Additional file 5: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns: A pilot study.

Carrera P
Di Resta C
Volonteri C
Castiglioni E
Bonfiglio S
Lazarevic D
Cittaro D
Stupka E
Ferrari M
Somaschini M
Boldrini, A.

January 2015

BACKGROUND: Bronchopulmonary dysplasia (BPD) is the most common chronic lung disease in infancy, aff...

Additional file 1: of Clinical exome sequencing for fetuses with ultrasound abnormalities and a suspected Mendelian disorder

Elizabeth Normand (5802743)
Alicia Braxton (5802746)
Salma Nassef (5802749)
Patricia Ward (5802752)
Francesco Vetrini (5802755)
Weimin He (1446958)
Vipulkumar Patel (4705879)
Chunjing Qu (5802758)
Lauren Westerfield (5802761)
Samantha Stover (5802764)
Avinash Dharmadhikari (5802767)
Donna Muzny (54293)
Richard Gibbs (144333)
Hongzheng Dai (223656)
Linyan Meng (502323)
Xia Wang (36364)
Rui Xiao (260235)
Pengfei Liu (136115)
Weimin Bi (162353)
Fan Xia (219575)
Magdalena Walkiewicz (4355383)
Ignatia Van den Veyver (158347)
Christine Eng (2633299)
Yaping Yang (292220)

September 2018

Figure S1. Comparison of proband versus trio exome workflows. Figure S2. Fetal sample types received...

Additional file 1: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

Silvana Pereyra (6534593)
Claudio Sosa (3531386)
Bernardo Bertoni (4279693)
Rossana Sapiro (4279699)

April 2019

Table S1. Primers used for quantitative PCR analysis. Sequences of the primers used for qRT-PCR. (XL...

Additional file 4: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S4. Significant canonical pathways represented by unique variants in âaffectedâ subjects. ...

Additional file 9: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S9. Significant canonical pathways represented by unique variants in âaffectedâ subjects f...

Additional file 10: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S10. Significant canonical pathways represented by unique variants in âunaffectedâ subject...

Additional file 7: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S7. Significant canonical pathways represented by locus-based (FFB-SKAT) association results. ...

Additional file 3: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S3. Significant canonical pathways represented by common variants associated with BPD. (DOCX 3...

Additional file 6: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S6. Top 50 Genes from locus-based (FFB-SKAT) Association Analysis (DOCX 16Â kb

Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas
Rui Feng
Yingtao Bi
Fan Wang
Soumyaroop Bhattacharya
Jared Mereness
Madhurima Kaushal
C Michael Cotten
Philip L Ballard
Thomas J Mariani
PROP Investigators

October 2018

Abstract Background Previous studies have identified genetic variants associated with bronchopulmona...

Additional file 5: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

Silvana Pereyra (6534593)
Claudio Sosa (3531386)
Bernardo Bertoni (4279693)
Rossana Sapiro (4279699)

April 2019

Table S4. a. Full list of differentially expressed genes (FDR 2) detected in the severe preterm vs....

Additional file 1: of Discovery of rare ancestry-specific variants in the fetal genome that confer risk of preterm premature rupture of membranes (PPROM) and preterm birth

Bhavi Modi (5825438)
Hardik Parikh (3489698)
Maria Teves (5825444)
Rewa Kulkarni (5825447)
Jiang Liyu (5825450)
Roberto Romero (19224)
Timothy York (3978086)
Jerome Strauss (5825453)

October 2018

Table S1. Primers used for METTL7B SNP genotyping. Primers used for genotyping rs115687886, rs138407...

Additional file 2: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

Silvana Pereyra (6534593)
Claudio Sosa (3531386)
Bernardo Bertoni (4279693)
Rossana Sapiro (4279699)

April 2019

Table S2. Clinical and demographics characteristics of 4 controls and 4 patients analyzed by RNA-seq...

