Standard name
Human Ortholog
Description Diphthamide synthetase; catalyzes the last amidation step of diphthamide biosynthesis using ammonium and ATP; evolutionarily conserved in eukaryotes; dph6 mutants exhibit diphthine accumulation and resistance to sordarin, which is indicative of defects in diphthamide formation on EF2; green fluorescent protein (GFP)-tagged protein localizes to the cytoplasm; DPH6/YLR143W is not an essential gene
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Micrographs

ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Bud 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Bud Neck 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – – – – – – –
Cell Periphery 0 0 0.06 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Cytoplasm 1.0 0.99 0.97 0.97 0.97 0.95 0.92 – 0.79 0.83 0.73 0.74 0.99 0.98 0.98 – – – 0.97 0.95 0.95 0.93 0.91 0.91
Endoplasmic Reticulum 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Endosome 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Golgi 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Mitochondria 0 0 0 0 0 0.05 0.09 – 0.26 0.14 0.37 0.26 0 0 0 – – – 0 0 0 0 0 0
Nucleus 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Vac/Vac Membrane 0 0 0 0 0 0 0 – 0.05 0 0 0.07 0 0 0 – – – 0 0 0 0 0 0
ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 1 0 0 1 1
Bud 1 0 0 0 0 0 1 – 1 2 2 1 0 0 0 – – – 0 0 0 1 2 4
Bud Neck 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 1
Bud Site 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – – – – – – –
Cell Periphery 0 2 13 0 3 1 4 – 1 1 6 4 1 1 0 – – – 0 0 0 0 0 0
Cytoplasm 214 331 197 146 226 190 196 – 186 198 202 209 302 308 285 – – – 207 317 192 184 249 315
Endoplasmic Reticulum 2 3 2 1 0 2 1 – 1 2 3 2 1 2 1 – – – 1 1 1 0 1 3
Endosome 0 0 0 2 2 0 1 – 1 1 0 3 1 0 3 – – – 2 3 0 0 4 4
Golgi 0 0 0 0 0 0 0 – 0 0 0 0 1 0 0 – – – 1 3 0 0 0 1
Mitochondria 0 0 0 1 3 11 20 – 61 34 102 74 0 1 0 – – – 0 2 1 1 3 4
Nucleus 0 2 2 3 1 0 3 – 1 4 4 8 1 1 0 – – – 0 0 0 0 0 1
Nuclear Periphery 0 1 1 0 0 0 0 – 0 0 1 0 0 1 0 – – – 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 0 – 0 0 0 1 0 0 0 – – – 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 – 1 0 0 0 0 0 0 – – – 0 1 0 1 2 1
Vac/Vac Membrane 0 2 4 4 8 3 6 – 11 7 8 20 2 2 6 – – – 0 1 0 2 1 1
Unique Cell Count 215 336 204 151 234 201 214 235 238 276 282 306 313 292 213 335 203 198 273 348
Labelled Cell Count 217 341 219 157 243 207 232 264 249 328 322 309 316 295 213 335 203 198 273 348


Cytoplasm

(Huh et al. Nature 2003 425:686)
Screen WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 AF100 AF140 AF180
Mean Cell GFP Intensity (1e-4) 6.5 7.8 7.5 7.3 7.7 6.3 6.3 – 5.6 5.5 5.4 5.4 8.0 8.1 8.0 – – – 7.5 7.7 7.7
Std Deviation (1e-4) 0.7 1.0 1.3 1.2 2.2 2.0 1.6 – 1.7 1.3 2.0 2.2 1.1 1.3 1.8 – – – 1.2 2.1 1.3
Intensity Change (Log2) – – – -0.03 0.03 -0.24 -0.24 – -0.43 -0.44 -0.47 -0.48 0.09 0.1 0.08 – – – -0.01 0.04 0.03


