Additional file 2: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

Publication date

December 2015

DOI

10.6084/m9.figshare.c.3642623_d4.v1

Abstract

Annotation of the regulated genes. This list of probes corresponds to the differential probes from the linear mixed model, the pairwise analysis and the discriminating analysis. From this list, 1,394 probes were localized on porcine chromosomes (XLSX 650Â kb

Extracted data

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Data Protection

Additional file 2: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

Open link

Publication date

December 2015

DOI

10.6084/m9.figshare.c.3642623_d4.v1

Abstract

Extracted data

Rayner González-Prendes (4349755)
Raquel Quintanilla (168993)
Emilio Mármol-Sánchez (4349752)
Ramona Pena (6423104)
Maria Ballester (103767)
Tainã Cardoso (3585575)
Arianna Manunza (383157)
Joaquim Casellas (94879)
Ángela Cánovas (3391583)
Isabel Díaz (2698609)
José Noguera (6423107)
Anna Castelló (277282)
Anna Mercadé (383164)
Marcel Amills (168991)

March 2019

Figure S1. Genetic Power Calculator plots showing the power of the GWAS analysis (x-axis) for a popu...

Additional file 2: of RNA-seq of muscle from pigs divergent in feed efficiency and product quality identifies differences in immune response, growth, and macronutrient and connective tissue metabolism

Justyna Horodyska (4102438)
Klaus Wimmers (82199)
Henry Reyer (137619)
Nares Trakooljul (723346)
Anne Mullen (5922770)
Peadar Lawlor (2820613)
Ruth Hamill (5922773)

November 2018

Table S2. Biological functions significantly enriched with differentially expressed genes, including...

Additional file 1: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-José Mercat (211636)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

1,859 genes were identified to be differentially expressed between five breeds according to statisti...

Additional file 3: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

Differentially expressed genes on autosomes. Only probes with an alignment on the porcine genome Ssc...

Additional file 5: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

228 spots (171 unique genes) allow the discrimination between the five lines. These genes were ident...

Additional file 6: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

EASE systematic functional annotation for the 683 unique differentially expressed genes. Detailed fu...

Additional file 4: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-José Mercat (211636)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

70 pathways enriched to explain the biologically diversity of five pig breeds. These pathways have b...

Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

San Cristobal, Magali
Rohart, Florian
Lascor, Christine
Bouffaud, Marcel
Trouilh, Lidwine
Martin, Pascal G.P.
Lippi, Yannick
Tribout, Thierry
Faraut, Thomas
Mercat, Marie-Jose
Milan, Denis
Liaubet, Laurence

January 2015

Notice a Reprendre pas de CLE UT au 17/12/2015Among transcriptomic studies, those comparing species ...

Additional file 10: of Transcriptome-wide N 6 -methyladenosine methylome profiling of porcine muscle and adipose tissues reveals a potential mechanism for transcriptional regulation and differential methylation pattern

Xuelian Tao (18829)
Jianning Chen (3988352)
Yanzhi Jiang (785400)
Yingying Wei (823249)
Yan Chen (4308)
Huaming Xu (3988355)
Li Zhu (67404)
Guoqing Tang (785399)
Mingzhou Li (112100)
Anan Jiang (3988364)
Surong Shuai (112098)
Lin Bai (338207)
Haifeng Liu (117312)
Jideng Ma (112091)
Long Jin (112089)
Anxiang Wen (3988361)
Qin Wang (109812)
Guangxiang Zhu (3988358)
Meng Xie (501184)
Jiayun Wu (643690)
Tao He (23919)
Chunyu Huang (469230)
Xiang Gao (4077)
Xuewei Li (112102)

April 2017

data 8. Go analysis of breed-specific and -dynamic genes among three breeds. (XLS 2825Â kb

Additional file 2: of Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles

Rayner González-Prendes (4349755)
Raquel Quintanilla (168993)
Emilio Mármol-Sánchez (4349752)
Ramona Pena (6423104)
Maria Ballester (103767)
Tainã Cardoso (3585575)
Arianna Manunza (383157)
Joaquim Casellas (94879)
Ángela Cánovas (3391583)
Isabel Díaz (2698609)
José Noguera (6423107)
Anna Castelló (277282)
Anna Mercadé (383164)
Marcel Amills (168991)

March 2019

Table S2. Pathway Enrichment for genes differentially expressed between the gluteus medius and longi...

