Additional file 1: of Profile of epigenetic mechanisms in lung tumors of patients with underlying chronic respiratory conditions

Mercè Mateu-Jimenez (4773339)
Víctor Curull (4773345)
Alberto Rodríguez-Fuster (698137)
Rafael Aguiló (698136)
Albert Sánchez-Font (4773348)
Lara Pijuan (4773342)
Joaquim Gea (596909)
Esther Barreiro (529300)

Publication date

January 2018

DOI

10.6084/m9.figshare.5793087.v1

Abstract

Detailed information on the methodologies used in the study as well as the immunoblot images of the analysed markers. (DOCX 1563 kb

Extracted data

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Additional file 1: of Profile of epigenetic mechanisms in lung tumors of patients with underlying chronic respiratory conditions

Mercè Mateu-Jimenez (4773339)
Víctor Curull (4773345)
Alberto Rodríguez-Fuster (698137)
Rafael Aguiló (698136)
Albert Sánchez-Font (4773348)
Lara Pijuan (4773342)
Joaquim Gea (596909)
Esther Barreiro (529300)

Open link

Publication date

January 2018

DOI

10.6084/m9.figshare.5793087.v1

Abstract

Detailed information on the methodologies used in the study as well as the immunoblot images of the analysed markers. (DOCX 1563 kb

Extracted data

Charles Birse (3420953)
Robert Lagier (3420938)
William FitzHugh (484022)
Harvey Pass (202310)
William Rom (2400067)
Eric Edell (3420962)
Aaron Bungum (3420959)
Fabien Maldonado (544207)
James Jett (3420956)
Mehdi Mesri (484015)
Erin Sult (3420947)
Elizabeth Joseloff (1342536)
Aiqun Li (289891)
Jenny Heidbrink (484017)
Gulshan Dhariwal (3420941)
Chad Danis (3420950)
Jennifer Tomic (3420965)
Robert Bruce (2019028)
Paul Moore (469661)
Tao He (23919)
Marcia Lewis (3420944)
Steve Ruben (484023)

July 2015

Demographics and clinical profiles for subjects selected for fresh tissue discovery study

Additional file 3: of A pan-cancer analysis of driver gene mutations, DNA methylation and gene expressions reveals that chromatin remodeling is a major mechanism inducing global changes in cancer epigenomes

Ahrim Youn (4606252)
Kyung In Kim (47502)
Raul Rabadan (88130)
Benjamin Tycko (237065)
Yufeng Shen (239573)
Shuang Wang (46453)

November 2018

Text S1. Details with some modified steps for identifying EDGs.; Results of MDGs in LGG; Results fro...

Additional file 1: of RNA-sequencing in non-small cell lung cancer shows gene downregulation of therapeutic targets in tumor tissue compared to non-malignant lung tissue

Kobe Reynders (5526461)
Els Wauters (101718)
Matthieu Moisse (659185)
Herbert DecaluwĂŠ (5526488)
Paul De Leyn (5526455)
StĂŠphanie Peeters (5526485)
Maarten Lambrecht (5526458)
Kristiaan Nackaerts (3210705)
Christophe Dooms (2938749)
Wim Janssens (101722)
Johan Vansteenkiste (5526467)
Diether Lambrechts (101772)
Dirk De Ruysscher (810406)

July 2018

Table S1. RNA-sequencing results for tumor tissue (a) or non-malignant lung tissue (b). Differential...

Additional file 1: of An epigenetic classifier for early stage lung cancer

Yun Su (289202)
Hong Fang (43040)
Feng Jiang (95012)

May 2018

Table S1. Twenty-nine genes displayed a higher level of methylation in sputum of lung cancer patient...

Additional file 3: of RNA-sequencing in non-small cell lung cancer shows gene downregulation of therapeutic targets in tumor tissue compared to non-malignant lung tissue

Kobe Reynders (5526461)
Els Wauters (101718)
Matthieu Moisse (659185)
Herbert DecaluwĂŠ (5526488)
Paul De Leyn (5526455)
StĂŠphanie Peeters (5526485)
Maarten Lambrecht (5526458)
Kristiaan Nackaerts (3210705)
Christophe Dooms (2938749)
Wim Janssens (101722)
Johan Vansteenkiste (5526467)
Diether Lambrechts (101772)
Dirk De Ruysscher (810406)

July 2018

Figure S1. Differential methylated sites. Representation of the amount of methylated sites per gene ...

Additional file 1: Table S1. of Integrating DNA methylation and microRNA biomarkers in sputum for lung cancer detection

Yun Su (289202)
HongBin Fang (3511388)
Feng Jiang (95012)

October 2016

Differential cell percentages of stage I non-small cell lung (NSCLC) patients and smokers with benig...