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Bud 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Bud Neck 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Bud Site 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Cell Periphery -3.2 -2.8 -3.2 -2.3 – -3.5 -3.6 -2.3 -2.9 -4.1 -4.1 -4.4 – – –
Cytoplasm 0.1 0 -1.0 -2.1 – -5.5 -4.5 -6.8 -6.6 1.6 1.4 0.7 – – –
Endoplasmic Reticulum 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Endosome 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Golgi 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Mitochondria 0 0 3.4 4.5 – 7.8 5.6 9.8 7.9 0 0 0 – – –
Nucleus 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Nuclear Periphery 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Nucleolus 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Peroxisomes 0 0 0 0 – 0 0 0 0 0 0 0 – – –
SpindlePole 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Vacuole 0 0.9 0 0 – 1.6 0.7 0.7 2.6 0 0 0 – – –

Images

Circle plot not available

Protein Concentration and Protein Localization Data

R1 R2 R3
G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase
Concentration 1.4853 2.6649 2.1004 1.3699 1.5773 2.327 2.5182 3.5932 3.1178 2.6158 2.8688 3.1902 3.6203 4.5213 3.9783 3.7406 3.3493 3.7394
Actin 0.0322 0.0008 0.0229 0.0317 0.0034 0.0135 0.0253 0.0042 0.0018 0.0007 0.0012 0.0009 0.0504 0.0007 0.0138 0.0507 0.0186 0.0077
Bud 0.0023 0.0065 0.0033 0.0157 0.0019 0.0003 0.0028 0.0051 0.0109 0.0002 0.001 0.0118 0.001 0.0001 0.0018 0.0225 0.0007 0.0007
Bud Neck 0.0009 0.0004 0.0006 0.0025 0.0009 0.0009 0.0056 0.0003 0.0008 0.0004 0.0004 0.0018 0.0019 0.0001 0.009 0.0014 0.001 0.004
Bud Periphery 0.0015 0.0034 0.0024 0.0093 0.0008 0.0002 0.003 0.0018 0.0048 0.0001 0.0011 0.0057 0.0012 0 0.0026 0.0121 0.0006 0.0007
Bud Site 0.007 0.0071 0.0057 0.0116 0.0006 0.0002 0.0113 0.0096 0.0142 0.0003 0.0035 0.0009 0.0029 0.0008 0.004 0.0047 0.0022 0.0014
Cell Periphery 0.0007 0.0002 0.0002 0.0006 0.0001 0 0.0008 0.0002 0.0003 0 0.0002 0.0001 0.0002 0 0.0001 0.0004 0.0001 0.0001
