-
1
-
-
84887011860
-
Special topics--Mitigation of methane and nitrous oxide emissions from animal operations: III. A review of animal management mitigation options
-
Hristov AN, Ott T, Tricarico J, Rotz A, Waghorn G, Adesogan A, et al. Special topics--Mitigation of methane and nitrous oxide emissions from animal operations: III. A review of animal management mitigation options. J Anim Sci. 2013;91(11):5095-113.
-
(2013)
J Anim Sci
, vol.91
, Issue.11
, pp. 5095-5113
-
-
Hristov, A.N.1
Ott, T.2
Tricarico, J.3
Rotz, A.4
Waghorn, G.5
Adesogan, A.6
-
2
-
-
84960190066
-
National program of swine feed efficiency
-
Accessed 21 Jan
-
National program of swine feed efficiency [ http://www.swinefeedefficiency.com/project.html ]. Accessed 21 Jan. 2016.
-
(2016)
-
-
-
4
-
-
0011663009
-
Efficiency of Feed Use in Beef Cattle
-
Koch RM, Swiger LA, Chambers D, Gregory KE. Efficiency of Feed Use in Beef Cattle. J Anim Sci. 1963;22(2):486-94.
-
(1963)
J Anim Sci
, vol.22
, Issue.2
, pp. 486-494
-
-
Koch, R.M.1
Swiger, L.A.2
Chambers, D.3
Gregory, K.E.4
-
5
-
-
37049029612
-
Genetic parameters for residual feed intake in growing pigs, with emphasis on genetic relationships with carcass and meat quality traits
-
Gilbert H, Bidanel JP, Gruand J, Caritez JC, Billon Y, Guillouet P, et al. Genetic parameters for residual feed intake in growing pigs, with emphasis on genetic relationships with carcass and meat quality traits. J Anim Sci. 2007;85(12):3182-8.
-
(2007)
J Anim Sci
, vol.85
, Issue.12
, pp. 3182-3188
-
-
Gilbert, H.1
Bidanel, J.P.2
Gruand, J.3
Caritez, J.C.4
Billon, Y.5
Guillouet, P.6
-
6
-
-
38949149635
-
Selection response and genetic parameters for residual feed intake in Yorkshire swine
-
Cai W, Casey DS, Dekkers JC. Selection response and genetic parameters for residual feed intake in Yorkshire swine. J Anim Sci. 2008;86(2):287-98.
-
(2008)
J Anim Sci
, vol.86
, Issue.2
, pp. 287-298
-
-
Cai, W.1
Casey, D.S.2
Dekkers, J.C.3
-
8
-
-
84957944410
-
The genetic and biological basis of residual feed intake as a measure of feed efficiency
-
Netherland: Wageningen Academic Publishers
-
Young JM, Dekkers JCM. The genetic and biological basis of residual feed intake as a measure of feed efficiency. In: Patience JF, editor. Feed efficiency in swine. Netherland: Wageningen Academic Publishers; 2012.
-
(2012)
In: Patience JF, editor. Feed efficiency in swine
-
-
Young, J.M.1
Dekkers, J.C.M.2
-
9
-
-
79959525266
-
Effect of selection for residual feed intake on feeding behavior and daily feed intake patterns in Yorkshire swine
-
Young JM, Cai W, Dekkers JC. Effect of selection for residual feed intake on feeding behavior and daily feed intake patterns in Yorkshire swine. J Anim Sci. 2011;89(3):639-47.
-
(2011)
J Anim Sci
, vol.89
, Issue.3
, pp. 639-647
-
-
Young, J.M.1
Cai, W.2
Dekkers, J.C.3
-
10
-
-
77952801394
-
Selection to reduce residual feed intake in pigs produces a correlated response in juvenile insulin-like growth factor-I concentration
-
Bunter KL, Cai W, Johnston DJ, Dekkers JC. Selection to reduce residual feed intake in pigs produces a correlated response in juvenile insulin-like growth factor-I concentration. J Anim Sci. 2010;88(6):1973-81.
-
(2010)
J Anim Sci
, vol.88
, Issue.6
, pp. 1973-1981
-
-
Bunter, K.L.1
Cai, W.2
Johnston, D.J.3
Dekkers, J.C.4
-
11
-
-
0033159361
-
Genetic parameters for production traits and measures of residual feed intake in large white swine
-
Johnson ZB, Chewning JJ, Nugent 3rd RA. Genetic parameters for production traits and measures of residual feed intake in large white swine. J Anim Sci. 1999;77(7):1679-85.
-
(1999)
J Anim Sci
, vol.77
, Issue.7
, pp. 1679-1685
-
-
Johnson, Z.B.1
Chewning, J.J.2
Nugent, R.A.3
-
12
-
-
80053121147
-
Effects of ad libitum and restricted feeding on early production performance and body composition of Yorkshire pigs selected for reduced residual feed intake
-
Boddicker N, Gabler NK, Spurlock ME, Nettleton D, Dekkers JC. Effects of ad libitum and restricted feeding on early production performance and body composition of Yorkshire pigs selected for reduced residual feed intake. Animal. 2011;5(9):1344-53.
-
(2011)
Animal
, vol.5
, Issue.9
, pp. 1344-1353
-
-
Boddicker, N.1
Gabler, N.K.2
Spurlock, M.E.3
Nettleton, D.4
Dekkers, J.C.5
-
13
-
-
84882573456
-
Evidence of decreased muscle protein turnover in gilts selected for low residual feed intake
-
Cruzen SM, Harris AJ, Hollinger K, Punt RM, Grubbs JK, Selsby JT, et al. Evidence of decreased muscle protein turnover in gilts selected for low residual feed intake. J Anim Sci. 2013;91(8):4007-16.