Additional file 3: Table S3. of Epigenetic modifying enzyme expression in asthmatic airway epithelial cells and fibroblasts

Dorota Stefanowicz (137378)
Jari Ullah (3703243)
Kevin Lee (96151)
Furquan Shaheen (152799)
Ekiomoado Olumese (3703246)
Nick Fishbane (517664)
Hyun-Kyoung Koo (3703240)
Teal Hallstrand (3703237)
Darryl Knight (217282)
Tillie-Louise Hackett (92016)

January 2017

Comparison of epigenetic modifier gene expression between epithelial cells and fibroblasts from heal...

Additional file 1 of Identification of key genes in chronic intermittent hypoxia-induced lung cancer progression based on transcriptome sequencing

Li-Da Chen (795021)
Li Lin (111038)
Ji-Zhi Chen (17744741)
Yang Song (88132)
Wei-Liang Zhang (9135642)
Huang-Yu Li (17744744)
Jia-Min Luo (17744747)
Xiao-Bin Zhang (673328)

January 2024

Additional file 1: Supplementary Figure 1. Summary of transcriptomic profiles. (A) The percentage of...

Additional file 1: Figures S1-S13. of DNA methylation profiling in peripheral lung tissues of smokers and patients with COPD

Isaac Sundar (3927785)
Qiangzong Yin (3927788)
Brian Baier (517434)
Li Yan (107001)
Witold Mazur (2118115)
Dongmei Li (176178)
Martha Susiarjo (23984)
Irfan Rahman (333928)

April 2017

Figure S1.Boxplot shows distribution of pre-processed DNA methylation level (Î˛ values) from all the...

Additional file 4: Table S4. of Epigenetic modifying enzyme expression in asthmatic airway epithelial cells and fibroblasts

Dorota Stefanowicz (137378)
Jari Ullah (3703243)
Kevin Lee (96151)
Furquan Shaheen (152799)
Ekiomoado Olumese (3703246)
Nick Fishbane (517664)
Hyun-Kyoung Koo (3703240)
Teal Hallstrand (3703237)
Darryl Knight (217282)
Tillie-Louise Hackett (92016)

January 2017

Comparison of epigenetic modifier gene expression between airway epithelial cells from asthmatic and...

Additional file 2: Table S1. of DNA methylation profiling in peripheral lung tissues of smokers and patients with COPD

Isaac Sundar (3927785)
Qiangzong Yin (3927788)
Brian Baier (517434)
Li Yan (107001)
Witold Mazur (2118115)
Dongmei Li (176178)
Martha Susiarjo (23984)
Irfan Rahman (333928)

April 2017

CpGs differentially methylated in lung DNA in relation to smokers vs. non-smokers (Pâ<â0.001). (...

Additional file 1: of Altered DNA methylation is associated with aberrant gene expression in parenchymal but not airway fibroblasts isolated from individuals with COPD

Rachel Clifford (4913317)
Nick Fishbane (517664)
Jamie Patel (4913314)
Julia MacIsaac (3575030)
Lisa McEwen (3968174)
Andrew Fisher (1673086)
Corry-Anke Brandsma (41865)
Parameswaran Nair (463763)
Michael Kobor (3470795)
Tillie-Louise Hackett (92016)
Alan Knox (456628)

March 2018

Table S1. (.MWD): DNA regions differentially methylated with COPD status in airway fibroblasts. Summ...

Additional file 3: Table S2. of DNA methylation profiling in peripheral lung tissues of smokers and patients with COPD

Isaac Sundar (3927785)
Qiangzong Yin (3927788)
Brian Baier (517434)
Li Yan (107001)
Witold Mazur (2118115)
Dongmei Li (176178)
Martha Susiarjo (23984)
Irfan Rahman (333928)

April 2017

CpGs differentially methylated in lung DNA in relation to COPD vs. non-smokers (Pâ<â0.001). (CSV...

Additional file 4: of From blood to lung tissue: effect of cigarette smoke on DNA methylation and lung function

Maaike de Vries (3193380)
Diana van der Plaat (5926982)
Ivana Nedeljkovic (5118377)
Rikst Verkaik-Schakel (5926991)
Wierd Kooistra (151978)
Najaf Amin (114329)
Cornelia van Duijn (160701)
Corry-Anke Brandsma (41865)
Cleo van Diemen (3172971)
Judith Vonk (3569540)
H Marike Boezen (80129)

November 2018

Overview results of the association between DNA methylation and smoking status in lung tissue. (DOCX...

