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

Additional file 3: 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 S3. Alignment statistics obtained by tophat2. Number of sequenced reads, total mapped reads an...

Additional file 6: of integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth

Haley Eidem (834575)
Jacob Steenwyk (3418568)
Jennifer Wisecaver (3514907)
John Capra (4254433)
Patrick Abbot (2755)
Antonis Rokas (140328)

November 2018

Top 10 genes from iR-num by study. Desirability scores for the top 10 most desirable genes are plott...

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 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 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 5: 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 S5. Significant canonical pathways represented by unique variants in âunaffectedâ subjects...

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 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...

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...

Additional file 4: 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

Figure S1. Differentially expressed genes. Venn diagram showing the number of differentially express...

Additional file 6: 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

Figure S2. Validation of overall gene expression. Log2-fold changes of six DE genes measured by RNA-...

Additional file 3: 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 S3. Alignment statistics obtained by tophat2. Number of sequenced reads, total mapped reads an...

Additional file 6: of integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth

Haley Eidem (834575)
Jacob Steenwyk (3418568)
Jennifer Wisecaver (3514907)
John Capra (4254433)
Patrick Abbot (2755)
Antonis Rokas (140328)

November 2018

Top 10 genes from iR-num by study. Desirability scores for the top 10 most desirable genes are plott...

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 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 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 5: 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 S5. Significant canonical pathways represented by unique variants in âunaffectedâ subjects...

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 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...

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...

Additional file 4: 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

Figure S1. Differentially expressed genes. Venn diagram showing the number of differentially express...

Additional file 6: 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

Figure S2. Validation of overall gene expression. Log2-fold changes of six DE genes measured by RNA-...

Additional file 3: 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 S3. Alignment statistics obtained by tophat2. Number of sequenced reads, total mapped reads an...

Additional file 6: of integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth

Haley Eidem (834575)
Jacob Steenwyk (3418568)
Jennifer Wisecaver (3514907)
John Capra (4254433)
Patrick Abbot (2755)
Antonis Rokas (140328)

November 2018

Top 10 genes from iR-num by study. Desirability scores for the top 10 most desirable genes are plott...

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

Abstract

Extracted data

Topics

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

Abstract

Extracted data

Topics

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