Additional file 2: of Genetic control of longissimus dorsi muscle gene expression variation and joint analysis with phenotypic quantitative trait loci in pigs

Deborah Velez-Irizarry (6173753)
Sebastian Casiro (6173756)
Kaitlyn Daza (6173759)
Ronald Bates (6173762)
Nancy Raney (6173765)
Juan Steibel (6173768)
Catherine Ernst (5766908)

January 2019

Figure S1. Manhattan plots illustrating classification of different types of gene expression regulat...

Additional file 1: of Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles

Rayner González-Prendes (4349755)
Raquel Quintanilla (168993)
Emilio Mármol-Sánchez (4349752)
Ramona Pena (6423104)
Maria Ballester (103767)
Tainã Cardoso (3585575)
Arianna Manunza (383157)
Joaquim Casellas (94879)
Ángela Cánovas (3391583)
Isabel Díaz (2698609)
José Noguera (6423107)
Anna Castelló (277282)
Anna Mercadé (383164)
Marcel Amills (168991)

March 2019

Table S1. List of genes differentially expressed between the gluteus medius and longissimus dorsi mu...

Additional file 1: of A porcine gluteus medius muscle genome-wide transcriptome analysis: dietary effects of omega-6 and omega-3 fatty acids on biological mechanisms

Magdalena Ogłuszka (3440390)
Agnieszka Szostak (3110271)
Marinus te Pas (3440378)
Ewa Poławska (3440381)
Paweł Urbański (3440387)
Tadeusz Blicharski (3440384)
Chandra Pareek (3440372)
Edyta Juszczuk-Kubiak (3440375)
Jenelle Dunkelberger (3440393)
Jarosław Horbańczuk (3110307)
Mariusz Pierzchała (3110292)

January 2017

Heatmap of global expression levels of mRNA in the muscle of pigs from control group (M-high) and pi...

Additional file 3: of Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles

Rayner González-Prendes (4349755)
Raquel Quintanilla (168993)
Emilio Mármol-Sánchez (4349752)
Ramona Pena (6423104)
Maria Ballester (103767)
Tainã Cardoso (3585575)
Arianna Manunza (383157)
Joaquim Casellas (94879)
Ángela Cánovas (3391583)
Isabel Díaz (2698609)
José Noguera (6423107)
Anna Castelló (277282)
Anna Mercadé (383164)
Marcel Amills (168991)

March 2019

Figure S1. Genetic Power Calculator plots showing the power of the GWAS analysis (x-axis) for a popu...

Justyna Horodyska (4102438)
Klaus Wimmers (82199)
Henry Reyer (137619)
Nares Trakooljul (723346)
Anne Mullen (5922770)
Peadar Lawlor (2820613)
Ruth Hamill (5922773)

November 2018

Table S2. Biological functions significantly enriched with differentially expressed genes, including...

Additional file 1: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-José Mercat (211636)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

1,859 genes were identified to be differentially expressed between five breeds according to statisti...

Additional file 3: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

Differentially expressed genes on autosomes. Only probes with an alignment on the porcine genome Ssc...

Additional file 5: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

228 spots (171 unique genes) allow the discrimination between the five lines. These genes were ident...

Additional file 6: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-JosĂŠ Mercat (3574301)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

EASE systematic functional annotation for the 683 unique differentially expressed genes. Detailed fu...

Additional file 4: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali SanCristobal (90102)
Florian Rohart (3574298)
Christine Lascor (3574286)
Marcel Bouffaud (211633)
Lidwine Trouilh (3432383)
Pascal G.P. Martin (3574292)
Yannick Lippi (3459740)
Thierry Tribout (3574295)
Thomas Faraut (3574289)
Marie-José Mercat (211636)
Denis Milan (45336)
Laurence Liaubet (90101)

December 2015

70 pathways enriched to explain the biologically diversity of five pig breeds. These pathways have b...

Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

San Cristobal, Magali
Rohart, Florian
Lascor, Christine
Bouffaud, Marcel
Trouilh, Lidwine
Martin, Pascal G.P.
Lippi, Yannick
Tribout, Thierry
Faraut, Thomas
Mercat, Marie-Jose
Milan, Denis
Liaubet, Laurence

January 2015

Notice a Reprendre pas de CLE UT au 17/12/2015Among transcriptomic studies, those comparing species ...

