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Table 1 Rankings of genes in various datasets and average ranking

From: A gene expression estimator of intramuscular fat percentage for use in both cattle and sheep

Genes1 Description Rank Average rank6 Source
Sheep correlation3 Cattle correlation4 Cattle DE5  
CIDEA 2 cell death-inducing dffa-like effector a 11 4 12 1 TAG 7
ACSM1 acyl-CoA synthetase medium-chain family member 1 16 35 23 3 TAG
ADIPOQ adiponectin 17 46 25 8 TAG
FABP4 fatty acid binding protein 4,adipocyte 24 54 19 5 TAG
PLIN1 perilipin1 25 15 49 6 TAG
TUSC5 tumor suppressor candidate 5 54 73 63 13 TAG
LPL lipoprotein lipase 62 123 473 23 EMMIX A8
MAL2 mal, T-cell differentiation protein 2 67 33 177 16 FA
PPARG peroxisome proliferator-activated receptor gamma 73 117 152 19 PPARG
DGAT2 diacylglycerol o-acyltransferase 2 74 6 30 4 TAG
AGPAT2 phosphate O-acyltransferase 2 100 21 118 14 TAG
G0S2 g0/g1switch 2 123 223 72 20 EMMIX A
FASN fatty acid synthase 167 39 17 9 FA
THRSP thyroid hormone responsive 187 13 1 2 TAG
ELOVL6 ELOVL fatty acid elongase 6 231 34 6 7 FA
TKT transketolase 244 229 106 26 PPARG
CIDEC cell death-inducing DFFA-like effector c 272 41 61 15 TAG
CYB5A cytochrome b5 type A (microsomal) 307 64 483 27 PPARG
BHMT2 betaine-homocysteine S-methyltransferase 2 317 207 304 28 FA
RBP4 retinol binding protein 4, plasma 346 139 78 21 FA
ACSS2 acyl-CoA synthetase short-chain family member 2 440 19 43 12 FA
ARSK arylsulfatase family, member K 447 948 502 42 EMMIX A
SCD stearoyl-CoA desaturase 472 9 22 10 FA
ACACA acetyl-CoA carboxylase alpha 484 56 63 17 FA
ACLY atp citrate lyase 535 148 16 18 PPARG
PLS1 plastin1 659 502 6,513 49 TAG9
TF transferrin 742 310 20 22 PPARG
CPT2 carnitine palmitoyltransferase 2 782 664 528 44 EMMIX A
PCK1 phosphoenolpyruvate carboxykinase 1 859 20 13 11 TAG
PTPLB protein tyrosine phosphatase-like, member b 884 275 479 37 PPARG 9
ADIG adipogenin 937 183 36 24 TAG
PCK2 phosphoenolpyruvate carboxykinase 2 (mitochondrial) 972 92 1,629 34 FA
INTS9 integrator complex subunit 9 984 1,183 80 36 PPARG
PDE3B phosphodiesterase 3B, cGMP-inhibited 1,426 206 1,135 40 FA
ACER3 alkaline ceramidase 3 1,519 683 969 52 PPARG
APOA1 apolipoprotein A-I 1,521 3,264 119 45 EMMIX A
ARSI periplasmic arylsulfatase 1,865 114 7,806 43 EMMIX A
IDH1 isocitrate dehydrogenase 1 (NADP+), soluble 2,070 320 210 39 PPARG
APOE apolipoprotein E 2,224 227 424 41 EMMIX A
GSTA1 glutathione S-transferase alpha 1 2,302 998 3 29 PPARG
SULT1A1 sulfotransferase family, cytosolic, 1A, phenol-preferring, member 1 2,341 3,667 172 53 EMMIX A
ANPEP alanyl (membrane) aminopeptidase 2,703 2,091 87 47 FA
HSD17B12 hydroxysteroid (17-beta) dehydrogenase 12 2,726 74 457 35 PPARG9
CLU clusterin 2,968 65 136 30 FA
BDH1 3-hydroxybutyrate dehydrogenase, type 1 3,240 8 1,797 31 EMMIX A
ACSS3 acyl-CoA synthetase short-chain family member 3 3,689 137 347 38 PPARG
ME1 malic enzyme 1, NADP(+)-dependent, cytosolic 3,741 69 2,457 46 EMMIX A
S100G S100 calcium binding protein G 4,009 61 26 25 TAG
INSIG1 insulin induced gene 1 4,562 412 31 33 FA
G6PD glucose-6-phosphate dehydrogenase 4,918 982 95 51 PPARG
GPAM glycerol-3-phosphate acyltransferase, (mitochondrial) 5,886 1,364 185 55 TAG9
FBP1 fructose-1, 6-bisphosphatase 1 6,604 706 2 32 FA
QPRT quinolinate phosphoribosyltransferase 7,565 329 137 50 PPARG
ALAD aminolevulinate dehydratase 9,051 422 347 54 PPARG
CEBPA CCAAT/enhancer binding protein (C/EBP), alpha 10,545 593 65 48 PPARG
  1. 1Full list of genes and probes is included as Additional file 1: Table S1.
  2. 2Genes in bold were included in the 30 gene set correlated with IMF% in cattle and sheep generated by the current study.
  3. 3Gene rank of the correlation coefficients in Sheep correlation dataset.
  4. 4Gene rank of the correlation coefficients in Cattle correlation dataset.
  5. 5Gene rank of DE value in Cattle DE dataset.
  6. 6Genes in this table were ranked from 1–55 based on their ranking in each of the cattle and the sheep correlation datasets. The average ranking across the two datasets was calculated and the genes were again ranked from 1 to 55.
  7. 7These genes were both included in TAG, FA and PPARG gene sets and annotated with the GO term “lipid metabolic process” and in EMMIX cluster A.
  8. 8Genes were annotated with the GO term “lipid metabolic process” and in EMMIX cluster A.
  9. 9Genes were included in each corresponding gene set in the current analysis based on the biological functions. But these genes were not the part of TAG, FA and PPARG gene sets in our previous work [4].