Additional file 4: of DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Trino, Stefania
Zoppoli, Pietro
Carella, Angelo Michele
Laurenzana, Ilaria
Weisz, Alessandro
Memoli, Domenico
Calice, Giovanni
La Rocca, Francesco
Simeon, Vittorio
Savino, Lucia
Del Vecchio, Luigi
Musto, Pellegrino
Caivano, Antonella
De Luca, Luciana

January 2019

Background: Allogeneic hematopoietic stem cell transplantation (AHSCT) is a curative therapeutic app...

DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Trino S
Zoppoli P
Carella AM
Laurenzana I
Weisz A
Memoli D
Calice G
La Rocca F
Simeon V
Savino L
Del Vecchio L
Musto P
Caivano A
De Luca L.

January 2019

Background: Allogeneic hematopoietic stem cell transplantation (AHSCT) is a curative therapeutic app...

Additional file 4: Table S4. of Genome-wide DNA methylation profile identified a unique set of differentially methylated immune genes in oral squamous cell carcinoma patients in India

Baidehi Basu (3717586)
Joyeeta Chakraborty (3717592)
Aditi Chandra (3717583)
Atul Katarkar (282856)
Jadav Baldevbhai (3717589)
Debjit Dhar Chowdhury (3717580)
Jay Ray (3717595)
Keya Chaudhuri (90539)
Raghunath Chatterjee (90538)

February 2017

Spreadsheet showing list of all unique differentially methylated probes. (XLSX 23 kb

Additional file 1: of DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Stefania Trino (6715898)
Pietro Zoppoli (184151)
Angelo Carella (6715901)
Ilaria Laurenzana (1528111)
Alessandro Weisz (90872)
Domenico Memoli (3440582)
Giovanni Calice (6715904)
Francesco La Rocca (6715907)
Vittorio Simeon (450157)
Lucia Savino (6715910)
Luigi Del Vecchio (266734)
Pellegrino Musto (1784020)
Antonella Caivano (332669)
Luciana De Luca (6715913)

May 2019

Figure S1. DNA methylation in the genomic region mapping on CD34 gene in donors (to) and in receivin...

Additional file 6: of A donor-specific epigenetic classifier for acute graft-versus-host disease severity in hematopoietic stem cell transplantation

Dirk Paul (3428945)
Allison Jones (184670)
Rob Sellar (3565928)
Neema Mayor (3565949)
Andrew Feber (3559562)
Amy Webster (3565940)
Neuza Afonso (3565946)
Ruhena Sergeant (273708)
Richard Szydlo (3565934)
Jane Apperley (3565931)
Martin Widschwendter (184711)
Stephen Mackinnon (510464)
Steven Marsh (3565937)
J. Madrigal (3565943)
Vardhman Rakyan (3191682)
Karl Peggs (594447)
Stephan Beck (5246)

December 2015

Box-and-whisker plots of DNA methylation values in graft donors in the discovery cohort assessed usi...

Additional file 4: of Tracking of epigenetic changes during hematopoietic differentiation of induced pluripotent stem cells

Olivia Cypris (6296426)
Joana Frobel (3509495)
Shivam Rai (6296429)
Julia Franzen (5118830)
Stephanie Sontag (416324)
Roman Goetzke (6296438)
Marcelo Szymanski de Toledo (6296444)
Martin Zenke (162192)
Wolfgang Wagner (47115)

February 2019

Figure S3. Comparison of differentially methylated CpG sites across different cell types. Heatmap of...

Additional file 5: of Tracking of epigenetic changes during hematopoietic differentiation of induced pluripotent stem cells

Olivia Cypris (6296426)
Joana Frobel (3509495)
Shivam Rai (6296429)
Julia Franzen (5118830)
Stephanie Sontag (416324)
Roman Goetzke (6296438)
Marcelo Szymanski de Toledo (6296444)
Martin Zenke (162192)
Wolfgang Wagner (47115)

February 2019

Table S2. Differentially methylated CpGs in iPSC-derived HPCs versus CD34+ cells. Promoter-associate...

Additional file 2: of Tracking of epigenetic changes during hematopoietic differentiation of induced pluripotent stem cells

Olivia Cypris (6296426)
Joana Frobel (3509495)
Shivam Rai (6296429)
Julia Franzen (5118830)
Stephanie Sontag (416324)
Roman Goetzke (6296438)
Marcelo Szymanski de Toledo (6296444)
Martin Zenke (162192)
Wolfgang Wagner (47115)

February 2019

Figure S2. Enrichment of hyper- and hypomethylated CpG sites in iPSC-derived HPCs. Changes in DNA me...