-
(2013)
J Anim Sci
, vol.91
, Issue.8
, pp. 4007-4016
-
-
Cruzen, S.M.1
Harris, A.J.2
Hollinger, K.3
Punt, R.M.4
Grubbs, J.K.5
Selsby, J.T.6
-
14
-
-
84874797532
-
Selection for residual feed intake alters the mitochondria protein profile in pigs
-
Grubbs JK, Fritchen AN, Huff-Lonergan E, Gabler NK, Lonergan SM. Selection for residual feed intake alters the mitochondria protein profile in pigs. J Proteomics. 2013;80:334-45.
-
(2013)
J Proteomics
, vol.80
, pp. 334-345
-
-
Grubbs, J.K.1
Fritchen, A.N.2
Huff-Lonergan, E.3
Gabler, N.K.4
Lonergan, S.M.5
-
15
-
-
84899912826
-
Liver and skeletal muscle mitochondria proteomes are altered in pigs divergently selected for residual feed intake
-
Grubbs JK, Huff-Lonergan E, Gabler NK, M Dekkers JC, Lonergan SM. Liver and skeletal muscle mitochondria proteomes are altered in pigs divergently selected for residual feed intake. J Anim Sci. 2014;92(5):1995-2007.
-
(2014)
J Anim Sci
, vol.92
, Issue.5
, pp. 1995-2007
-
-
Grubbs, J.K.1
Huff-Lonergan, E.2
Gabler, N.K.3
Dekkers, M.J.C.4
Lonergan, S.M.5
-
16
-
-
84882685825
-
Divergent genetic selection for residual feed intake impacts mitochondria reactive oxygen species production in pigs
-
Grubbs JK, Fritchen AN, Huff-Lonergan E, Dekkers JC, Gabler NK, Lonergan SM. Divergent genetic selection for residual feed intake impacts mitochondria reactive oxygen species production in pigs. J Anim Sci. 2013;91(5):2133-40.
-
(2013)
J Anim Sci
, vol.91
, Issue.5
, pp. 2133-2140
-
-
Grubbs, J.K.1
Fritchen, A.N.2
Huff-Lonergan, E.3
Dekkers, J.C.4
Gabler, N.K.5
Lonergan, S.M.6
-
17
-
-
70349664037
-
Genetic associations of residual feed intake with serum insulin-like growth factor-I and leptin concentrations, meat quality, and carcass cross sectional fat area ratios in Duroc pigs
-
Hoque MA, Katoh K, Suzuki K. Genetic associations of residual feed intake with serum insulin-like growth factor-I and leptin concentrations, meat quality, and carcass cross sectional fat area ratios in Duroc pigs. J Anim Sci. 2009;87(10):3069-75.
-
(2009)
J Anim Sci
, vol.87
, Issue.10
, pp. 3069-3075
-
-
Hoque, M.A.1
Katoh, K.2
Suzuki, K.3
-
18
-
-
79960991407
-
Muscle characteristics and meat quality traits are affected by divergent selection on residual feed intake in pigs
-
Lefaucheur L, Lebret B, Ecolan P, Louveau I, Damon M, Prunier A, et al. Muscle characteristics and meat quality traits are affected by divergent selection on residual feed intake in pigs. J Anim Sci. 2011;89(4):996-1010.
-
(2011)
J Anim Sci
, vol.89
, Issue.4
, pp. 996-1010
-
-
Lefaucheur, L.1
Lebret, B.2
Ecolan, P.3
Louveau, I.4
Damon, M.5
Prunier, A.6
-
19
-
-
84879470635
-
Whole Genome Association Studies of Residual Feed Intake and Related Traits in the Pig
-
Onteru SK, Gorbach DM, Young JM, Garrick DJ, Dekkers JC, Rothschild MF. Whole Genome Association Studies of Residual Feed Intake and Related Traits in the Pig. PLoS ONE. 2013;8(6):e61756.
-
(2013)
PLoS ONE
, vol.8
, Issue.6
, pp. e61756
-
-
Onteru, S.K.1
Gorbach, D.M.2
Young, J.M.3
Garrick, D.J.4
Dekkers, J.C.5
Rothschild, M.F.6
-
20
-
-
84905009876
-
Feed intake, average daily gain, feed efficiency, and real-time ultrasound traits in Duroc pigs: II. Genomewide association
-
Jiao S, Maltecca C, Gray KA, Cassady JP. Feed intake, average daily gain, feed efficiency, and real-time ultrasound traits in Duroc pigs: II. Genomewide association. J Anim Sci. 2014;92(7):2846-60.
-
(2014)
J Anim Sci
, vol.92
, Issue.7
, pp. 2846-2860
-
-
Jiao, S.1
Maltecca, C.2
Gray, K.A.3
Cassady, J.P.4
-
21
-
-
84894280861
-
Genome-wide association and systems genetic analyses of residual feed intake, daily feed consumption, backfat and weight gain in pigs
-
Do DN, Ostersen T, Strathe AB, Mark T, Jensen J, Kadarmideen HN. Genome-wide association and systems genetic analyses of residual feed intake, daily feed consumption, backfat and weight gain in pigs. BMC Genet. 2014;15:27.
