Molecular Analysis of a Recurrent Sarcoma Identifies a Mutation in FAF1
Table 3
Deregulation of genes for drug disposition. Analysis of RNASeq for at least twofold overexpression (italic font) or underexpression (bold font) of genes for (a) transport and (b) metabolism in tumor compared to muscle and bone. For the export transporters (ABC transporters), only overexpression is considered relevant for drug resistance. Not shown in the table are the underexpressed genes (ABCA7, ABCA8, ABCA13, ABCB6, ABCB10, ABCC6, ABCC6P1, ABCC6P2, ABCC8, ABCC11, ABCD2, ABCG2, and ABCG5).
(a) Transport
Gene ID
Symbol
Name
Tumor bone
Tumor muscle
log2-fold change
log2-fold change
650655
ABCA17P
ATP-binding cassette, subfamily A (ABC1), member 17, pseudogene
1.360
2.116
24
ABCA4
ATP-binding cassette, subfamily A (ABC1), member 4
2.038
2.802
6555
SLC10A2
Solute carrier family 10 (sodium/bile acid cotransporter family), member 2
−1.962
−2.112
345274
SLC10A6
Solute carrier family 10 (sodium/bile acid cotransporter family), member 6
2.623
3.240
6563
SLC14A1
Solute carrier family 14 (urea transporter), member 1 (Kidd blood group)
−3.074
−3.152
6565
SLC15A2
Solute carrier family 15 (H+/peptide transporter), member 2
−2.027
−2.152
6566
SLC16A1
Solute carrier family 16, member 1 (monocarboxylic acid transporter 1)
1.401
2.170
117247
SLC16A10
Solute carrier family 16, member 10 (aromatic amino acid transporter)
2.113
2.848
6567
SLC16A2
Solute carrier family 16, member 2 (monocarboxylic acid transporter 8)
3.242
3.848
10786
SLC17A3
Solute carrier family 17 (sodium phosphate), member 3
−2.868
−2.959
6571
SLC18A2
Solute carrier family 18 (vesicular monoamine), member 2
−2.087
−2.194
6573
SLC19A1
Solute carrier family 19 (folate transporter), member 1
−2.099
−2.203
10560
SLC19A2
Solute carrier family 19 (thiamine transporter), member 2
1.820
2.548
80704
SLC19A3
Solute carrier family 19, member 3
−3.331
−3.478
387775
SLC22A10
Solute carrier family 22, member 10
5.711
6.085
9390
SLC22A13
Solute carrier family 22 (organic anion transporter), member 13
2.623
3.217
85413
SLC22A16
Solute carrier family 22 (organic cation/carnitine transporter), member 16
−8.101
−7.299
51310
SLC22A17
Solute carrier family 22, member 17
1.475
2.175
5002
SLC22A18
Solute carrier family 22, member 18
2.038
2.722
6582
SLC22A2
Solute carrier family 22 (organic cation transporter), member 2
4.793
5.216
6581
SLC22A3
Solute carrier family 22 (extraneuronal monoamine transporter), member 3
2.554
3.182
6583
SLC22A4
Solute carrier family 22 (organic cation/ergothioneine transporter), member 4
−3.603
−3.776
151295
SLC23A3
Solute carrier family 23 (nucleobase transporters), member 3
2.109
2.848
10478
SLC25A17
Solute carrier family 25 (mitochondrial carrier), member 17
1.311
2.077
83733
SLC25A18
Solute carrier family 25 (mitochondrial carrier), member 18
1.846
2.570
788
SLC25A20
Solute carrier family 25 (carnitine/acylcarnitine translocase), member 20
−2.105
−2.207
89874
SLC25A21
Solute carrier family 25 (mitochondrial oxodicarboxylate carrier), member 21
−2.962
−3.105
51312
SLC25A37
Solute carrier family 25, member 37