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns: A pilot study

Carrera, Paola
Di Resta, Chiara
Volonteri, Chiara
Castiglioni, Emanuela
Bonfiglio, Silvia
Lazarevic, Dejan
Cittaro, Davide
Stupka, Elia
Ferrari, Maurizio
Somaschini, Marco
Magaldi, Rosario
Rinaldi, Matteo
Maffei, Gianfranco
Stronati, Mauro
Tzialla, Chryssoula
Borghesi, Alessandro
Tagliabue, Paolo
Fedeli, Tiziana
Citterio, Marco
Mosca, Fabio
Colnaghi, Mariarosa
Lavizzari, Anna
Agosti, Massimo
Francescato, Gaia
Pomero, Giulia
Dalmazzo, Cristina
Boldrini, Antonio
Scaramuzzo, Rosa
Bertino, Enrico
Borgione, Silvia
Martano, Claudio
Carnielli, Virgilio
Nobile, Stefano
Auriemma, Antonietta
Bellan, Cristina
Carrera, Giuseppe
Zambetti, Chiara
Pucello, Riccardo
Palatta, Sara

January 2015

Background: Bronchopulmonary dysplasia (BPD) is the most common chronic lung disease in infancy, aff...

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns : a pilot study

P. Carrera
C. Di Resta
C. Volonteri
E. Castiglioni
S. Bonfiglio
D. Lazarevic
D. Cittaro
E. Stupka
M. Ferrari
M. Somaschini

December 2015

Background: Bronchopulmonary dysplasia (BPD) is the most common chronic lung disease in infancy, aff...

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns: A pilot study.

Carrera P
Di Resta C
Volonteri C
Castiglioni E
Bonfiglio S
Lazarevic D
Cittaro D
Stupka E
Ferrari M
Somaschini M
Boldrini, A.

January 2015

BACKGROUND: Bronchopulmonary dysplasia (BPD) is the most common chronic lung disease in infancy, aff...

Additional file 1: of Clinical exome sequencing for fetuses with ultrasound abnormalities and a suspected Mendelian disorder

Elizabeth Normand (5802743)
Alicia Braxton (5802746)
Salma Nassef (5802749)
Patricia Ward (5802752)
Francesco Vetrini (5802755)
Weimin He (1446958)
Vipulkumar Patel (4705879)
Chunjing Qu (5802758)
Lauren Westerfield (5802761)
Samantha Stover (5802764)
Avinash Dharmadhikari (5802767)
Donna Muzny (54293)
Richard Gibbs (144333)
Hongzheng Dai (223656)
Linyan Meng (502323)
Xia Wang (36364)
Rui Xiao (260235)
Pengfei Liu (136115)
Weimin Bi (162353)
Fan Xia (219575)
Magdalena Walkiewicz (4355383)
Ignatia Van den Veyver (158347)
Christine Eng (2633299)
Yaping Yang (292220)

September 2018

Figure S1. Comparison of proband versus trio exome workflows. Figure S2. Fetal sample types received...

Additional file 1: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

Silvana Pereyra (6534593)
Claudio Sosa (3531386)
Bernardo Bertoni (4279693)
Rossana Sapiro (4279699)

April 2019

Table S1. Primers used for quantitative PCR analysis. Sequences of the primers used for qRT-PCR. (XL...

Additional file 4: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S4. Significant canonical pathways represented by unique variants in âaffectedâ subjects. ...

Additional file 9: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S9. Significant canonical pathways represented by unique variants in âaffectedâ subjects f...

Additional file 10: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S10. Significant canonical pathways represented by unique variants in âunaffectedâ subject...

Additional file 7: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S7. Significant canonical pathways represented by locus-based (FFB-SKAT) association results. ...

Additional file 3: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S3. Significant canonical pathways represented by common variants associated with BPD. (DOCX 3...

Additional file 6: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas (2312002)
Rui Feng (186408)
Yingtao Bi (208237)
Fan Wang (135182)
Soumyaroop Bhattacharya (11666)
Jared Mereness (5876531)
Madhurima Kaushal (5876534)
C Cotten (5876537)
Philip Ballard (5876540)
Thomas Mariani (4676728)

October 2018

Table S6. Top 50 Genes from locus-based (FFB-SKAT) Association Analysis (DOCX 16Â kb

Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Aaron Hamvas
Rui Feng
Yingtao Bi
Fan Wang
Soumyaroop Bhattacharya
Jared Mereness
Madhurima Kaushal
C Michael Cotten
Philip L Ballard
Thomas J Mariani
PROP Investigators

October 2018

Abstract Background Previous studies have identified genetic variants associated with bronchopulmona...

Additional file 5: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

Silvana Pereyra (6534593)
Claudio Sosa (3531386)
Bernardo Bertoni (4279693)
Rossana Sapiro (4279699)

April 2019

Table S4. a. Full list of differentially expressed genes (FDR 2) detected in the severe preterm vs....