-
(2014)
BMC Genet
, vol.15
, pp. 27
-
-
Do, D.N.1
Ostersen, T.2
Strathe, A.B.3
Mark, T.4
Jensen, J.5
Kadarmideen, H.N.6
-
22
-
-
84906252394
-
Genome-wide association and pathway analysis of feed efficiency in pigs reveal candidate genes and pathways for residual feed intake
-
Do DN, Strathe AB, Ostersen T, Pant SD, Kadarmideen HN. Genome-wide association and pathway analysis of feed efficiency in pigs reveal candidate genes and pathways for residual feed intake. Front Genet. 2014;5:307.
-
(2014)
Front Genet
, vol.5
, pp. 307
-
-
Do, D.N.1
Strathe, A.B.2
Ostersen, T.3
Pant, S.D.4
Kadarmideen, H.N.5
-
23
-
-
75449104615
-
Gene expression profiling of the short-term adaptive response to acute caloric restriction in liver and adipose tissues of pigs differing in feed efficiency
-
Lkhagvadorj S, Qu L, Cai W, Couture OP, Barb CR, Hausman GJ, et al. Gene expression profiling of the short-term adaptive response to acute caloric restriction in liver and adipose tissues of pigs differing in feed efficiency. Am J Physiol Regul Integr Comp Physiol. 2010;298(2):R494-507.
-
(2010)
Am J Physiol Regul Integr Comp Physiol
, vol.298
, Issue.2
, pp. R494-507
-
-
Lkhagvadorj, S.1
Qu, L.2
Cai, W.3
Couture, O.P.4
Barb, C.R.5
Hausman, G.J.6
-
24
-
-
84991227631
-
Divergent selection for residual feed intake affects the transcriptomic and proteomic profiles of pig skeletal muscle
-
Vincent A, Louveau I, Gondret F, Trefeu C, Gilbert H, Lefaucheur L. Divergent selection for residual feed intake affects the transcriptomic and proteomic profiles of pig skeletal muscle. J Anim Sci. 2015;93(6):2745-58.
-
(2015)
J Anim Sci
, vol.93
, Issue.6
, pp. 2745-2758
-
-
Vincent, A.1
Louveau, I.2
Gondret, F.3
Trefeu, C.4
Gilbert, H.5
Lefaucheur, L.6
-
25
-
-
84936802473
-
Transcriptome analysis of mRNA and miRNA in skeletal muscle indicates an important network for differential Residual Feed Intake in pigs
-
Jing L, Hou Y, Wu H, Miao Y, Li X, Cao J, et al. Transcriptome analysis of mRNA and miRNA in skeletal muscle indicates an important network for differential Residual Feed Intake in pigs. Sci Rep. 2015;5.
-
(2015)
Sci Rep.
, vol.5
-
-
Jing, L.1
Hou, Y.2
Wu, H.3
Miao, Y.4
Li, X.5
Cao, J.6
-
26
-
-
84861819731
-
Using genes differentially expressed in bulls to classify steers divergently selected for high and low residual feed intake
-
Chen Y, Arthur PF, Herd RM, Quinn K, Barchia IM. Using genes differentially expressed in bulls to classify steers divergently selected for high and low residual feed intake. Anim Prod Sci. 2012;52(7):608-12.
-
(2012)
Anim Prod Sci
, vol.52
, Issue.7
, pp. 608-612
-
-
Chen, Y.1
Arthur, P.F.2
Herd, R.M.3
Quinn, K.4
Barchia, I.M.5
-
27
-
-
84892438717
-
Expression of candidate genes for residual feed intake in Angus cattle
-
Al-Husseini W, Gondro C, Quinn K, Herd RM, Gibson JP, Chen Y. Expression of candidate genes for residual feed intake in Angus cattle. Anim Genet. 2014;45(1):12-9.
-
(2014)
Anim Genet
, vol.45
, Issue.1
, pp. 12-19
-
-
Al-Husseini, W.1
Gondro, C.2
Quinn, K.3
Herd, R.M.4
Gibson, J.P.5
Chen, Y.6
-
28
-
-
35248840944
-
The peripheral-blood transcriptome: new insights into disease and risk assessment
-
Mohr S, Liew CC. The peripheral-blood transcriptome: new insights into disease and risk assessment. Trends Mol Med. 2007;13(10):422-32.
-
(2007)
Trends Mol Med
, vol.13
, Issue.10
, pp. 422-432
-
-
Mohr, S.1
Liew, C.C.2
-
29
-
-
84928703581
-
Assessment of immune status using blood transcriptomics and potential implications for global health
-
Chaussabel D. Assessment of immune status using blood transcriptomics and potential implications for global health. Semin Immunol. 2015;27(1):58-66.
-
(2015)
Semin Immunol
, vol.27
, Issue.1
, pp. 58-66
-
-
Chaussabel, D.1
-
30
-
-
84881308301
-
Human growth is associated with distinct patterns of gene expression in evolutionarily conserved networks
-
Stevens A, Hanson D, Whatmore A, Destenaves B, Chatelain P, Clayton P. Human growth is associated with distinct patterns of gene expression in evolutionarily conserved networks. BMC Genomics. 2013;14(1):547.
-
(2013)
BMC Genomics
, vol.14
, Issue.1
, pp. 547
-
-
Stevens, A.1
Hanson, D.2
Whatmore, A.3
Destenaves, B.4
Chatelain, P.5
Clayton, P.6
-
31
-
-
43249127214
-
A Genome-Wide Gene Expression Signature of Environmental Geography in Leukocytes of Moroccan Amazighs
-
Idaghdour Y, Storey JD, Jadallah SJ, Gibson G. A Genome-Wide Gene Expression Signature of Environmental Geography in Leukocytes of Moroccan Amazighs. PLoS Genet. 2008;4(4):e1000052.