−4.633
−4.866
51629
SLC25A39
Solute carrier family 25, member 39
−2.585
−2.737
203427
SLC25A43
Solute carrier family 25, member 43
1.325
2.088
65012
SLC26A10
Solute carrier family 26, member 10
3.896
4.472
115111
SLC26A7
Solute carrier family 26, member 7
3.431
4.018
116369
SLC26A8
Solute carrier family 26, member 8
−5.354
−5.536
115019
SLC26A9
Solute carrier family 26, member 9
1.623
2.419
11001
SLC27A2
Solute carrier family 27 (fatty acid transporter), member 2
−4.278
−4.487
64078
SLC28A3
Solute carrier family 28 (sodium-coupled nucleoside transporter), member 3
−4.543
−4.812
222962
SLC29A4
Solute carrier family 29 (nucleoside transporters), member 4
−1.962
−2.045
81031
SLC2A10
Solute carrier family 2 (facilitated glucose transporter), member 10
2.532
3.170
6518
SLC2A5
Solute carrier family 2 (facilitated glucose/fructose transporter), member 5
−3.647
−3.821
55532
SLC30A10
Solute carrier family 30, member 10
−3.547
−3.725
7782
SLC30A4
Solute carrier family 30 (zinc transporter), member 4
2.832
3.372
6569
SLC34A1
Solute carrier family 34 (sodium phosphate), member 1
−4.716
−4.941
340146
SLC35D3
Solute carrier family 35, member D3
−5.662
−5.906
54733
SLC35F2
Solute carrier family 35, member F2
1.433
2.170
206358
SLC36A1
Solute carrier family 36 (proton/amino acid symporter), member 1
−2.265
−2.345
285641
SLC36A3
Solute carrier family 36 (proton/amino acid symporter), member 3
−2.284
−2.393
54020
SLC37A1
Solute carrier family 37 (glycerol-3-phosphate transporter), member 1
−2.112
−2.212
2542
SLC37A4
Solute carrier family 37 (glucose-6-phosphate transporter), member 4
−2.117
−2.219
151258
SLC38A11
Solute carrier family 38, member 11
2.410
3.085
55089
SLC38A4
Solute carrier family 38, member 4
1.837
2.548
92745
SLC38A5
Solute carrier family 38, member 5
−1.994
−2.152
91252
SLC39A13
Solute carrier family 39 (zinc transporter), member 13
1.301
2.070
23516
SLC39A14
Solute carrier family 39 (zinc transporter), member 14
2.569
3.188
29985
SLC39A3
Solute carrier family 39 (zinc transporter), member 3
−2.032
−2.152
283375
SLC39A5
Solute carrier family 39 (metal ion transporter), member 5
1.623
2.370
7922
SLC39A7
Solute carrier family 39 (zinc transporter), member 7
1.273
2.058
30061
SLC40A1
Solute carrier family 40 (iron-regulated transporter), member 1
−3.612
−3.796
84102
SLC41A2
Solute carrier family 41, member 2
1.293
2.070
8501
SLC43A1
Solute carrier family 43, member 1
−2.013
−2.152
57153
SLC44A2
Solute carrier family 44, member 2
−2.047
−2.152
50651
SLC45A1
Solute carrier family 45, member 1
2.038
2.722
146802
SLC47A2
Solute carrier family 47, member 2
−1.962
−2.026
6521
SLC4A1
Solute carrier family 4, anion exchanger, member 1
−6.513
−6.453
57282
SLC4A10
Solute carrier family 4, sodium bicarbonate transporter, member 10
−2.640
−2.753
83959
SLC4A11
Solute carrier family 4, sodium borate transporter, member 11
1.846
2.569
6508
SLC4A3
Solute carrier family 4, anion exchanger, member 3
1.261
2.045
8671
SLC4A4
Solute carrier family 4, sodium bicarbonate cotransporter, member 4
2.445
3.113
9497
SLC4A7
Solute carrier family 4, sodium bicarbonate cotransporter, member 7