Cytoplasm 0.7025 0.8843 0.7991 0.498 0.7531 0.8881 0.6832 0.8504 0.8556 0.7579 0.6657 0.8739 0.7708 0.9421 0.8693 0.7985 0.7957 0.9121
Cytoplasmic Foci 0.0266 0.0103 0.0141 0.0451 0.0161 0.0099 0.025 0.0129 0.0048 0.0071 0.0203 0.0068 0.0261 0.0089 0.0147 0.0177 0.0569 0.0105
Eisosomes 0.0004 0 0.0008 0.0003 0.0002 0 0.0002 0 0 0 0 0 0.0003 0 0 0.0002 0.0001 0
Endoplasmic Reticulum 0.0082 0.0041 0.0029 0.0022 0.0031 0.0024 0.0079 0.0022 0.0022 0.0029 0.0038 0.0019 0.007 0.0012 0.0043 0.003 0.0033 0.0029
Endosome 0.0407 0.0112 0.03 0.0931 0.067 0.0155 0.0306 0.0054 0.0047 0.0047 0.1239 0.002 0.0228 0.0028 0.0146 0.007 0.0389 0.008
Golgi 0.0096 0.0009 0.0127 0.0964 0.0134 0.0039 0.0075 0.0012 0.0041 0.0013 0.0123 0.0001 0.0084 0.0001 0.004 0.0032 0.0194 0.0047
Lipid Particles 0.0089 0.0003 0.0059 0.0452 0.0035 0.0131 0.0073 0.0021 0.0003 0.0018 0.0034 0 0.0061 0.0001 0.0032 0.0011 0.0096 0.0045
Mitochondria 0.0082 0.0008 0.0111 0.0456 0.0403 0.0011 0.0162 0.0013 0.0021 0.0396 0.0579 0.0002 0.0066 0.0001 0.0022 0.0019 0.0048 0.0034
None 0.1144 0.0628 0.0729 0.0305 0.0315 0.0361 0.1254 0.0932 0.0842 0.1686 0.0725 0.0814 0.068 0.0386 0.0361 0.0448 0.0212 0.0219
Nuclear Periphery 0.0079 0.0014 0.0019 0.0016 0.0148 0.0041 0.0111 0.001 0.0016 0.0008 0.0016 0.001 0.0073 0.0006 0.0028 0.0096 0.0023 0.002
Nucleolus 0.003 0.0001 0.0006 0.001 0.0039 0.0001 0.001 0.0001 0.0002 0.0001 0.0002 0.0002 0.0003 0.0001 0.0001 0.0006 0.0002 0.0001
Nucleus 0.0063 0.0024 0.0034 0.0043 0.0181 0.0038 0.0089 0.0037 0.0043 0.0017 0.0015 0.0079 0.0039 0.0018 0.0036 0.0089 0.0051 0.0069
Peroxisomes 0.0052 0.0005 0.0029 0.0484 0.0013 0.001 0.0134 0.0016 0.0004 0.0102 0.0052 0.0001 0.0085 0.0001 0.0095 0.0029 0.0042 0.005
Punctate Nuclear 0.0085 0.0007 0.0028 0.0022 0.0143 0.0033 0.0057 0.0025 0.0014 0.0004 0.0005 0.0021 0.0025 0.0009 0.0021 0.007 0.0122 0.0023
Vacuole 0.0037 0.0017 0.0026 0.0118 0.0061 0.0017 0.0063 0.0011 0.001 0.0008 0.0204 0.0009 0.0023 0.0007 0.0017 0.0011 0.0022 0.0008
Vacuole Periphery 0.0013 0.0002 0.0011 0.0028 0.0056 0.0007 0.0014 0.0001 0.0003 0.0002 0.0034 0.0002 0.0015 0.0001 0.0004 0.0004 0.0006 0.0003