-
(2008)
PLoS Genet
, vol.4
, Issue.4
-
-
Idaghdour, Y.1
Storey, J.D.2
Jadallah, S.J.3
Gibson, G.4
-
32
-
-
84873701002
-
Associations between dietary patterns and gene expression profiles of healthy men and women: a cross-sectional study
-
Bouchard-Mercier A, Paradis A-M, Rudkowska I, Lemieux S, Couture P, Vohl M-C. Associations between dietary patterns and gene expression profiles of healthy men and women: a cross-sectional study. Nutr J. 2013;12(1):24.
-
(2013)
Nutr J
, vol.12
, Issue.1
, pp. 24
-
-
Bouchard-Mercier, A.1
Paradis, A.-M.2
Rudkowska, I.3
Lemieux, S.4
Couture, P.5
Vohl, M.-C.6
-
33
-
-
0031864895
-
Insulin-like growth factor (IGF)-I but not IGF-II promotes lean growth and feed efficiency in broiler chickens
-
Tomas FM, Pym RA, McMurtry JP, Francis GL. Insulin-like growth factor (IGF)-I but not IGF-II promotes lean growth and feed efficiency in broiler chickens. Gen Comp Endocrinol. 1998;110(3):262-75.
-
(1998)
Gen Comp Endocrinol
, vol.110
, Issue.3
, pp. 262-275
-
-
Tomas, F.M.1
Pym, R.A.2
McMurtry, J.P.3
Francis, G.L.4
-
34
-
-
85047688289
-
Association of SNP of neuropeptide Y, leptin, and IGF-1 genes with residual feed intake in confinement and under grazing condition in Angus cattle
-
Trujillo AI, Casal A, Penagaricano F, Carriquiry M, Chilibroste P. Association of SNP of neuropeptide Y, leptin, and IGF-1 genes with residual feed intake in confinement and under grazing condition in Angus cattle. J Anim Sci. 2013;91(9):4235-44.
-
(2013)
J Anim Sci
, vol.91
, Issue.9
, pp. 4235-4244
-
-
Trujillo, A.I.1
Casal, A.2
Penagaricano, F.3
Carriquiry, M.4
Chilibroste, P.5
-
35
-
-
84973358375
-
Assessing peripheral blood cell profile of Yorkshire pigs divergently selected for residual feed intake
-
Mpetile Z, Young JM, Gabler NK, Dekkers JC, Tuggle CK. Assessing peripheral blood cell profile of Yorkshire pigs divergently selected for residual feed intake. J Anim Sci. 2015;93(3):892-9.
-
(2015)
J Anim Sci
, vol.93
, Issue.3
, pp. 892-899
-
-
Mpetile, Z.1
Young, J.M.2
Gabler, N.K.3
Dekkers, J.C.4
Tuggle, C.K.5
-
36
-
-
0036452738
-
Blood cell profiles of steer progeny from parents selected for and against residual feed intake
-
Richardson EC, Herd RM, Colditz IG, Archer JA, Arthur PF. Blood cell profiles of steer progeny from parents selected for and against residual feed intake. Aust J Exp Agric. 2002;42(7):901-8.
-
(2002)
Aust J Exp Agric
, vol.42
, Issue.7
, pp. 901-908
-
-
Richardson, E.C.1
Herd, R.M.2
Colditz, I.G.3
Archer, J.A.4
Arthur, P.F.5
-
38
-
-
84973334458
-
Composition and quality characteristics of carcasses from pigs divergently selected for residual feed intake on high- or low-energy diets
-
Arkfeld EK, Young JM, Johnson RC, Fedler CA, Prusa K, Patience JF, et al. Composition and quality characteristics of carcasses from pigs divergently selected for residual feed intake on high- or low-energy diets. J Anim Sci. 2015;93(5):2530-45.
-
(2015)
J Anim Sci
, vol.93
, Issue.5
, pp. 2530-2545
-
-
Arkfeld, E.K.1
Young, J.M.2
Johnson, R.C.3
Fedler, C.A.4
Prusa, K.5
Patience, J.F.6
-
39
-
-
84960190070
-
Effect of a Low Energy, High Fiber Diet Challenge on Yorkshire Pigs Selected for Residual Feed Intake
-
Vancouver,BC, Cancada. 2014.
-
Mauch ED, Young JM, Patience JF, Gabler NK, Dekkers JCM. Effect of a Low Energy, High Fiber Diet Challenge on Yorkshire Pigs Selected for Residual Feed Intake. In: 10th World Congress of Genetics Applied to Livestock Production: 2014; Vancouver,BC, Cancada. 2014.
-
(2014)
In: 10th World Congress of Genetics Applied to Livestock Production
-
-
Mauch, E.D.1
Young, J.M.2
Patience, J.F.3
Gabler, N.K.4
Dekkers, J.C.M.5
-
40
-
-
84920836456
-
Increasing gene discovery and coverage using RNA-seq of globin RNA reduced porcine blood samples
-
Choi I, Bao H, Kommadath A, Hosseini A, Sun X, Meng Y, et al. Increasing gene discovery and coverage using RNA-seq of globin RNA reduced porcine blood samples. BMC Genomics. 2014;15(1):954.
-
(2014)
BMC Genomics
, vol.15
, Issue.1
, pp. 954
-
-
Choi, I.1
Bao, H.2
Kommadath, A.3
Hosseini, A.4
Sun, X.5
Meng, Y.6
-
41
-
-
84960190071
-
-
Accessed 21 Jan
-
FASTQC [ http://www.bioinformatics.babraham.ac.uk/projects/fastqc/ ]. Accessed 21 Jan. 2016.
