Additional file 6: of Transcriptome signatures associated with meningioma progression

Identification of a Transcription Factor-microRNA-Gene Coregulation Network in Meningioma through a Bioinformatic Analysis

Juan Wang
Yan Liang
Hui Yang
Jian-Huang Wu

January 2020

Background. Meningioma is a prevalent type of brain tumor. However, the initiation and progression m...

Microarray Expression Data Identify DCC as a Candidate Gene for Early Meningioma Progression.

Hans-Juergen Schulten
Deema Hussein
Fatima Al-Adwani
Sajjad Karim
Jaudah Al-Maghrabi
Mona Al-Sharif
Awatif Jamal
Fahad Al-Ghamdi
Saleh S Baeesa
Mohammed Bangash
Adeel Chaudhary
Mohammed Al-Qahtani

January 2016

Meningiomas are the most common primary brain tumors bearing in a minority of cases an aggressive ph...

Additional file 6: of Proteomic analysis of Medulloblastoma reveals functional biology with translational potential

Samuel Rivero-Hinojosa (3563156)
Ling Lau (5350811)
Mojca Stampar (5350808)
Jerome Staal (5350805)
Huizhen Zhang (348064)
Heather Gordish-Dressman (54143)
Paul Northcott (286265)
Stefan Pfister (30190)
Michael Taylor (377027)
Kristy Brown (3174363)
Brian Rood (5350814)

June 2018

Table S3. Correlation between CNA and mRNA and Protein abundance. Column names legend. Gene: Gene na...

Additional file 5: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S4. List of significantly differentially expressed genes between all grade I and grade II-III ...

Additional file 3: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S2. List of significantly differentially expressed genes between all grade I and all grade II ...

Additional file 2: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S1. List of significantly differentially expressed genes between grade I NP and I P meningioma...

Additional file 4: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S3. List of significantly differentially expressed genes between all grade I and all grade III...

Additional file 1: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald O’Rourke (6652355)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Figure S1. Unsupervised clustering of the RNA-seq data obtained from grade-specific tumor samples on...

Additional file 3: Figure S2 of RNA sequencing of transcriptomes in human brain regions: protein-coding and non-coding RNAs, isoforms and alleles

Amy Webb (791450)
Audrey Papp (252886)
Amanda Curtis (3437192)
Leslie Newman (3437204)
Maciej Pietrzak (212740)
Michal Seweryn (791451)
Samuel Handelman (3437207)
Grzegorz Rempala (212741)
Daqing Wang (406452)
Erica Graziosa (3437201)
Rachel Tyndale (3437195)
Caryn Lerman (264866)
John Kelsoe (3437189)
Deborah Mash (3437198)
Wolfgang Sadee (179657)

November 2015

Visualization of the results of differential expression analysis for four pairs of brain regions wit...

Gene expression profiling of meningiomas: current status after a decade of microarray-based transcriptomic studies

Aarhus, Mads
Lund-Johansen, Morten
Knappskog, Per

January 2011

Purpose This article provides a review of the transcriptomic expression profiling studies that have ...

MOESM3 of In situ characterization of stem cells-like biomarkers in meningiomas

Hanin Alamir (5290733)
Mona Alomari (5290730)
Abdulla Salwati (5290736)
Mohamad Saka (83948)
Mohammed Bangash (2620858)
Saleh Baeesa (4265287)
Fahad Alghamdi (4265296)
Angel Carracedo (3123957)
Hans-Juergen Schulten (706046)
Adeel Chaudhary (2620876)
Adel Abuzenadah (3149340)
Deema Hussein (2620873)

May 2018

Additional file 3: Table S2. Differentially expressed cancer driver genes [66] in individual tumors ...

Additional file 5: of Unique RNA signature of different lesion types in the brain white matter in progressive multiple sclerosis

Maria Elkjaer (6637157)
Tobias Frisch (6637163)
Richard Reynolds (782370)
Tim Kacprowski (793348)
Mark Burton (489123)
Torben Kruse (849728)
Mads Thomassen (395200)
Jan Baumbach (14867)
Zsolt Illes (441094)

April 2019

Table S3. Predefined pathways present based on the differentially expressed genes in each lesion typ...

Additional file 8: of Unique RNA signature of different lesion types in the brain white matter in progressive multiple sclerosis

Maria Elkjaer (6637157)
Tobias Frisch (6637163)
Richard Reynolds (782370)
Tim Kacprowski (793348)
Mark Burton (489123)
Torben Kruse (849728)
Mads Thomassen (395200)
Jan Baumbach (14867)
Zsolt Illes (441094)

April 2019

Table S5. Top 10 up- and downregulated genes in lesion types vs control WM (PDF 262 kb

Additional file 1: Table S1. of Identification of expression patterns in the progression of disease stages by integration of transcriptomic data

Sara Aibar (3430913)
Maria Abaigar (3430910)
Francisco Campos-Laborie (3430919)
Jose SĂĄnchez-Santos (3430922)
Jesus Hernandez-Rivas (3430916)
Javier De Las Rivas (19407)

November 2016

Significant genes found in the patterns associated to the progression of MDS: A total set of 189 gen...