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 13.6719 11.9822 11.3809 16.3533 12.5126 11.7889 13.3267 15.8633 15.1098 15.3925
Translational Efficiency 1.0453 1.0634 1.1674 0.706 0.8687 1.0819 1.1121 0.7561 0.733 0.9362

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘

Micrographs

Cell Count

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
1387 1250 1523 937 1661 2355 1641 206 3048 3605 3164 1143

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 729.33 895.38 1012.18 1098.03 806.03 867.28 1031.50 1142.24 771.13 877.02 1022.20 1106.00
Standard Deviation 83.92 135.35 117.78 158.71 93.11 114.96 126.76 177.92 96.89 123.14 122.90 163.23
Intensity Change Log 2 — 0.295928 0.472822 0.590274 — 0.105664 0.355838 0.502960 — 0.199177 0.412592 0.545096

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.000059 0.001196 0.000155 0.000726 0.000141 0.000224 0.001257 0.016398 0.000104 0.000561 0.000726 0.003551
Bud Neck 0.004181 0.004394 0.001326 0.004212 0.004367 0.004386 0.000926 0.018348 0.004283 0.004389 0.001119 0.006759
Bud Site 0.004148 0.013016 0.006743 0.045698 0.004460 0.010398 0.004742 0.080251 0.004318 0.011306 0.005705 0.051925
Cell Periphery 0.000138 0.000087 0.000057 0.000326 0.000083 0.000044 0.000086 0.000657 0.000108 0.000059 0.000072 0.000386
Cytoplasm 0.687939* 0.719642* 0.736231* 0.583094* 0.669204* 0.759504* 0.745616* 0.363576* 0.677729* 0.745682* 0.741099* 0.543531*
Cytoplasmic Foci 0.121105 0.109633 0.011869 0.032467 0.148162 0.077622 0.016591 0.030707 0.135849 0.088721 0.014318 0.032149
Eisosomes 0.000083 0.000030 0.000012 0.000016 0.000052 0.000020 0.000020 0.000084 0.000066 0.000024 0.000016 0.000028
Endoplasmic Reticulum 0.000396 0.000771 0.000991 0.000952 0.000890 0.000309 0.000927 0.002180 0.000665 0.000469 0.000958 0.001173
Endosome 0.004246 0.009228 0.001290 0.013491 0.008212 0.004993 0.001855 0.020644 0.006407 0.006461 0.001583 0.014780
Golgi 0.000659 0.003074 0.000086 0.014444 0.001532 0.001951 0.000161 0.096438 0.001135 0.002340 0.000125 0.029221
Lipid Particles 0.002435 0.001189 0.000550 0.000828 0.002129 0.000904 0.000640 0.001887 0.002268 0.001003 0.000597 0.001019
Mitochondria 0.000960 0.001816 0.000174 0.003221 0.001919 0.002283 0.000138 0.023070 0.001483 0.002121 0.000155 0.006798
Mitotic Spindle 0.001145 0.001453 0.004531 0.111045* 0.003063 0.012271 0.004637 0.108368* 0.002190 0.008520 0.004586 0.110563*
None 0.007265 0.002691 0.004745 0.010797 0.002114 0.002472 0.004980 0.005438 0.004458 0.002548 0.004867 0.009831
Nuclear Periphery 0.000152 0.000139 0.000541 0.002172 0.000182 0.000164 0.000490 0.000330 0.000168 0.000155 0.000515 0.001840
Nuclear Periphery Foci 0.000419 0.001511 0.002057 0.005420 0.000913 0.000387 0.003438 0.005548 0.000688 0.000777 0.002773 0.005443
Nucleolus 0.000543 0.000688 0.000096 0.000594 0.000383 0.000389 0.000135 0.001924 0.000456 0.000493 0.000116 0.000833
Nucleus 0.131109* 0.057702 0.174317* 0.067031 0.085371 0.056411 0.115179 0.033816 0.106184 0.056859 0.143645* 0.061045
Peroxisomes 0.001042 0.002750 0.000109 0.001530 0.001550 0.002271 0.000376 0.005106 0.001319 0.002437 0.000247 0.002175
Vacuole 0.031621 0.067742 0.054034 0.096416 0.064409 0.062384 0.096885 0.163912 0.049489 0.064242 0.076258 0.108580
Vacuole Periphery 0.000355 0.001248 0.000085 0.005521 0.000863 0.000610 0.000923 0.021318 0.000631 0.000832 0.000520 0.008368

Localization Changes (T-score)