-
(2016)
-
-
-
42
-
-
84905049901
-
Trimmomatic: a flexible trimmer for Illumina sequence data
-
Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30(15):2114-20.
-
(2014)
Bioinformatics
, vol.30
, Issue.15
, pp. 2114-2120
-
-
Bolger, A.M.1
Lohse, M.2
Usadel, B.3
-
43
-
-
84871809302
-
STAR: ultrafast universal RNA-seq aligner
-
Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013;29(1):15-21.
-
(2013)
Bioinformatics
, vol.29
, Issue.1
, pp. 15-21
-
-
Dobin, A.1
Davis, C.A.2
Schlesinger, F.3
Drenkow, J.4
Zaleski, C.5
Jha, S.6
-
44
-
-
84888861753
-
Systematic evaluation of spliced alignment programs for RNA-seq data
-
Engstrom PG, Steijger T, Sipos B, Grant GR, Kahles A, Ratsch G, et al. Systematic evaluation of spliced alignment programs for RNA-seq data. Nat Methods. 2013;10(12):1185-91.
-
(2013)
Nat Methods
, vol.10
, Issue.12
, pp. 1185-1191
-
-
Engstrom, P.G.1
Steijger, T.2
Sipos, B.3
Grant, G.R.4
Kahles, A.5
Ratsch, G.6
-
45
-
-
84897397058
-
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
-
Liao Y, Smyth GK, Shi W. featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics. 2014;30(7):923-30.
-
(2014)
Bioinformatics
, vol.30
, Issue.7
, pp. 923-930
-
-
Liao, Y.1
Smyth, G.K.2
Shi, W.3
-
46
-
-
84879198972
-
Detecting differential expression in RNA-sequence data using quasi-likelihood with shrunken dispersion estimates
-
Lund SP, Nettleton D, McCarthy DJ, Smyth GK: Detecting differential expression in RNA-sequence data using quasi-likelihood with shrunken dispersion estimates. Stat Appl Genet Mol Biol 2012, 11(5).Article 8.
-
(2012)
Stat Appl Genet Mol Biol
, vol.11
, Issue.5
-
-
Lund, S.P.1
Nettleton, D.2
McCarthy, D.J.3
Smyth, G.K.4
-
47
-
-
84949100930
-
Detecting Differentially Expressed Genes with RNA-seq Data Using Backward Selection to Account for the Effects of Relevant Covariates
-
Nguyen Y, Nettleton D, Liu H, Tuggle C. Detecting Differentially Expressed Genes with RNA-seq Data Using Backward Selection to Account for the Effects of Relevant Covariates. J Agric Biol Environ Stat. 2015; 20(4):577-597.
-
(2015)
J Agric Biol Environ Stat
, vol.20
, Issue.4
, pp. 577-597
-
-
Nguyen, Y.1
Nettleton, D.2
Liu, H.3
Tuggle, C.4
-
48
-
-
60549111634
-
WGCNA: an R package for weighted correlation network analysis
-
Langfelder P, Horvath S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics. 2008;9:559.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 559
-
-
Langfelder, P.1
Horvath, S.2
-
49
-
-
84896735766
-
voom: Precision weights unlock linear model analysis tools for RNA-seq read counts
-
Law CW, Chen Y, Shi W, Smyth GK. voom: Precision weights unlock linear model analysis tools for RNA-seq read counts. Genome Biol. 2014;15(2):R29.
-
(2014)
Genome Biol
, vol.15
, Issue.2
, pp. R29
-
-
Law, C.W.1
Chen, Y.2
Shi, W.3
Smyth, G.K.4
-
50
-
-
84926507971
-
limma powers differential expression analyses for RNA-sequencing and microarray studies
-
Ritchie ME, Phipson B, Wu D, Hu Y, Law CW, Shi W, et al. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res. 2015;43(7):e47.
-
(2015)
Nucleic Acids Res
, vol.43
, Issue.7
, pp. e47
-
-
Ritchie, M.E.1
Phipson, B.2
Wu, D.3
Hu, Y.4
Law, C.W.5
Shi, W.6
-
51
-
-
84960190072
-
-
Accessed 21 Jan
-
WGCNA tutorials [ http://labs.genetics.ucla.edu/horvath/CoexpressionNetwork/Rpackages/WGCNA/Tutorials/ ].Accessed 21 Jan. 2016.
-
(2016)
-
-
-
53
-
-
84877083078
-
IPAD: the Integrated Pathway Analysis Database for Systematic Enrichment Analysis
-
Zhang F, Drabier R. IPAD: the Integrated Pathway Analysis Database for Systematic Enrichment Analysis. BMC Bioinformatics. 2012;13 Suppl 15:S7.
-
(2012)
BMC Bioinformatics
, vol.13
, pp. S7
-
-
Zhang, F.1
Drabier, R.2
-
54
-
-
84960190074
-
-
Accessed 21 Jan
-
IPAD [ http://bioinfo.hsc.unt.edu/ipad/index.html ].Accessed 21 Jan. 2016.
-
(2016)
-
-
-
55
-
-
0001677717
-
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
-
Benjamini Y, Hochberg Y. Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing. J R Stat Soc Ser B Methodol. 1995;57(1):289-300.
-
(1995)
J R Stat Soc Ser B Methodol
, vol.57
, Issue.1
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
56
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 2010;28(5):511-5.
-
(2010)
Nat Biotechnol
, vol.28
, Issue.5
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
Baren, M.J.6
-
57
-
-
84927722380
-
How good is a PCR efficiency estimate: Recommendations for precise and robust qPCR efficiency assessments
-
Svec D, Tichopad A, Novosadova V, Pfaffl MW, Kubista M. How good is a PCR efficiency estimate: Recommendations for precise and robust qPCR efficiency assessments. Biomol Detect Quantification. 2015;3:9-16.