Additional file 2: Figure S1 of RNA sequencing of transcriptomes in human brain regions: protein-coding and non-coding RNAs, isoforms and alleles

Amy Webb (791450)
Audrey Papp (252886)
Amanda Curtis (3437192)
Leslie Newman (3437204)
Maciej Pietrzak (212740)
Michal Seweryn (791451)
Samuel Handelman (3437207)
Grzegorz Rempala (212741)
Daqing Wang (406452)
Erica Graziosa (3437201)
Rachel Tyndale (3437195)
Caryn Lerman (264866)
John Kelsoe (3437189)
Deborah Mash (3437198)
Wolfgang Sadee (179657)

November 2015

Average expression of invariable genes in 4 GTEx brains. Shows the variation of 200 invariable genes...

Identification of a Transcription Factor-microRNA-Gene Coregulation Network in Meningioma through a Bioinformatic Analysis

Juan Wang
Yan Liang
Hui Yang
Jian-Huang Wu

January 2020

Background. Meningioma is a prevalent type of brain tumor. However, the initiation and progression m...

Microarray Expression Data Identify DCC as a Candidate Gene for Early Meningioma Progression.

Hans-Juergen Schulten
Deema Hussein
Fatima Al-Adwani
Sajjad Karim
Jaudah Al-Maghrabi
Mona Al-Sharif
Awatif Jamal
Fahad Al-Ghamdi
Saleh S Baeesa
Mohammed Bangash
Adeel Chaudhary
Mohammed Al-Qahtani

January 2016

Meningiomas are the most common primary brain tumors bearing in a minority of cases an aggressive ph...

Additional file 6: of Proteomic analysis of Medulloblastoma reveals functional biology with translational potential

Samuel Rivero-Hinojosa (3563156)
Ling Lau (5350811)
Mojca Stampar (5350808)
Jerome Staal (5350805)
Huizhen Zhang (348064)
Heather Gordish-Dressman (54143)
Paul Northcott (286265)
Stefan Pfister (30190)
Michael Taylor (377027)
Kristy Brown (3174363)
Brian Rood (5350814)

June 2018

Table S3. Correlation between CNA and mRNA and Protein abundance. Column names legend. Gene: Gene na...

Additional file 5: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S4. List of significantly differentially expressed genes between all grade I and grade II-III ...

Additional file 3: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S2. List of significantly differentially expressed genes between all grade I and all grade II ...

Additional file 2: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S1. List of significantly differentially expressed genes between grade I NP and I P meningioma...

Additional file 4: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald OâRourke (6652346)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Table S3. List of significantly differentially expressed genes between all grade I and all grade III...

Additional file 1: of Transcriptome signatures associated with meningioma progression

Angela Viaene (6652328)
Bo Zhang (6559)
Maria Martinez-Lage (739900)
Chaomei Xiang (386859)
Umberto Tosi (4775712)
Jayesh Thawani (6652331)
Busra Gungor (6652334)
Yuankun Zhu (4259395)
Laura Roccograndi (6652337)
Logan Zhang (6652340)
Robert Bailey (2419264)
Phillip Storm (6652343)
Donald O’Rourke (6652355)
Adam Resnick (6652349)
M. Grady (6652352)
Nadia Dahmane (2162803)

April 2019

Figure S1. Unsupervised clustering of the RNA-seq data obtained from grade-specific tumor samples on...

Additional file 3: Figure S2 of RNA sequencing of transcriptomes in human brain regions: protein-coding and non-coding RNAs, isoforms and alleles

Amy Webb (791450)
Audrey Papp (252886)
Amanda Curtis (3437192)
Leslie Newman (3437204)
Maciej Pietrzak (212740)
Michal Seweryn (791451)
Samuel Handelman (3437207)
Grzegorz Rempala (212741)
Daqing Wang (406452)
Erica Graziosa (3437201)
Rachel Tyndale (3437195)
Caryn Lerman (264866)
John Kelsoe (3437189)
Deborah Mash (3437198)
Wolfgang Sadee (179657)

November 2015

Visualization of the results of differential expression analysis for four pairs of brain regions wit...