R1 R2 R1 & R2
UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14
Actin -1.53 -8.71 -7.58 0.93 -4.89 -1.88 -1.26 -1.78 -1.74 -1.49 -1.77 -1.63 -2.73 -1.10 -1.54
Bud Neck -0.15 3.93 -0.80 -0.62 -6.90 -0.12 7.60 -1.02 -0.98 -2.62 -0.22 7.70 -1.30 -1.13 -7.40
Bud Site -4.76 -0.97 -7.12 -3.20 -6.54 -5.32 0.63 -4.86 -3.93 -4.92 -6.92 -0.53 -8.89 -5.57 -8.63
Cell Periphery 5.09 12.25 -0.10 -1.20 -1.69 8.72 1.68 -2.08 -2.88 -2.28 10.56 9.15 -1.10 -2.39 -2.11
Cytoplasm -2.96 3.59 20.61 21.52 17.57 -11.40 2.79 12.99 16.94 11.94 -11.11 4.38 23.95 30.57 21.12
Cytoplasmic Foci 2.26 30.10 22.57 17.79 -7.81 14.83 32.46 16.27 6.34 -5.32 13.57 43.86 31.22 20.02 -9.17
Eisosomes 12.95 17.78 15.70 3.05 -5.58 13.87 12.29 2.43 -3.97 -3.36 19.18 21.50 16.68 -2.11 -5.01
Endoplasmic Reticulum -3.01 -7.06 -3.81 -0.59 4.23 5.41 -1.15 -0.37 -3.81 0.34 2.46 -5.70 -2.05 -5.36 3.73
Endosome -5.22 6.24 -1.53 2.67 -4.78 4.02 9.42 1.30 -0.97 -3.77 -0.09 11.23 0.54 0.61 -5.61
Golgi -3.28 3.26 -1.90 0.13 -2.44 -0.91 7.35 -1.45 -1.39 -1.67 -3.23 7.82 -2.10 -1.33 -2.80
Lipid Particles 4.07 6.00 1.00 -4.89 -9.35 6.43 9.08 -3.30 -5.31 -5.64 7.22 9.92 -1.07 -8.14 -10.74
Mitochondria -1.22 2.04 0.29 1.43 -1.54 -0.35 2.43 -0.40 -0.26 -1.40 -1.01 3.03 0.52 1.53 -2.13
Mitotic Spindle -0.47 -3.36 -12.89 -12.89 -12.30 -4.29 -1.54 -6.96 -6.44 -6.82 -4.60 -3.14 -14.51 -13.51 -14.05
None 4.66 3.18 0.93 -2.88 -1.47 -1.16 -7.36 -3.06 -2.83 -1.19 4.20 -0.13 -1.58 -3.79 -1.64
Nuclear Periphery 0.52 -22.30 -5.54 -5.56 -2.91 0.44 -22.82 -9.85 -9.73 -2.48 0.35 -31.82 -6.17 -6.18 -3.14
Nuclear Periphery Foci -8.05 -9.59 -7.64 -6.24 -5.25 6.56 -10.86 -5.01 -5.34 -3.48 -1.68 -14.35 -8.74 -8.58 -5.79
Nucleolus -0.59 4.74 -1.70 -0.45 -4.01 -0.51 6.59 -0.82 -0.70 -1.88 -0.56 7.19 -2.29 -1.61 -4.32
Nucleus 17.05 -12.22 8.35 -6.61 18.79 10.16 -13.91 8.45 2.99 17.80 19.86 -18.25 6.78 -6.48 20.90
Peroxisomes -3.43 4.13 -0.79 2.63 -4.18 -1.29 3.40 -0.41 0.75 -3.38 -2.92 4.87 -0.29 2.56 -4.89
Vacuole -12.07 -16.25 -26.53 -20.95 -17.25 -0.66 -18.65 -12.61 -12.52 -7.27 -8.41 -23.81 -27.64 -25.10 -15.99
Vacuole Periphery -2.36 4.21 -1.29 0.19 -1.77 1.95 1.44 -0.98 -1.15 -1.26 -1.19 2.21 -1.28 -0.94 -1.92
Standard name
Human Ortholog
Description Diphthamide synthetase; catalyzes the last amidation step of diphthamide biosynthesis using ammonium and ATP; evolutionarily conserved in eukaryotes; dph6 mutants exhibit diphthine accumulation and resistance to sordarin, which is indicative of defects in diphthamide formation on EF2; green fluorescent protein (GFP)-tagged protein localizes to the cytoplasm; DPH6/YLR143W is not an essential gene
Localization
Cell Percentages cytoplasm (88%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-9

Dph6

Dph6


Nearest neighbours ( genes)

correlation threshold

0.6

1.0

0.80


Biological Process (Gene Ontology)
Molecular Function (Gene Ontology)
Cellular Component (Gene Ontology)

Endocytosis
Temp Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Vph1-GFP)
37℃
RT
Cell Cycle Omics

CYCLoPs (Dph6-GFP)
Gene / Allele Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Sac6-tdTomato)
Gene Images
Gene Images
Images are not yet available
Images are not yet available