-
(2015)
Biomol Detect Quantification
, vol.3
, pp. 9-16
-
-
Svec, D.1
Tichopad, A.2
Novosadova, V.3
Pfaffl, M.W.4
Kubista, M.5
-
58
-
-
85031962960
-
Fluidigm User Guide for Real-Time PCR Analysis
-
Fluidigm User Guide for Real-Time PCR Analysis [ https://www.fluidigm.com/binaries/content/documents/fluidigm/resources/real-time-pcr-analysis-ug-68000088/real-time-pcr-analysis-ug-68000088/fluidigm%3Afile ]
-
-
-
-
59
-
-
0035710746
-
Analysis of relative gene expression data using real-time quantitative PCR and the 2DeltaDeltaCt method
-
Livak K, Schmittgen T. Analysis of relative gene expression data using real-time quantitative PCR and the 2DeltaDeltaCt method. Methods. 2001;25(4):402-8.
-
(2001)
Methods
, vol.25
, Issue.4
, pp. 402-408
-
-
Livak, K.1
Schmittgen, T.2
-
60
-
-
0037129827
-
Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes
-
research0034
-
Vandesompele J, De Preter K, Pattyn F, Poppe B, Van Roy N, De Paepe A, et al. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol. 2002;3(7):research0034.0031-11.
-
(2002)
Genome Biol
, vol.3
, Issue.7
, pp. 11-31
-
-
Vandesompele, J.1
Preter, K.2
Pattyn, F.3
Poppe, B.4
Roy, N.5
Paepe, A.6
-
61
-
-
84912527013
-
The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance
-
Wang C, Gong B, Bushel PR, Thierry-Mieg J, Thierry-Mieg D, Xu J, et al. The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance. Nat Biotech. 2014;32(9):926-32.
-
(2014)
Nat Biotech
, vol.32
, Issue.9
, pp. 926-932
-
-
Wang, C.1
Gong, B.2
Bushel, P.R.3
Thierry-Mieg, J.4
Thierry-Mieg, D.5
Xu, J.6
-
62
-
-
84925969785
-
Global liver gene expression differences in Nelore steers with divergent residual feed intake phenotypes
-
Tizioto PC, Coutinho LL, Decker JE, Schnabel RD, Rosa KO, Oliveira PS, et al. Global liver gene expression differences in Nelore steers with divergent residual feed intake phenotypes. BMC Genomics. 2015;16:242.
-
(2015)
BMC Genomics
, vol.16
, pp. 242
-
-
Tizioto, P.C.1
Coutinho, L.L.2
Decker, J.E.3
Schnabel, R.D.4
Rosa, K.O.5
Oliveira, P.S.6
-
63
-
-
80052743566
-
Global gene expression profiling reveals genes expressed differentially in cattle with high and low residual feed intake
-
Chen Y, Gondro C, Quinn K, Herd RM, Parnell PF, Vanselow B. Global gene expression profiling reveals genes expressed differentially in cattle with high and low residual feed intake. Anim Genet. 2011;42(5):475-90.
-
(2011)
Anim Genet
, vol.42
, Issue.5
, pp. 475-490
-
-
Chen, Y.1
Gondro, C.2
Quinn, K.3
Herd, R.M.4
Parnell, P.F.5
Vanselow, B.6
-
64
-
-
84941997378
-
Transcriptomic analysis to elucidate the molecular mechanisms that underlie feed efficiency in meat-type chickens
-
Lee J, Karnuah AB, Rekaya R, Anthony NB, Aggrey SE. Transcriptomic analysis to elucidate the molecular mechanisms that underlie feed efficiency in meat-type chickens. Mol Genet Genomics. 2015;290(5):1673-82.
-
(2015)
Mol Genet Genomics
, vol.290
, Issue.5
, pp. 1673-1682
-
-
Lee, J.1
Karnuah, A.B.2
Rekaya, R.3
Anthony, N.B.4
Aggrey, S.E.5
-
65
-
-
84876221128
-
Cell Biology Symposium: feed efficiency: mitochondrial function to global gene expression
-
Bottje W, Kong BW. Cell Biology Symposium: feed efficiency: mitochondrial function to global gene expression. J Anim Sci. 2013;91(4):1582-93.
-
(2013)
J Anim Sci
, vol.91
, Issue.4
, pp. 1582-1593
-
-
Bottje, W.1
Kong, B.W.2
-
66
-
-
84934435068
-
Delta-5 and Delta-6 Desaturases: Crucial Enzymes in Polyunsaturated Fatty Acid-Related Pathways with Pleiotropic Influences in Health and Disease
-
Switzerland: Springer International Publishing
-
Tosi F, Sartori F, Guarini P, Olivieri O, Martinelli N: Delta-5 and Delta-6 Desaturases: Crucial Enzymes in Polyunsaturated Fatty Acid-Related Pathways with Pleiotropic Influences in Health and Disease. In: Oxidative Stress and Inflammation in Non-communicable Diseases - Molecular Mechanisms and Perspectives in Therapeutics. Edited by Camps J, vol. 824: Switzerland: Springer International Publishing; 2014: 61-81.