Additional file 1: of Discovery of rare ancestry-specific variants in the fetal genome that confer risk of preterm premature rupture of membranes (PPROM) and preterm birth

Bhavi Modi (5825438)
Hardik Parikh (3489698)
Maria Teves (5825444)
Rewa Kulkarni (5825447)
Jiang Liyu (5825450)
Roberto Romero (19224)
Timothy York (3978086)
Jerome Strauss (5825453)

October 2018

Table S1. Primers used for METTL7B SNP genotyping. Primers used for genotyping rs115687886, rs138407...

Additional file 2: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

Silvana Pereyra (6534593)
Claudio Sosa (3531386)
Bernardo Bertoni (4279693)
Rossana Sapiro (4279699)

April 2019

Table S2. Clinical and demographics characteristics of 4 controls and 4 patients analyzed by RNA-seq...

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns: A pilot study

Carrera, Paola
Di Resta, Chiara
Volonteri, Chiara
Castiglioni, Emanuela
Bonfiglio, Silvia
Lazarevic, Dejan
Cittaro, Davide
Stupka, Elia
Ferrari, Maurizio
Somaschini, Marco
Magaldi, Rosario
Rinaldi, Matteo
Maffei, Gianfranco
Stronati, Mauro
Tzialla, Chryssoula
Borghesi, Alessandro
Tagliabue, Paolo
Fedeli, Tiziana
Citterio, Marco
Mosca, Fabio
Colnaghi, Mariarosa
Lavizzari, Anna
Agosti, Massimo
Francescato, Gaia
Pomero, Giulia
Dalmazzo, Cristina
Boldrini, Antonio
Scaramuzzo, Rosa
Bertino, Enrico
Borgione, Silvia
Martano, Claudio
Carnielli, Virgilio
Nobile, Stefano
Auriemma, Antonietta
Bellan, Cristina
Carrera, Giuseppe
Zambetti, Chiara
Pucello, Riccardo
Palatta, Sara

January 2015

Background: Bronchopulmonary dysplasia (BPD) is the most common chronic lung disease in infancy, aff...

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns : a pilot study

P. Carrera
C. Di Resta
C. Volonteri
E. Castiglioni
S. Bonfiglio
D. Lazarevic
D. Cittaro
E. Stupka
M. Ferrari
M. Somaschini

December 2015

Background: Bronchopulmonary dysplasia (BPD) is the most common chronic lung disease in infancy, aff...

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns: A pilot study.

Carrera P
Di Resta C
Volonteri C
Castiglioni E
Bonfiglio S
Lazarevic D
Cittaro D
Stupka E
Ferrari M
Somaschini M
Boldrini, A.

January 2015

BACKGROUND: Bronchopulmonary dysplasia (BPD) is the most common chronic lung disease in infancy, aff...

Additional file 1: of Clinical exome sequencing for fetuses with ultrasound abnormalities and a suspected Mendelian disorder

Elizabeth Normand (5802743)
Alicia Braxton (5802746)
Salma Nassef (5802749)
Patricia Ward (5802752)
Francesco Vetrini (5802755)
Weimin He (1446958)
Vipulkumar Patel (4705879)
Chunjing Qu (5802758)
Lauren Westerfield (5802761)
Samantha Stover (5802764)
Avinash Dharmadhikari (5802767)
Donna Muzny (54293)
Richard Gibbs (144333)
Hongzheng Dai (223656)
Linyan Meng (502323)
Xia Wang (36364)
Rui Xiao (260235)
Pengfei Liu (136115)
Weimin Bi (162353)
Fan Xia (219575)
Magdalena Walkiewicz (4355383)
Ignatia Van den Veyver (158347)
Christine Eng (2633299)
Yaping Yang (292220)

September 2018

Figure S1. Comparison of proband versus trio exome workflows. Figure S2. Fetal sample types received...

Additional file 1: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

Silvana Pereyra (6534593)
Claudio Sosa (3531386)
Bernardo Bertoni (4279693)
Rossana Sapiro (4279699)

April 2019

Table S1. Primers used for quantitative PCR analysis. Sequences of the primers used for qRT-PCR. (XL...

Additional file 5: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Abstract

Extracted data

Topics

Additional file 5: of Exome sequencing identifies gene variants and networks associated with extreme respiratory outcomes following preterm birth

Abstract

Extracted data

Topics

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