Additional file 1 of Comparative analyses of dynamic transcriptome profiles highlight key response genes and dominant isoforms for muscle development and growth in chicken

Additional file 4: of Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

Tengfei Dou (4163974)
Sumei Zhao (4163986)
Hua Rong (4163989)
Dahai Gu (4163980)
Qihua Li (4163977)
Ying Huang (53474)
Zhiqiang Xu (103072)
Xiaohui Chu (4163968)
Linli Tao (4163992)
Lixian Liu (4163995)
Changrong Ge (213754)
Marinus Pas (4163983)
Junjing Jia (4163971)

June 2017

DAVID, Cytoscape (Reactome-FI and ClueGo), and String analysis for genes displaying increased expres...

Transcriptome profile analysis of leg muscle tissues between slow- and fast-growing chickens

Pengfei Wu (3200082)
Guojun Dai (5942579)
Fuxiang Chen (5162699)
Lan Chen (16760)
Tao Zhang (43681)
Kaizhou Xie (3749953)
Jinyu Wang (381467)
Genxi Zhang (3749959)

November 2018

Chicken is widely favored by consumers because of some unique features. The leg muscles occupy an im...

Additional file 8 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 8: Table S4. GO terms enriched in the WGCNA modules correlated with breast muscle we...

Additional file 1 of Comparative analyses of dynamic transcriptome profiles highlight key response genes and dominant isoforms for muscle development and growth in chicken

Zhang Wang (17273305)
Weihua Tian (564079)
Dandan Wang (286632)
Yulong Guo (516278)
Zhimin Cheng (8558712)
Yanyan Zhang (1462111)
Xinyan Li (778577)
Yihao Zhi (11764901)
Donghua Li (298053)
Zhuanjian Li (108072)
Ruirui Jiang (5090348)
Guoxi Li (63063)
Yadong Tian (3580121)
Xiangtao Kang (3580112)
Hong Li (20183)
Ian C. Dunn (3259974)
Xiaojun Liu (58952)

October 2023

Additional file 1: Table S1. Information on the primer sequences used in this study

Additional file 1: of RNA sequencing for global gene expression associated with muscle growth in a single male modern broiler line compared to a foundational Barred Plymouth Rock chicken line

Byung-Whi Kong (77322)
Nicholas Hudson (3577538)
Dongwon Seo (3638350)
Seok Lee (561348)
Bhuwan Khatri (3638344)
Kentu Lassiter (658235)
Devin Cook (3638347)
Alissa Piekarski (658233)
Sami Dridi (360802)
Nicholas Anthony (658237)
Walter Bottje (658238)

January 2017

Primers used for qRT-PCR. The first column indicates primer names and the second column shows sequen...

Additional file 2 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 2: Table S1. Number of clean reads and mapping rate of the 399 samples

Additional file 3 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 3: Figure S2. Hierarchical clustering dendrogram of the traits analyzed

Additional file 4 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 4: Table S2. Values of tuning parameters used in LASSO-1SE and EN-1SE in association...

Additional file 5: of Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

Tengfei Dou (4163974)
Sumei Zhao (4163986)
Hua Rong (4163989)
Dahai Gu (4163980)
Qihua Li (4163977)
Ying Huang (53474)
Zhiqiang Xu (103072)
Xiaohui Chu (4163968)
Linli Tao (4163992)
Lixian Liu (4163995)
Changrong Ge (213754)
Marinus Pas (4163983)
Junjing Jia (4163971)

June 2017

DAVID, Cytoscape (Reactome-FI and ClueGo), and String analysis for genes displaying increased expres...

Transcriptome profile analysis of leg muscle tissues between slow- and fast-growing chickens.

Pengfei Wu
Guojun Dai
Fuxiang Chen
Lan Chen
Tao Zhang
Kaizhou Xie
Jinyu Wang
Genxi Zhang

January 2018

Chicken is widely favored by consumers because of some unique features. The leg muscles occupy an im...

Additional file 9 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 9: Table S6. Rank of candidate genes for breast muscle weight within co-expression n...

Additional file 7 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 7: Table S3. Genes in each WGCNA module for breast muscle weight

Additional file 13 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 13: Table S10. Results from LMM and Pearson correlation analyses for IMF percentage

Additional file 3: of Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

Tengfei Dou (4163974)
Sumei Zhao (4163986)
Hua Rong (4163989)
Dahai Gu (4163980)
Qihua Li (4163977)
Ying Huang (53474)
Zhiqiang Xu (103072)
Xiaohui Chu (4163968)
Linli Tao (4163992)
Lixian Liu (4163995)
Changrong Ge (213754)
Marinus Pas (4163983)
Junjing Jia (4163971)

June 2017

DAVID, Cytoscape (Reactome-FI and ClueGo), and String analysis for genes displaying increased expres...

Additional file 5 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 5: Figure S3. Quantile–quantile (QQ) plot of the association analysis for breast mus...

Additional file 4: of Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

Tengfei Dou (4163974)
Sumei Zhao (4163986)
Hua Rong (4163989)
Dahai Gu (4163980)
Qihua Li (4163977)
Ying Huang (53474)
Zhiqiang Xu (103072)
Xiaohui Chu (4163968)
Linli Tao (4163992)
Lixian Liu (4163995)
Changrong Ge (213754)
Marinus Pas (4163983)
Junjing Jia (4163971)

June 2017

DAVID, Cytoscape (Reactome-FI and ClueGo), and String analysis for genes displaying increased expres...

Transcriptome profile analysis of leg muscle tissues between slow- and fast-growing chickens

Pengfei Wu (3200082)
Guojun Dai (5942579)
Fuxiang Chen (5162699)
Lan Chen (16760)
Tao Zhang (43681)
Kaizhou Xie (3749953)
Jinyu Wang (381467)
Genxi Zhang (3749959)

November 2018

Chicken is widely favored by consumers because of some unique features. The leg muscles occupy an im...