Additional file 2: of A donor-specific epigenetic classifier for acute graft-versus-host disease severity in hematopoietic stem cell transplantation

Dirk Paul (3428945)
Allison Jones (184670)
Rob Sellar (3565928)
Neema Mayor (3565949)
Andrew Feber (3559562)
Amy Webster (3565940)
Neuza Afonso (3565946)
Ruhena Sergeant (273708)
Richard Szydlo (3565934)
Jane Apperley (3565931)
Martin Widschwendter (184711)
Stephen Mackinnon (510464)
Steven Marsh (3565937)
J. Madrigal (3565943)
Vardhman Rakyan (3191682)
Karl Peggs (594447)
Stephan Beck (5246)

December 2015

Quality assessment of the Illumina Infinium HumanMethylation450 assay. The quality of the 450K array...

Additional file 1: of DNA methylation signatures of breast cancer in peripheral T-cells

Surabhi Parashar (5237711)
David Cheishvili (554749)
Niaz Mahmood (5237702)
Ani Arakelian (5237708)
Imrana Tanvir (5237717)
Haseeb Khan (5237705)
Richard Kremer (5237714)
Catalin Mihalcioiu (3994973)
Moshe Szyf (228712)
Shafaat Rabbani (5237720)

May 2018

Table S1. Clinical table of normal individuals and cancer patients. Table S2. Primer sequences. Tabl...

Additional file 5: of A donor-specific epigenetic classifier for acute graft-versus-host disease severity in hematopoietic stem cell transplantation

Dirk Paul (3428945)
Allison Jones (184670)
Rob Sellar (3565928)
Neema Mayor (3565949)
Andrew Feber (3559562)
Amy Webster (3565940)
Neuza Afonso (3565946)
Ruhena Sergeant (273708)
Richard Szydlo (3565934)
Jane Apperley (3565931)
Martin Widschwendter (184711)
Stephen Mackinnon (510464)
Steven Marsh (3565937)
J. Madrigal (3565943)
Vardhman Rakyan (3191682)
Karl Peggs (594447)
Stephan Beck (5246)

December 2015

Estimation of differential leukocyte counts. For each sample, the composition of major leukocyte cel...

Additional file 4: of DNA methylation patterns in peripheral blood mononuclear cells from Holstein cattle with variable milk yield

Chad Dechow (5849663)
Wan-Sheng Liu (200939)

October 2018

Table S4. Chromosome, start nucleotide, end nucleotide, length, summit, tags, Log P, and fold enrich...

Additional file 6: of IL-4 orchestrates STAT6-mediated DNA demethylation leading to dendritic cell differentiation

Roser Vento-Tormo (3403292)
Carlos Company (3403283)
Javier Rodríguez-Ubreva (3403310)
Lorenzo de la Rica (3403286)
José Urquiza (3403304)
Biola Javierre (3403295)
Radhakrishnan Sabarinathan (244382)
Ana Luque (86391)
Manel Esteller (74345)
Josep Aran (3403289)
Damiana Álvarez-Errico (3403307)
Esteban Ballestar (74333)

January 2016

Relationship between methylation and expression changes in MAC and DC differentiation. “Poised” gene...

Additional file 4: Table S4. of The signature of liver cancer in immune cells DNA methylation

Yonghong Zhang (20918)
Sophie Petropoulos (311622)
Jinhua Liu (189844)
David Cheishvili (554749)
Rudy Zhou (4780239)
Sergiy Dymov (703740)
Kang Li (107509)
Ning Li (45258)
Moshe Szyf (228712)

January 2018

Differentially methylated sites between Stage 3 HCC and healthy controls. (CSV 2002 kb

Additional file 1: of Decreased methylation in the SNAI2 and ADAM23 genes associated with de-differentiation and haematogenous dissemination in breast cancers

Lenka Kalinkova (5725769)
Iveta Zmetakova (5725772)
Bozena Smolkova (5725775)
Gabriel Minarik (2512540)
Tatiana Sedlackova (5725778)
Viera Horvathova Kajabova (5725781)
Zuzana Cierna (5725784)
Michal Mego (774807)
Ivana Fridrichova (5725787)

September 2018

DNA methylation levels in various types of samples from BC patients with different histological grad...

DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Trino, Stefania
Zoppoli, Pietro
Carella, Angelo Michele
Laurenzana, Ilaria
Weisz, Alessandro
Memoli, Domenico
Calice, Giovanni
La Rocca, Francesco
Simeon, Vittorio
Savino, Lucia
Del Vecchio, Luigi
Musto, Pellegrino
Caivano, Antonella
De Luca, Luciana

January 2019

Background: Allogeneic hematopoietic stem cell transplantation (AHSCT) is a curative therapeutic app...

DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Trino S
Zoppoli P
Carella AM
Laurenzana I
Weisz A
Memoli D
Calice G
La Rocca F
Simeon V
Savino L
Del Vecchio L
Musto P
Caivano A
De Luca L.

January 2019

Background: Allogeneic hematopoietic stem cell transplantation (AHSCT) is a curative therapeutic app...

