (BCP-ALL)

Naomi van der Sligte (3484220)
Frank Scherpen (3432566)
Arja ter Elst (87560)
Victor Guryev (9901)
Frank van Leeuwen (3484217)
Eveline de Bont (3421859)

August 2015

Table S4. List of proteins involved in important signaling pathways for BCP-ALL. Shown are proteins ...

Additional file 1: of Targeting WEE1 to enhance conventional therapies for acute lymphoblastic leukemia

Andrea Ghelli Luserna Di Rorà (5581550)
Neil Beeharry (154698)
Enrica Imbrogno (3471317)
Anna Ferrari (148439)
Valentina Robustelli (5581553)
Simona Righi (196551)
Elena Sabattini (5581556)
Maria Verga Falzacappa (5581562)
Chiara Ronchini (5581568)
Nicoletta Testoni (495238)
Carmen Baldazzi (5581577)
Cristina Papayannidis (148445)
Maria Abbenante (3512687)
Giovanni Marconi (5581580)
Stefania Paolini (196601)
Sarah Parisi (4334455)
Chiara Sartor (4334452)
Maria Fontana (5581583)
Serena De Matteis (5581586)
Ilaria Iacobucci (148414)
Pier Pelicci (3419363)
Michele Cavo (463532)
Timothy Yen (5581589)
Giovanni Martinelli (148520)

August 2018

Table S1. Patient’s characteristic of gene expression cohort. Table S2. Patient’s characteristic ex ...

Additional file 1: of DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia

Magnus Borssén (419233)
Jessica Nordlund (172693)
Zahra Haider (4913311)
Mattias Landfors (195135)
Pär Larsson (171191)
Jukka Kanerva (4913308)
Kjeld Schmiegelow (3633592)
Trond Flaegstad (4721907)
Ólafur Jónsson (4913305)
Britt-Marie Frost (4913299)
Josefine Palle (4913302)
Erik Forestier (419238)
Mats Heyman (4354924)
Magnus Hultdin (245971)
Gudmar Lönnerholm (172700)
Sofie Degerman (419239)

March 2018

Methods description, figures, and tables can be found at the Clinical Epigenetics webpage. (DOCX 282...

Additional file 5: of Long non-coding RNAs defining major subtypes of B cell precursor acute lymphoblastic leukemia

Alva Rani James (6206588)
Michael Schroeder (10133)
Martin Neumann (276593)
Lorenz Bastian (6206591)
Cornelia Eckert (6206594)
Nicola GĂśkbuget (4035542)
Jutta Tanchez (6206597)
Cornelia Schlee (105296)
Konstandina Isaakidis (6206600)
Stefan Schwartz (276600)
Thomas Burmeister (276604)
Arend Stackelberg (6206603)
Michael Rieger (590736)
Stefanie GĂśllner (6206609)
Martin Horstman (6206606)
Martin Schrappe (5413889)
Renate Kirschner-Schwabe (49606)
Monika BrĂźggemann (5840558)
Carsten MĂźller-Tidow (5817026)
Hubert Serve (106786)
Altuna Akalin (28028)
Claudia Baldus (3579098)

January 2019

Table S4. DNA methylation array dataset. The differentially methylated lncRNAs from three subtypes. ...

Additional file 2: of Effect of IKZF1 deletions on signal transduction pathways in Philadelphia chromosome negative pediatric B-cell precursor acute lymphoblastic leukemia (BCP-ALL)

Naomi van der Sligte (3484220)
Frank Scherpen (3432566)
Arja ter Elst (87560)
Victor Guryev (9901)
Frank van Leeuwen (3484217)
Eveline de Bont (3421859)

August 2015

Figure S1. Supplementary unsupervised hierarchical clustering. Kinase activity profiles of 45 pediat...

Nataly Cruz-Rodriguez (3474320)
Alba Combita (3474341)
Leonardo Enciso (3474326)
Sandra Quijano (3474329)
Paula Pinzon (3474350)
Olga Lozano (3474332)
Juan Castillo (2003587)
Li Li (14993)
Jose BareĂąo (3474323)
Claudia Cardozo (3474344)
Julio Solano (3474347)
Maria Herrera (3474338)
Jennifer Cudris (3474335)
Jovanny Zabaleta (631135)

April 2016

Table S3. Complete list of signaling pathways dysregulated in patients who failed to complete remiss...

Additional file 7: of The epigenetically downregulated factor CYGB suppresses breast cancer through inhibition of glucose metabolism

Yixiao Feng (1754200)
Mingjun Wu (1807558)
Shuman Li (652613)
Xiaoqian He (5594474)
Jun Tang (32983)
Weiyan Peng (652612)
Beilei Zeng (5414132)
Chuxia Deng (401689)
Guosheng Ren (334816)
Tingxiu Xiang (334805)

December 2018

Figure S6. Ectopic HXK2 expression partially reversed CYGB’s effect on proliferation and apoptosis. ...

Additional file 4: of Effect of IKZF1 deletions on signal transduction pathways in Philadelphia chromosome negative pediatric B-cell precursor acute lymphoblastic leukemia (BCP-ALL)

Naomi van der Sligte (3484220)
Frank Scherpen (3432566)
Arja ter Elst (87560)
Victor Guryev (9901)
Frank van Leeuwen (3484217)
Eveline de Bont (3421859)

August 2015

Figure S2. Absolute phosphorylation intensities of 38 differentially phosphorylated peptides. Superv...

Additional file 6: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Abstract

Extracted data

Additional file 6: of Combined Casein Kinase II inhibition and epigenetic modulation in acute B-lymphoblastic leukemia

Abstract

Extracted data

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