Xuelian Tao (18829)
Jianning Chen (3988352)
Yanzhi Jiang (785400)
Yingying Wei (823249)
Yan Chen (4308)
Huaming Xu (3988355)
Li Zhu (67404)
Guoqing Tang (785399)
Mingzhou Li (112100)
Anan Jiang (3988364)
Surong Shuai (112098)
Lin Bai (338207)
Haifeng Liu (117312)
Jideng Ma (112091)
Long Jin (112089)
Anxiang Wen (3988361)
Qin Wang (109812)
Guangxiang Zhu (3988358)
Meng Xie (501184)
Jiayun Wu (643690)
Tao He (23919)
Chunyu Huang (469230)
Xiang Gao (4077)
Xuewei Li (112102)

April 2017

data 8. Go analysis of breed-specific and -dynamic genes among three breeds. (XLS 2825Â kb

Additional file 2: of Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles

Rayner González-Prendes (4349755)
Raquel Quintanilla (168993)
Emilio Mármol-Sánchez (4349752)
Ramona Pena (6423104)
Maria Ballester (103767)
Tainã Cardoso (3585575)
Arianna Manunza (383157)
Joaquim Casellas (94879)
Ángela Cánovas (3391583)
Isabel Díaz (2698609)
José Noguera (6423107)
Anna Castelló (277282)
Anna Mercadé (383164)
Marcel Amills (168991)

March 2019

Table S2. Pathway Enrichment for genes differentially expressed between the gluteus medius and longi...

Additional file 2: of Genetic control of longissimus dorsi muscle gene expression variation and joint analysis with phenotypic quantitative trait loci in pigs

Deborah Velez-Irizarry (6173753)
Sebastian Casiro (6173756)
Kaitlyn Daza (6173759)
Ronald Bates (6173762)
Nancy Raney (6173765)
Juan Steibel (6173768)
Catherine Ernst (5766908)

January 2019

Figure S1. Manhattan plots illustrating classification of different types of gene expression regulat...

Additional file 1: of Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles

Rayner González-Prendes (4349755)
Raquel Quintanilla (168993)
Emilio Mármol-Sánchez (4349752)
Ramona Pena (6423104)
Maria Ballester (103767)
Tainã Cardoso (3585575)
Arianna Manunza (383157)
Joaquim Casellas (94879)
Ángela Cánovas (3391583)
Isabel Díaz (2698609)
José Noguera (6423107)
Anna Castelló (277282)
Anna Mercadé (383164)
Marcel Amills (168991)

March 2019

Table S1. List of genes differentially expressed between the gluteus medius and longissimus dorsi mu...

Additional file 1: of A porcine gluteus medius muscle genome-wide transcriptome analysis: dietary effects of omega-6 and omega-3 fatty acids on biological mechanisms

Magdalena Ogłuszka (3440390)
Agnieszka Szostak (3110271)
Marinus te Pas (3440378)
Ewa Poławska (3440381)
Paweł Urbański (3440387)
Tadeusz Blicharski (3440384)
Chandra Pareek (3440372)
Edyta Juszczuk-Kubiak (3440375)
Jenelle Dunkelberger (3440393)
Jarosław Horbańczuk (3110307)
Mariusz Pierzchała (3110292)

January 2017

Heatmap of global expression levels of mRNA in the muscle of pigs from control group (M-high) and pi...

Additional file 3: of Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles

Rayner González-Prendes (4349755)
Raquel Quintanilla (168993)
Emilio Mármol-Sánchez (4349752)
Ramona Pena (6423104)
Maria Ballester (103767)
Tainã Cardoso (3585575)
Arianna Manunza (383157)
Joaquim Casellas (94879)
Ángela Cánovas (3391583)
Isabel Díaz (2698609)
José Noguera (6423107)
Anna Castelló (277282)
Anna Mercadé (383164)
Marcel Amills (168991)

March 2019

Figure S1. Genetic Power Calculator plots showing the power of the GWAS analysis (x-axis) for a popu...

Justyna Horodyska (4102438)
Klaus Wimmers (82199)
Henry Reyer (137619)
Nares Trakooljul (723346)
Anne Mullen (5922770)
Peadar Lawlor (2820613)
Ruth Hamill (5922773)

November 2018

Table S2. Biological functions significantly enriched with differentially expressed genes, including...

Additional file 2: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Abstract

Extracted data

Additional file 2: of Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Abstract

Extracted data

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