-
(2014)
In: Oxidative Stress and Inflammation in Non-communicable Diseases - Molecular Mechanisms and Perspectives in Therapeutics. Edited by Camps J
, vol.824
, pp. 61-81
-
-
Tosi, F.1
Sartori, F.2
Guarini, P.3
Olivieri, O.4
Martinelli, N.5
-
67
-
-
33646039454
-
ELOVL3 Is an Important Component for Early Onset of Lipid Recruitment in Brown Adipose Tissue
-
Westerberg R, Månsson J-E, Golozoubova V, Shabalina IG, Backlund EC, Tvrdik P, et al. ELOVL3 Is an Important Component for Early Onset of Lipid Recruitment in Brown Adipose Tissue. J Biol Chem. 2006;281(8):4958-68.
-
(2006)
J Biol Chem
, vol.281
, Issue.8
, pp. 4958-4968
-
-
Westerberg, R.1
Månsson, J.-E.2
Golozoubova, V.3
Shabalina, I.G.4
Backlund, E.C.5
Tvrdik, P.6
-
68
-
-
0035816653
-
Regulation of the Human MAT2B Gene Encoding the Regulatory β Subunit of Methionine Adenosyltransferase, MAT II
-
LeGros L, Halim A-B, Chamberlin ME, Geller A, Kotb M. Regulation of the Human MAT2B Gene Encoding the Regulatory β Subunit of Methionine Adenosyltransferase, MAT II. J Biol Chem. 2001;276(27):24918-24.
-
(2001)
J Biol Chem
, vol.276
, Issue.27
, pp. 24918-24924
-
-
LeGros, L.1
Halim, A.-B.2
Chamberlin, M.E.3
Geller, A.4
Kotb, M.5
-
69
-
-
84855464684
-
Investigation of the relationship between SLA-1 and SLA-3 gene expression and susceptibility to Escherichia coli F18 in post-weaning pigs
-
Ye L, Zi C, Pan ZY, Zhu J, Du ZD, Zhu GQ, et al. Investigation of the relationship between SLA-1 and SLA-3 gene expression and susceptibility to Escherichia coli F18 in post-weaning pigs. Comp Immunol Microbiol Infect Dis. 2012;35(1):23-30.
-
(2012)
Comp Immunol Microbiol Infect Dis
, vol.35
, Issue.1
, pp. 23-30
-
-
Ye, L.1
Zi, C.2
Pan, Z.Y.3
Zhu, J.4
Du, Z.D.5
Zhu, G.Q.6
-
70
-
-
0033598171
-
Nucleotide binding by TAP mediates association with peptide and release of assembled MHC class I molecules
-
Knittler MR, Alberts P, Deverson EV, Howard JC. Nucleotide binding by TAP mediates association with peptide and release of assembled MHC class I molecules. Curr Biol. 1999;9(18):999-S991.
-
(1999)
Curr Biol
, vol.9
, Issue.18
, pp. S991-999
-
-
Knittler, M.R.1
Alberts, P.2
Deverson, E.V.3
Howard, J.C.4
-
71
-
-
84866927785
-
Role of S5b/PSMD5 in Proteasome Inhibition Caused by TNF-α/NFΚB in Higher Eukaryotes
-
Shim Sang M, Lee Won J, Kim Y, Chang Jong W, Song S, Jung Y-K. Role of S5b/PSMD5 in Proteasome Inhibition Caused by TNF-α/NFΚB in Higher Eukaryotes. Cell Rep. 2(3):603-15
-
Cell Rep
, vol.2
, Issue.3
, pp. 603-615
-
-
Shim Sang, M.1
Lee Won, J.2
Kim, Y.3
Chang Jong, W.4
Song, S.5
Jung, Y-K.6
-
72
-
-
84862750546
-
Chapter 3 - Immunoproteasomes: Structure, Function, and Antigen Presentation. In: Progress in Molecular Biology and Translational Science. Edited by Tilman G
-
Waltham: Academic Press
-
Ferrington DA, Gregerson DS. Chapter 3 - Immunoproteasomes: Structure, Function, and Antigen Presentation. In: Progress in Molecular Biology and Translational Science. Edited by Tilman G, vol. Volume 109: Waltham: Academic Press; 2012: 75-112.
-
(2012)
, vol.109
, pp. 75-112
-
-
Ferrington, D.A.1
Gregerson, D.S.2
-
73
-
-
85031967628
-
Pigs Selected for Increased Feed Efficiency Are Less Affected by Experimental Infection with the PRRS Virus
-
Dunkelberger JR, Boddicker N, Young J, Thekkoot DM, Rowland B, Dekkers JCM: Pigs Selected for Increased Feed Efficiency Are Less Affected by Experimental Infection with the PRRS Virus. In: Animal Industry Report:. vol. AS 660, ASL R2902.; 2014.
-
(2014)
In: Animal Industry Report:. vol. AS 660, ASL R2902
-
-
Dunkelberger, J.R.1
Boddicker, N.2
Young, J.3
Thekkoot, D.M.4
Rowland, B.5
Dekkers, J.C.M.6
-
74
-
-
77957957247
-
The Mitochondrial Proteome and Human Disease
-
Calvo SE, Mootha VK. The Mitochondrial Proteome and Human Disease. Annu Rev Genomics Hum Genet. 2010;11(1):25-44.
-
(2010)
Annu Rev Genomics Hum Genet
, vol.11
, Issue.1
, pp. 25-44
-
-
Calvo, S.E.1
Mootha, V.K.2
-
75
-
-
65549154306
-
Association of mitochondrial function and feed efficiency in poultry and livestock species
-
Bottje WG, Carstens GE. Association of mitochondrial function and feed efficiency in poultry and livestock species. J Anim Sci. 2009;87(14 Suppl):E48-63.