Additional file 4: Table S4. of Genome-wide DNA methylation profile identified a unique set of differentially methylated immune genes in oral squamous cell carcinoma patients in India

Baidehi Basu (3717586)
Joyeeta Chakraborty (3717592)
Aditi Chandra (3717583)
Atul Katarkar (282856)
Jadav Baldevbhai (3717589)
Debjit Dhar Chowdhury (3717580)
Jay Ray (3717595)
Keya Chaudhuri (90539)
Raghunath Chatterjee (90538)

February 2017

Spreadsheet showing list of all unique differentially methylated probes. (XLSX 23 kb

Additional file 1: of DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Stefania Trino (6715898)
Pietro Zoppoli (184151)
Angelo Carella (6715901)
Ilaria Laurenzana (1528111)
Alessandro Weisz (90872)
Domenico Memoli (3440582)
Giovanni Calice (6715904)
Francesco La Rocca (6715907)
Vittorio Simeon (450157)
Lucia Savino (6715910)
Luigi Del Vecchio (266734)
Pellegrino Musto (1784020)
Antonella Caivano (332669)
Luciana De Luca (6715913)

May 2019

Figure S1. DNA methylation in the genomic region mapping on CD34 gene in donors (to) and in receivin...

Additional file 6: of A donor-specific epigenetic classifier for acute graft-versus-host disease severity in hematopoietic stem cell transplantation

Dirk Paul (3428945)
Allison Jones (184670)
Rob Sellar (3565928)
Neema Mayor (3565949)
Andrew Feber (3559562)
Amy Webster (3565940)
Neuza Afonso (3565946)
Ruhena Sergeant (273708)
Richard Szydlo (3565934)
Jane Apperley (3565931)
Martin Widschwendter (184711)
Stephen Mackinnon (510464)
Steven Marsh (3565937)
J. Madrigal (3565943)
Vardhman Rakyan (3191682)
Karl Peggs (594447)
Stephan Beck (5246)

December 2015

Box-and-whisker plots of DNA methylation values in graft donors in the discovery cohort assessed usi...

Additional file 4: of Tracking of epigenetic changes during hematopoietic differentiation of induced pluripotent stem cells

Olivia Cypris (6296426)
Joana Frobel (3509495)
Shivam Rai (6296429)
Julia Franzen (5118830)
Stephanie Sontag (416324)
Roman Goetzke (6296438)
Marcelo Szymanski de Toledo (6296444)
Martin Zenke (162192)
Wolfgang Wagner (47115)

February 2019

Figure S3. Comparison of differentially methylated CpG sites across different cell types. Heatmap of...

Additional file 5: of Tracking of epigenetic changes during hematopoietic differentiation of induced pluripotent stem cells

Olivia Cypris (6296426)
Joana Frobel (3509495)
Shivam Rai (6296429)
Julia Franzen (5118830)
Stephanie Sontag (416324)
Roman Goetzke (6296438)
Marcelo Szymanski de Toledo (6296444)
Martin Zenke (162192)
Wolfgang Wagner (47115)

February 2019

Table S2. Differentially methylated CpGs in iPSC-derived HPCs versus CD34+ cells. Promoter-associate...

Additional file 2: of Tracking of epigenetic changes during hematopoietic differentiation of induced pluripotent stem cells

Olivia Cypris (6296426)
Joana Frobel (3509495)
Shivam Rai (6296429)
Julia Franzen (5118830)
Stephanie Sontag (416324)
Roman Goetzke (6296438)
Marcelo Szymanski de Toledo (6296444)
Martin Zenke (162192)
Wolfgang Wagner (47115)

February 2019

Figure S2. Enrichment of hyper- and hypomethylated CpG sites in iPSC-derived HPCs. Changes in DNA me...

Additional file 2: of A donor-specific epigenetic classifier for acute graft-versus-host disease severity in hematopoietic stem cell transplantation

Dirk Paul (3428945)
Allison Jones (184670)
Rob Sellar (3565928)
Neema Mayor (3565949)
Andrew Feber (3559562)
Amy Webster (3565940)
Neuza Afonso (3565946)
Ruhena Sergeant (273708)
Richard Szydlo (3565934)
Jane Apperley (3565931)
Martin Widschwendter (184711)
Stephen Mackinnon (510464)
Steven Marsh (3565937)
J. Madrigal (3565943)
Vardhman Rakyan (3191682)
Karl Peggs (594447)
Stephan Beck (5246)

December 2015

Quality assessment of the Illumina Infinium HumanMethylation450 assay. The quality of the 450K array...

