Additional file 7: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Additional file 6: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinson’s disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Figure S2. ΔCT values for the control, MSA-C, MSA-P, and PD groups in qPCR for patients aged between...

Additional file 4: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S4. Top 15 statistically significant GO processes relevant to the top 50 predicted target gene...

Additional file 2: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S2. Top 50 predicted target genes for each miRNA using miRmap. (DOCX 22 kb

Additional file 12: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S7. Differential expression analysis for mRNAs, mature miRNAs and piRNAs/piRNA-like molecules ...

Additional file 10: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S6. Differential expression analysis for piRNAs/piRNA-like molecues and mature miRNAs for the ...

Additional file 4: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S2. Differential expression analysis for mRNAs in fibroblasts, iPSCs/ESCs and neurons for the ...

Additional file 8: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S5. Differential expression analysis for piRNAs/piRNA-like molecules in fibroblasts, iPSCs/ESC...

Additional file 5: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S3. Gene set enrichment analysis in neurons for the comparison PD vs. CTRL (based on mRNA-RPKM...

Additional file 11: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Figure S5. Analysis of cell type abundance and marker genes in tissues. (TIF 524 kb

Additional file 14: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Figure S7. Immunohistochemical staining for methyl-cytosine in all eight control- and PD-patients. (...

Additional file 13: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Figure S6. Global statistics on RRBS and analysis of differential methylation. (TIF 351 kb

Additional file 1: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S1. Cohort statistics with details about age, gender and all other covariates used for differe...

Additional file 4: Table S4. of Biological networks in Parkinson’s disease: an insight into the epigenetic mechanisms associated with this disease

Paulami Chatterjee (545626)
Debjani Roy (545627)
Malay Bhattacharyya (425759)
Sanghamitra Bandyopadhyay (169021)

September 2017

List of lncRNAs associated with the PD-specific miRNAs with their binding type, transcript position,...

Additional file 1: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S1. miRNAs with significantly higher and lower expression compared to healthy controls in micr...

Additional file 5: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Figure S1. ÎCT values for the control, MSA-C, MSA-P, and PD groups in qPCR. qPCR analysis of miRNAs...

Additional file 6: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinson’s disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Figure S2. ΔCT values for the control, MSA-C, MSA-P, and PD groups in qPCR for patients aged between...

Additional file 4: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S4. Top 15 statistically significant GO processes relevant to the top 50 predicted target gene...

Additional file 2: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S2. Top 50 predicted target genes for each miRNA using miRmap. (DOCX 22 kb

Additional file 12: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S7. Differential expression analysis for mRNAs, mature miRNAs and piRNAs/piRNA-like molecules ...

Additional file 10: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S6. Differential expression analysis for piRNAs/piRNA-like molecues and mature miRNAs for the ...

Additional file 4: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S2. Differential expression analysis for mRNAs in fibroblasts, iPSCs/ESCs and neurons for the ...

Additional file 8: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S5. Differential expression analysis for piRNAs/piRNA-like molecules in fibroblasts, iPSCs/ESC...

Additional file 5: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S3. Gene set enrichment analysis in neurons for the comparison PD vs. CTRL (based on mRNA-RPKM...

Additional file 11: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Figure S5. Analysis of cell type abundance and marker genes in tissues. (TIF 524 kb

Additional file 14: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Figure S7. Immunohistochemical staining for methyl-cytosine in all eight control- and PD-patients. (...

Additional file 13: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Figure S6. Global statistics on RRBS and analysis of differential methylation. (TIF 351 kb

Additional file 1: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Markus Schulze (5173634)
Annika Sommer (3451856)
Sonja Plötz (5495657)
Michaela Farrell (5495660)
Beate Winner (602511)
Janina Grosch (5495654)
Jürgen Winkler (208179)
Markus Riemenschneider (5173637)

July 2018

Table S1. Cohort statistics with details about age, gender and all other covariates used for differe...

Additional file 4: Table S4. of Biological networks in Parkinson’s disease: an insight into the epigenetic mechanisms associated with this disease

Paulami Chatterjee (545626)
Debjani Roy (545627)
Malay Bhattacharyya (425759)
Sanghamitra Bandyopadhyay (169021)

September 2017

List of lncRNAs associated with the PD-specific miRNAs with their binding type, transcript position,...

Additional file 1: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S1. miRNAs with significantly higher and lower expression compared to healthy controls in micr...

Additional file 5: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Figure S1. ÎCT values for the control, MSA-C, MSA-P, and PD groups in qPCR. qPCR analysis of miRNAs...

Additional file 6: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinson’s disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Figure S2. ΔCT values for the control, MSA-C, MSA-P, and PD groups in qPCR for patients aged between...

Additional file 4: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S4. Top 15 statistically significant GO processes relevant to the top 50 predicted target gene...

Additional file 2: of Identification of plasma microRNA expression changes in multiple system atrophy and Parkinsonâs disease

Hisashi Uwatoko (6700709)
Yuka Hama (3483407)
Ikuko Iwata (6700712)
Shinichi Shirai (665893)
Masaaki Matsushima (3483395)
Ichiro Yabe (3483413)
Jun Utsumi (3483410)
Hidenao Sasaki (3483392)

May 2019

Table S2. Top 50 predicted target genes for each miRNA using miRmap. (DOCX 22 kb

Additional file 7: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Abstract

Extracted data

Additional file 7: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

Abstract

Extracted data

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