-
(2009)
J Anim Sci
, vol.87
, pp. E48-63
-
-
Bottje, W.G.1
Carstens, G.E.2
-
76
-
-
84861906560
-
Relationship between the activity of mitochondrial respiratory chain complexes and feed efficiency in fat-tailed Ghezel lambs
-
Sharifabadi HR, Zamiri MJ, Rowghani E, Bottje WG. Relationship between the activity of mitochondrial respiratory chain complexes and feed efficiency in fat-tailed Ghezel lambs. J Anim Sci. 2012;90(6):1807-15.
-
(2012)
J Anim Sci
, vol.90
, Issue.6
, pp. 1807-1815
-
-
Sharifabadi, H.R.1
Zamiri, M.J.2
Rowghani, E.3
Bottje, W.G.4
-
77
-
-
84868601291
-
The G0/G1 Switch Gene 2 (G0S2): Regulating metabolism and beyond
-
Heckmann BL, Zhang X, Xie X, Liu J. The G0/G1 Switch Gene 2 (G0S2): Regulating metabolism and beyond. Biochim Biophys Acta. 2013;1831(2):276-81.
-
(2013)
Biochim Biophys Acta
, vol.1831
, Issue.2
, pp. 276-281
-
-
Heckmann, B.L.1
Zhang, X.2
Xie, X.3
Liu, J.4
-
78
-
-
84943422275
-
Lipolytic inhibitor G0/G1 switch gene 2 inhibits reactive oxygen species production and apoptosis in endothelial cells
-
Wang Y, Zhang Y, Zhu Y, Zhang P. Lipolytic inhibitor G0/G1 switch gene 2 inhibits reactive oxygen species production and apoptosis in endothelial cells, vol. 308. 2015.
-
(2015)
, vol.308
-
-
Wang, Y.1
Zhang, Y.2
Zhu, Y.3
Zhang, P.4
-
79
-
-
84930966066
-
Low-Density Lipoprotein Receptor-Related Protein 6 (LRP6) Is a Novel Nutritional Therapeutic Target for Hyperlipidemia, Non-Alcoholic Fatty Liver Disease, and Atherosclerosis
-
G-w G. Low-Density Lipoprotein Receptor-Related Protein 6 (LRP6) Is a Novel Nutritional Therapeutic Target for Hyperlipidemia, Non-Alcoholic Fatty Liver Disease, and Atherosclerosis. Nutrients. 2015;7(6):4453-64.
-
(2015)
Nutrients
, vol.7
, Issue.6
, pp. 4453-4464
-
-
G-w, G.1
-
80
-
-
84903702539
-
Wnt signaling directs a metabolic program of glycolysis and angiogenesis in colon cancer
-
Pate KT, Stringari C, Sprowl-Tanio S, Wang K, TeSlaa T, Hoverter NP, et al. Wnt signaling directs a metabolic program of glycolysis and angiogenesis in colon cancer, vol. 33. 2014.
-
(2014)
, vol.33
-
-
Pate, K.T.1
Stringari, C.2
Sprowl-Tanio, S.3
Wang, K.4
TeSlaa, T.5
Hoverter, N.P.6
-
81
-
-
77954851049
-
Wnt signaling regulates mitochondrial physiology and insulin sensitivity
-
Yoon JC, Ng A, Kim BH, Bianco A, Xavier RJ, Elledge SJ. Wnt signaling regulates mitochondrial physiology and insulin sensitivity. Genes Dev. 2010;24(14):1507-18.
-
(2010)
Genes Dev
, vol.24
, Issue.14
, pp. 1507-1518
-
-
Yoon, J.C.1
Ng, A.2
Kim, B.H.3
Bianco, A.4
Xavier, R.J.5
Elledge, S.J.6
-
82
-
-
0036888855
-
Regulation of lymphoid homeostasis by interleukin-15
-
Lodolce JP, Burkett PR, Koka RM, Boone DL, Ma A. Regulation of lymphoid homeostasis by interleukin-15. Cytokine Growth Factor Rev. 2002;13(6):429-39.
-
(2002)
Cytokine Growth Factor Rev
, vol.13
, Issue.6
, pp. 429-439
-
-
Lodolce, J.P.1
Burkett, P.R.2
Koka, R.M.3
Boone, D.L.4
Ma, A.5
-
83
-
-
0031043030
-
The Mitochondrial Carnitine Palmitoyltransferase System - From Concept to Molecular Analysis
-
McGarry JD, Brown NF. The Mitochondrial Carnitine Palmitoyltransferase System - From Concept to Molecular Analysis. Eur J Biochem. 1997;244(1):1-14.
-
(1997)
Eur J Biochem
, vol.244
, Issue.1
, pp. 1-14
-
-
McGarry, J.D.1
Brown, N.F.2
-
84
-
-
0038037734
-
Inhibition of hypothalamic carnitine palmitoyltransferase-1 decreases food intake and glucose production
-
Obici S, Feng Z, Arduini A, Conti R, Rossetti L. Inhibition of hypothalamic carnitine palmitoyltransferase-1 decreases food intake and glucose production. Nat Med. 2003;9(6):756-61.
-
(2003)
Nat Med
, vol.9
, Issue.6
, pp. 756-761
-
-
Obici, S.1
Feng, Z.2
Arduini, A.3
Conti, R.4
Rossetti, L.5
-
85
-
-
0017370932
-
The energy cost of fat and protein deposition in the rat
-
Pullar JD, Webster AJ. The energy cost of fat and protein deposition in the rat. Br J Nutr. 1977;37(3):355-63.
-
(1977)
Br J Nutr
, vol.37
, Issue.3
, pp. 355-363
-
-
Pullar, J.D.1
Webster, A.J.2
|