Additional file 1: of DNA methylation signatures of breast cancer in peripheral T-cells

Surabhi Parashar (5237711)
David Cheishvili (554749)
Niaz Mahmood (5237702)
Ani Arakelian (5237708)
Imrana Tanvir (5237717)
Haseeb Khan (5237705)
Richard Kremer (5237714)
Catalin Mihalcioiu (3994973)
Moshe Szyf (228712)
Shafaat Rabbani (5237720)

May 2018

Table S1. Clinical table of normal individuals and cancer patients. Table S2. Primer sequences. Tabl...

Additional file 5: of A donor-specific epigenetic classifier for acute graft-versus-host disease severity in hematopoietic stem cell transplantation

Dirk Paul (3428945)
Allison Jones (184670)
Rob Sellar (3565928)
Neema Mayor (3565949)
Andrew Feber (3559562)
Amy Webster (3565940)
Neuza Afonso (3565946)
Ruhena Sergeant (273708)
Richard Szydlo (3565934)
Jane Apperley (3565931)
Martin Widschwendter (184711)
Stephen Mackinnon (510464)
Steven Marsh (3565937)
J. Madrigal (3565943)
Vardhman Rakyan (3191682)
Karl Peggs (594447)
Stephan Beck (5246)

December 2015

Estimation of differential leukocyte counts. For each sample, the composition of major leukocyte cel...

Additional file 4: of DNA methylation patterns in peripheral blood mononuclear cells from Holstein cattle with variable milk yield

Chad Dechow (5849663)
Wan-Sheng Liu (200939)

October 2018

Table S4. Chromosome, start nucleotide, end nucleotide, length, summit, tags, Log P, and fold enrich...

Additional file 6: of IL-4 orchestrates STAT6-mediated DNA demethylation leading to dendritic cell differentiation

Roser Vento-Tormo (3403292)
Carlos Company (3403283)
Javier Rodríguez-Ubreva (3403310)
Lorenzo de la Rica (3403286)
José Urquiza (3403304)
Biola Javierre (3403295)
Radhakrishnan Sabarinathan (244382)
Ana Luque (86391)
Manel Esteller (74345)
Josep Aran (3403289)
Damiana Álvarez-Errico (3403307)
Esteban Ballestar (74333)

January 2016

Relationship between methylation and expression changes in MAC and DC differentiation. “Poised” gene...

Additional file 4: Table S4. of The signature of liver cancer in immune cells DNA methylation

Yonghong Zhang (20918)
Sophie Petropoulos (311622)
Jinhua Liu (189844)
David Cheishvili (554749)
Rudy Zhou (4780239)
Sergiy Dymov (703740)
Kang Li (107509)
Ning Li (45258)
Moshe Szyf (228712)

January 2018

Differentially methylated sites between Stage 3 HCC and healthy controls. (CSV 2002 kb

Additional file 1: of Decreased methylation in the SNAI2 and ADAM23 genes associated with de-differentiation and haematogenous dissemination in breast cancers

Lenka Kalinkova (5725769)
Iveta Zmetakova (5725772)
Bozena Smolkova (5725775)
Gabriel Minarik (2512540)
Tatiana Sedlackova (5725778)
Viera Horvathova Kajabova (5725781)
Zuzana Cierna (5725784)
Michal Mego (774807)
Ivana Fridrichova (5725787)

September 2018

DNA methylation levels in various types of samples from BC patients with different histological grad...

DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Trino, Stefania
Zoppoli, Pietro
Carella, Angelo Michele
Laurenzana, Ilaria
Weisz, Alessandro
Memoli, Domenico
Calice, Giovanni
La Rocca, Francesco
Simeon, Vittorio
Savino, Lucia
Del Vecchio, Luigi
Musto, Pellegrino
Caivano, Antonella
De Luca, Luciana

January 2019

Background: Allogeneic hematopoietic stem cell transplantation (AHSCT) is a curative therapeutic app...

DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Trino S
Zoppoli P
Carella AM
Laurenzana I
Weisz A
Memoli D
Calice G
La Rocca F
Simeon V
Savino L
Del Vecchio L
Musto P
Caivano A
De Luca L.

January 2019

Background: Allogeneic hematopoietic stem cell transplantation (AHSCT) is a curative therapeutic app...

Additional file 4: Table S4. of Genome-wide DNA methylation profile identified a unique set of differentially methylated immune genes in oral squamous cell carcinoma patients in India

Baidehi Basu (3717586)
Joyeeta Chakraborty (3717592)
Aditi Chandra (3717583)
Atul Katarkar (282856)
Jadav Baldevbhai (3717589)
Debjit Dhar Chowdhury (3717580)
Jay Ray (3717595)
Keya Chaudhuri (90539)
Raghunath Chatterjee (90538)

February 2017

Spreadsheet showing list of all unique differentially methylated probes. (XLSX 23 kb

Additional file 4: of DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Abstract

Extracted data

Additional file 4: of DNA methylation dynamic of bone marrow hematopoietic stem cells after allogeneic transplantation

Abstract

Extracted data

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