Additional file 1: Table S1. of Blood-based lung cancer biomarkers identified through proteomic discovery in cancer tissues, cell lines and conditioned medium

Charles Birse (3420953)
Robert Lagier (3420938)
William FitzHugh (484022)
Harvey Pass (202310)
William Rom (2400067)
Eric Edell (3420962)
Aaron Bungum (3420959)
Fabien Maldonado (544207)
James Jett (3420956)
Mehdi Mesri (484015)
Erin Sult (3420947)
Elizabeth Joseloff (1342536)
Aiqun Li (289891)
Jenny Heidbrink (484017)
Gulshan Dhariwal (3420941)
Chad Danis (3420950)
Jennifer Tomic (3420965)
Robert Bruce (2019028)
Paul Moore (469661)
Tao He (23919)
Marcia Lewis (3420944)
Steve Ruben (484023)

July 2015

Demographics and clinical profiles for subjects selected for fresh tissue discovery study

Ahrim Youn (4606252)
Kyung In Kim (47502)
Raul Rabadan (88130)
Benjamin Tycko (237065)
Yufeng Shen (239573)
Shuang Wang (46453)

November 2018

Text S1. Details with some modified steps for identifying EDGs.; Results of MDGs in LGG; Results fro...

Additional file 1: of RNA-sequencing in non-small cell lung cancer shows gene downregulation of therapeutic targets in tumor tissue compared to non-malignant lung tissue

Kobe Reynders (5526461)
Els Wauters (101718)
Matthieu Moisse (659185)
Herbert DecaluwĂŠ (5526488)
Paul De Leyn (5526455)
StĂŠphanie Peeters (5526485)
Maarten Lambrecht (5526458)
Kristiaan Nackaerts (3210705)
Christophe Dooms (2938749)
Wim Janssens (101722)
Johan Vansteenkiste (5526467)
Diether Lambrechts (101772)
Dirk De Ruysscher (810406)

July 2018

Table S1. RNA-sequencing results for tumor tissue (a) or non-malignant lung tissue (b). Differential...

Additional file 3: of RNA-sequencing in non-small cell lung cancer shows gene downregulation of therapeutic targets in tumor tissue compared to non-malignant lung tissue

Kobe Reynders (5526461)
Els Wauters (101718)
Matthieu Moisse (659185)
Herbert DecaluwĂŠ (5526488)
Paul De Leyn (5526455)
StĂŠphanie Peeters (5526485)
Maarten Lambrecht (5526458)
Kristiaan Nackaerts (3210705)
Christophe Dooms (2938749)
Wim Janssens (101722)
Johan Vansteenkiste (5526467)
Diether Lambrechts (101772)
Dirk De Ruysscher (810406)

July 2018

Figure S1. Differential methylated sites. Representation of the amount of methylated sites per gene ...

Additional file 3: Table S3. of Epigenetic modifying enzyme expression in asthmatic airway epithelial cells and fibroblasts

Dorota Stefanowicz (137378)
Jari Ullah (3703243)
Kevin Lee (96151)
Furquan Shaheen (152799)
Ekiomoado Olumese (3703246)
Nick Fishbane (517664)
Hyun-Kyoung Koo (3703240)
Teal Hallstrand (3703237)
Darryl Knight (217282)
Tillie-Louise Hackett (92016)

January 2017

Comparison of epigenetic modifier gene expression between epithelial cells and fibroblasts from heal...

Additional file 1 of Identification of key genes in chronic intermittent hypoxia-induced lung cancer progression based on transcriptome sequencing

Li-Da Chen (795021)
Li Lin (111038)
Ji-Zhi Chen (17744741)
Yang Song (88132)
Wei-Liang Zhang (9135642)
Huang-Yu Li (17744744)
Jia-Min Luo (17744747)
Xiao-Bin Zhang (673328)

January 2024

Additional file 1: Supplementary Figure 1. Summary of transcriptomic profiles. (A) The percentage of...

Additional file 1: Figures S1-S13. of DNA methylation profiling in peripheral lung tissues of smokers and patients with COPD

Isaac Sundar (3927785)
Qiangzong Yin (3927788)
Brian Baier (517434)
Li Yan (107001)
Witold Mazur (2118115)
Dongmei Li (176178)
Martha Susiarjo (23984)
Irfan Rahman (333928)

April 2017

Figure S1.Boxplot shows distribution of pre-processed DNA methylation level (Î˛ values) from all the...

Additional file 4: Table S4. of Epigenetic modifying enzyme expression in asthmatic airway epithelial cells and fibroblasts

Dorota Stefanowicz (137378)
Jari Ullah (3703243)
Kevin Lee (96151)
Furquan Shaheen (152799)
Ekiomoado Olumese (3703246)
Nick Fishbane (517664)
Hyun-Kyoung Koo (3703240)
Teal Hallstrand (3703237)
Darryl Knight (217282)
Tillie-Louise Hackett (92016)

January 2017

Comparison of epigenetic modifier gene expression between airway epithelial cells from asthmatic and...