Additional file 8 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 8: Table S4. GO terms enriched in the WGCNA modules correlated with breast muscle we...

Additional file 1 of Comparative analyses of dynamic transcriptome profiles highlight key response genes and dominant isoforms for muscle development and growth in chicken

Zhang Wang (17273305)
Weihua Tian (564079)
Dandan Wang (286632)
Yulong Guo (516278)
Zhimin Cheng (8558712)
Yanyan Zhang (1462111)
Xinyan Li (778577)
Yihao Zhi (11764901)
Donghua Li (298053)
Zhuanjian Li (108072)
Ruirui Jiang (5090348)
Guoxi Li (63063)
Yadong Tian (3580121)
Xiangtao Kang (3580112)
Hong Li (20183)
Ian C. Dunn (3259974)
Xiaojun Liu (58952)

October 2023

Additional file 1: Table S1. Information on the primer sequences used in this study

Additional file 1: of RNA sequencing for global gene expression associated with muscle growth in a single male modern broiler line compared to a foundational Barred Plymouth Rock chicken line

Byung-Whi Kong (77322)
Nicholas Hudson (3577538)
Dongwon Seo (3638350)
Seok Lee (561348)
Bhuwan Khatri (3638344)
Kentu Lassiter (658235)
Devin Cook (3638347)
Alissa Piekarski (658233)
Sami Dridi (360802)
Nicholas Anthony (658237)
Walter Bottje (658238)

January 2017

Primers used for qRT-PCR. The first column indicates primer names and the second column shows sequen...

Additional file 2 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 2: Table S1. Number of clean reads and mapping rate of the 399 samples

Additional file 3 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 3: Figure S2. Hierarchical clustering dendrogram of the traits analyzed

Additional file 4 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 4: Table S2. Values of tuning parameters used in LASSO-1SE and EN-1SE in association...

Additional file 5: of Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

Tengfei Dou (4163974)
Sumei Zhao (4163986)
Hua Rong (4163989)
Dahai Gu (4163980)
Qihua Li (4163977)
Ying Huang (53474)
Zhiqiang Xu (103072)
Xiaohui Chu (4163968)
Linli Tao (4163992)
Lixian Liu (4163995)
Changrong Ge (213754)
Marinus Pas (4163983)
Junjing Jia (4163971)

June 2017

DAVID, Cytoscape (Reactome-FI and ClueGo), and String analysis for genes displaying increased expres...

Transcriptome profile analysis of leg muscle tissues between slow- and fast-growing chickens.

Pengfei Wu
Guojun Dai
Fuxiang Chen
Lan Chen
Tao Zhang
Kaizhou Xie
Jinyu Wang
Genxi Zhang

January 2018

Chicken is widely favored by consumers because of some unique features. The leg muscles occupy an im...

Additional file 9 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 9: Table S6. Rank of candidate genes for breast muscle weight within co-expression n...

Additional file 7 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 7: Table S3. Genes in each WGCNA module for breast muscle weight

Additional file 13 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 13: Table S10. Results from LMM and Pearson correlation analyses for IMF percentage

Additional file 3: of Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

Tengfei Dou (4163974)
Sumei Zhao (4163986)
Hua Rong (4163989)
Dahai Gu (4163980)
Qihua Li (4163977)
Ying Huang (53474)
Zhiqiang Xu (103072)
Xiaohui Chu (4163968)
Linli Tao (4163992)
Lixian Liu (4163995)
Changrong Ge (213754)
Marinus Pas (4163983)
Junjing Jia (4163971)

June 2017

DAVID, Cytoscape (Reactome-FI and ClueGo), and String analysis for genes displaying increased expres...

Additional file 5 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 5: Figure S3. Quantile–quantile (QQ) plot of the association analysis for breast mus...

Additional file 4: of Biological mechanisms discriminating growth rate and adult body weight phenotypes in two Chinese indigenous chicken breeds

Tengfei Dou (4163974)
Sumei Zhao (4163986)
Hua Rong (4163989)
Dahai Gu (4163980)
Qihua Li (4163977)
Ying Huang (53474)
Zhiqiang Xu (103072)
Xiaohui Chu (4163968)
Linli Tao (4163992)
Lixian Liu (4163995)
Changrong Ge (213754)
Marinus Pas (4163983)
Junjing Jia (4163971)

June 2017

DAVID, Cytoscape (Reactome-FI and ClueGo), and String analysis for genes displaying increased expres...

Transcriptome profile analysis of leg muscle tissues between slow- and fast-growing chickens

Pengfei Wu (3200082)
Guojun Dai (5942579)
Fuxiang Chen (5162699)
Lan Chen (16760)
Tao Zhang (43681)
Kaizhou Xie (3749953)
Jinyu Wang (381467)
Genxi Zhang (3749959)

November 2018

Chicken is widely favored by consumers because of some unique features. The leg muscles occupy an im...

Additional file 8 of Large-scale transcriptome sequencing in broiler chickens to identify candidate genes for breast muscle weight and intramuscular fat content

Huimin Kang (435951)
Di Zhao (302432)
Hai Xiang (3913597)
Jing Li (10611)
Guiping Zhao (329296)
Hua Li (46469)

August 2021

Additional file 8: Table S4. GO terms enriched in the WGCNA modules correlated with breast muscle we...

Additional file 1 of Comparative analyses of dynamic transcriptome profiles highlight key response genes and dominant isoforms for muscle development and growth in chicken

Abstract

Extracted data

Additional file 1 of Comparative analyses of dynamic transcriptome profiles highlight key response genes and dominant isoforms for muscle development and growth in chicken

Abstract

Extracted data

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