Gene expression profiling of meningiomas: current status after a decade of microarray-based transcriptomic studies

Aarhus, Mads
Lund-Johansen, Morten
Knappskog, Per

January 2011

Purpose This article provides a review of the transcriptomic expression profiling studies that have ...

MOESM3 of In situ characterization of stem cells-like biomarkers in meningiomas

Hanin Alamir (5290733)
Mona Alomari (5290730)
Abdulla Salwati (5290736)
Mohamad Saka (83948)
Mohammed Bangash (2620858)
Saleh Baeesa (4265287)
Fahad Alghamdi (4265296)
Angel Carracedo (3123957)
Hans-Juergen Schulten (706046)
Adeel Chaudhary (2620876)
Adel Abuzenadah (3149340)
Deema Hussein (2620873)

May 2018

Additional file 3: Table S2. Differentially expressed cancer driver genes [66] in individual tumors ...

Additional file 5: of Unique RNA signature of different lesion types in the brain white matter in progressive multiple sclerosis

Maria Elkjaer (6637157)
Tobias Frisch (6637163)
Richard Reynolds (782370)
Tim Kacprowski (793348)
Mark Burton (489123)
Torben Kruse (849728)
Mads Thomassen (395200)
Jan Baumbach (14867)
Zsolt Illes (441094)

April 2019

Table S3. Predefined pathways present based on the differentially expressed genes in each lesion typ...

Additional file 8: of Unique RNA signature of different lesion types in the brain white matter in progressive multiple sclerosis

Maria Elkjaer (6637157)
Tobias Frisch (6637163)
Richard Reynolds (782370)
Tim Kacprowski (793348)
Mark Burton (489123)
Torben Kruse (849728)
Mads Thomassen (395200)
Jan Baumbach (14867)
Zsolt Illes (441094)

April 2019

Table S5. Top 10 up- and downregulated genes in lesion types vs control WM (PDF 262 kb

Additional file 1: Table S1. of Identification of expression patterns in the progression of disease stages by integration of transcriptomic data

Sara Aibar (3430913)
Maria Abaigar (3430910)
Francisco Campos-Laborie (3430919)
Jose SĂĄnchez-Santos (3430922)
Jesus Hernandez-Rivas (3430916)
Javier De Las Rivas (19407)

November 2016

Significant genes found in the patterns associated to the progression of MDS: A total set of 189 gen...

Additional file 2: Figure S1 of RNA sequencing of transcriptomes in human brain regions: protein-coding and non-coding RNAs, isoforms and alleles

Amy Webb (791450)
Audrey Papp (252886)
Amanda Curtis (3437192)
Leslie Newman (3437204)
Maciej Pietrzak (212740)
Michal Seweryn (791451)
Samuel Handelman (3437207)
Grzegorz Rempala (212741)
Daqing Wang (406452)
Erica Graziosa (3437201)
Rachel Tyndale (3437195)
Caryn Lerman (264866)
John Kelsoe (3437189)
Deborah Mash (3437198)
Wolfgang Sadee (179657)

November 2015

Average expression of invariable genes in 4 GTEx brains. Shows the variation of 200 invariable genes...

Identification of a Transcription Factor-microRNA-Gene Coregulation Network in Meningioma through a Bioinformatic Analysis

Juan Wang
Yan Liang
Hui Yang
Jian-Huang Wu

January 2020

Background. Meningioma is a prevalent type of brain tumor. However, the initiation and progression m...

Microarray Expression Data Identify DCC as a Candidate Gene for Early Meningioma Progression.

Hans-Juergen Schulten
Deema Hussein
Fatima Al-Adwani
Sajjad Karim
Jaudah Al-Maghrabi
Mona Al-Sharif
Awatif Jamal
Fahad Al-Ghamdi
Saleh S Baeesa
Mohammed Bangash
Adeel Chaudhary
Mohammed Al-Qahtani

January 2016

Meningiomas are the most common primary brain tumors bearing in a minority of cases an aggressive ph...

Additional file 6: of Proteomic analysis of Medulloblastoma reveals functional biology with translational potential

Samuel Rivero-Hinojosa (3563156)
Ling Lau (5350811)
Mojca Stampar (5350808)
Jerome Staal (5350805)
Huizhen Zhang (348064)
Heather Gordish-Dressman (54143)
Paul Northcott (286265)
Stefan Pfister (30190)
Michael Taylor (377027)
Kristy Brown (3174363)
Brian Rood (5350814)

June 2018

Table S3. Correlation between CNA and mRNA and Protein abundance. Column names legend. Gene: Gene na...

Additional file 6: of Transcriptome signatures associated with meningioma progression

Abstract

Extracted data

Additional file 6: of Transcriptome signatures associated with meningioma progression

Abstract

Extracted data

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