Additional file 2: Table S1. of DNA methylation profiling in peripheral lung tissues of smokers and patients with COPD

Isaac Sundar (3927785)
Qiangzong Yin (3927788)
Brian Baier (517434)
Li Yan (107001)
Witold Mazur (2118115)
Dongmei Li (176178)
Martha Susiarjo (23984)
Irfan Rahman (333928)

April 2017

CpGs differentially methylated in lung DNA in relation to smokers vs. non-smokers (Pâ<â0.001). (...

Additional file 1: of Altered DNA methylation is associated with aberrant gene expression in parenchymal but not airway fibroblasts isolated from individuals with COPD

Rachel Clifford (4913317)
Nick Fishbane (517664)
Jamie Patel (4913314)
Julia MacIsaac (3575030)
Lisa McEwen (3968174)
Andrew Fisher (1673086)
Corry-Anke Brandsma (41865)
Parameswaran Nair (463763)
Michael Kobor (3470795)
Tillie-Louise Hackett (92016)
Alan Knox (456628)

March 2018

Table S1. (.MWD): DNA regions differentially methylated with COPD status in airway fibroblasts. Summ...

Additional file 3: Table S2. of DNA methylation profiling in peripheral lung tissues of smokers and patients with COPD

Isaac Sundar (3927785)
Qiangzong Yin (3927788)
Brian Baier (517434)
Li Yan (107001)
Witold Mazur (2118115)
Dongmei Li (176178)
Martha Susiarjo (23984)
Irfan Rahman (333928)

April 2017

CpGs differentially methylated in lung DNA in relation to COPD vs. non-smokers (Pâ<â0.001). (CSV...

Additional file 4: of From blood to lung tissue: effect of cigarette smoke on DNA methylation and lung function

Maaike de Vries (3193380)
Diana van der Plaat (5926982)
Ivana Nedeljkovic (5118377)
Rikst Verkaik-Schakel (5926991)
Wierd Kooistra (151978)
Najaf Amin (114329)
Cornelia van Duijn (160701)
Corry-Anke Brandsma (41865)
Cleo van Diemen (3172971)
Judith Vonk (3569540)
H Marike Boezen (80129)

November 2018

Overview results of the association between DNA methylation and smoking status in lung tissue. (DOCX...

Additional file 1: Table S1. of Blood-based lung cancer biomarkers identified through proteomic discovery in cancer tissues, cell lines and conditioned medium

Charles Birse (3420953)
Robert Lagier (3420938)
William FitzHugh (484022)
Harvey Pass (202310)
William Rom (2400067)
Eric Edell (3420962)
Aaron Bungum (3420959)
Fabien Maldonado (544207)
James Jett (3420956)
Mehdi Mesri (484015)
Erin Sult (3420947)
Elizabeth Joseloff (1342536)
Aiqun Li (289891)
Jenny Heidbrink (484017)
Gulshan Dhariwal (3420941)
Chad Danis (3420950)
Jennifer Tomic (3420965)
Robert Bruce (2019028)
Paul Moore (469661)
Tao He (23919)
Marcia Lewis (3420944)
Steve Ruben (484023)

July 2015

Demographics and clinical profiles for subjects selected for fresh tissue discovery study

Ahrim Youn (4606252)
Kyung In Kim (47502)
Raul Rabadan (88130)
Benjamin Tycko (237065)
Yufeng Shen (239573)
Shuang Wang (46453)

November 2018

Text S1. Details with some modified steps for identifying EDGs.; Results of MDGs in LGG; Results fro...

Additional file 1: of RNA-sequencing in non-small cell lung cancer shows gene downregulation of therapeutic targets in tumor tissue compared to non-malignant lung tissue

Kobe Reynders (5526461)
Els Wauters (101718)
Matthieu Moisse (659185)
Herbert DecaluwĂŠ (5526488)
Paul De Leyn (5526455)
StĂŠphanie Peeters (5526485)
Maarten Lambrecht (5526458)
Kristiaan Nackaerts (3210705)
Christophe Dooms (2938749)
Wim Janssens (101722)
Johan Vansteenkiste (5526467)
Diether Lambrechts (101772)
Dirk De Ruysscher (810406)

July 2018

Table S1. RNA-sequencing results for tumor tissue (a) or non-malignant lung tissue (b). Differential...

Additional file 1: of Profile of epigenetic mechanisms in lung tumors of patients with underlying chronic respiratory conditions

Abstract

Extracted data

Additional file 1: of Profile of epigenetic mechanisms in lung tumors of patients with underlying chronic respiratory conditions

Abstract

Extracted data

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