2.717
3.307
6523
SLC5A1
Solute carrier family 5 (sodium/glucose cotransporter), member 1
−2.547
−2.705
159963
SLC5A12
Solute carrier family 5 (sodium/glucose cotransporter), member 12
4.753
5.206
6527
SLC5A4
Solute carrier family 5 (low affinity glucose cotransporter), member 4
−3.969
−4.249
6540
SLC6A13
Solute carrier family 6 (neurotransmitter transporter, GABA), member 13
1.328
2.092
55117
SLC6A15
Solute carrier family 6 (neutral amino acid transporter), member 15
1.623
2.333
388662
SLC6A17
Solute carrier family 6, member 17
2.038
2.728
54716
SLC6A20
Solute carrier family 6 (proline IMINO transporter), member 20
1.697
2.433
6532
SLC6A4
Solute carrier family 6 (neurotransmitter transporter, serotonin), member 4
−2.512
−2.611
6534
SLC6A7
Solute carrier family 6 (neurotransmitter transporter, L-proline), member 7
2.623
3.228
56301
SLC7A10
Solute carrier family 7, (neutral amino acid transporter, y+ system) member 10
−3.421
−3.603
6547
SLC8A3
Solute carrier family 8 (sodium/calcium exchanger), member 3
−2.204
−2.309
285335
SLC9A10
Solute carrier family 9, member 10
1.208
2.000
6549
SLC9A2
Solute carrier family 9 (sodium/hydrogen exchanger), member 2
2.038
2.706
9368
SLC9A3R1
Solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1
−2.760
−2.846
9351
SLC9A3R2
Solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 2
1.889
2.619
84679
SLC9A7
Solute carrier family 9 (sodium/hydrogen exchanger), member 7
3.347
3.935
10599
SLCO1B1
Solute carrier organic anion transporter family, member 1B1
3.360
3.977
28234
SLCO1B3
Solute carrier organic anion transporter family, member 1B3
9.760
9.569
6578
SLCO2A1
Solute carrier organic anion transporter family, member 2A1
2.432
3.096
28232
SLCO3A1
Solute carrier organic anion transporter family, member 3A1
−2.032
−2.152
353189
SLCO4C1
Solute carrier organic anion transporter family, member 4C1
−6.850
−6.611
(b) Metabolism
Gene ID
Symbol
Name
Tumor bone
Tumor muscle
log2-fold change
log2-fold Cchange
1583
CYP11A1
Cytochrome P450, family 11, subfamily A, polypeptide 1
1.623
2.396
1589
CYP21A2
Cytochrome P450, family 21, subfamily A, polypeptide 2
−1.962
−2.036
1591
CYP24A1
Cytochrome P450, family 24, subfamily A, polypeptide 1
5.208
5.577
1592
CYP26A1
Cytochrome P450, family 26, subfamily A, polypeptide 1
2.623
3.257
1594
CYP27B1
Cytochrome P450, family 27, subfamily B, polypeptide 1
1.846
2.585
339761
CYP27C1
Cytochrome P450, family 27, subfamily C, polypeptide 1
3.585
4.178
1553
CYP2A13
Cytochrome P450, family 2, subfamily A, polypeptide 13
−1.962
−2.035
1580
CYP4B1
Cytochrome P450, family 4, subfamily B, polypeptide 1
−4.820
−5.065
66002
CYP4F12
Cytochrome P450, family 4, subfamily F, polypeptide 12
−6.070
−6.195
8529
CYP4F2
Cytochrome P450, family 4, subfamily F, polypeptide 2
−7.769
−7.060
4051
CYP4F3
Cytochrome P450, family 4, subfamily F, polypeptide 3
−8.244
−7.491
11283
CYP4F8
Cytochrome P450, family 4, subfamily F, polypeptide 8
−5.006
−5.270
260293
CYP4X1
Cytochrome P450, family 4, subfamily X, polypeptide 1
−2.476
−2.580
9420
CYP7B1
Cytochrome P450, family 7, subfamily B, polypeptide 1