Standard name
Human Ortholog
Description Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
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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 0.17 0.17 0.21 0 0 0 0 0 0 0 0 0
Bud 0 0 0 0 0 0 – 0 0 0 0 0 0.06 0.09 0.06 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 0 0 0
Bud Site 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0.05 0 0.07 0 0 – 0 0.05 0.05 0.07 0.06 0 0 0.05 0.07 0.08 0.11 0 0 0 0 0 0
Cytoplasm 0.97 0.97 0.98 0.88 0.87 0.81 – 0.63 0.68 0.58 0.65 0.56 0.61 0.56 0.5 0.93 0.91 0.94 0.94 0.94 0.91 0.91 0.88 0.83
Endoplasmic Reticulum 0 0 0 0.05 0 0.1 – 0.1 0.08 0.13 0.13 0.15 0.06 0.05 0 0 0 0 0 0 0 0 0.06 0.07
Endosome 0 0 0 0 0 0 – 0 0 0 0 0 0.09 0.13 0.1 0 0 0 0 0 0 0 0 0
Golgi 0 0 0 0 0 0 – 0 0 0 0 0 0.17 0.13 0.21 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0.06 0.07 0.1 – 0.14 0.2 0.18 0.22 0.27 0 0 0 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 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 0 0 0
Nucleolus 0 0 0 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 0 0 0
SpindlePole 0 0 0 0 0 0 – 0 0 0 0 0 0 0.05 0.07 0 0 0 0 0 0 0 0 0
Vac/Vac Membrane 0 0 0 0 0 0 – 0.16 0.07 0.1 0.06 0.05 0 0 0 0 0.06 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 1 0 3 4 0 5 – 6 7 17 9 8 88 84 123 0 0 0 0 0 0 0 1 3
Bud 1 1 15 6 4 3 – 4 9 5 2 9 34 42 35 0 0 0 0 0 1 1 0 3
Bud Neck 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0
Bud Site 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 10 26 17 28 12 7 – 14 36 38 37 42 14 15 30 10 15 20 0 0 1 1 1 1
Cytoplasm 498 534 670 354 299 468 – 308 471 438 364 377 322 277 289 139 168 176 494 523 644 310 260 348
Endoplasmic Reticulum 11 9 5 21 13 55 – 47 52 97 72 101 30 25 24 5 1 6 7 9 24 13 19 28
Endosome 1 0 0 0 0 1 – 1 0 0 0 1 45 62 57 0 0 1 4 1 4 1 2 7
Golgi 1 0 0 0 0 0 – 1 0 1 1 1 92 64 124 0 0 1 1 2 1 0 0 5
Mitochondria 4 1 7 25 25 57 – 70 140 139 121 179 0 2 0 1 6 1 2 1 5 0 0 2
Nucleus 3 0 3 2 1 3 – 2 1 8 5 4 0 1 0 2 0 1 2 0 2 0 0 1
Nuclear Periphery 0 0 0 0 0 1 – 1 2 16 1 1 0 0 0 1 0 0 0 1 2 1 0 1
Nucleolus 0 0 0 0 0 0 – 5 0 3 1 1 5 3 5 0 0 0 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 – 0 0 0 0 0 1 5 5 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 – 0 0 0 0 0 18 23 40 0 0 0 0 0 0 0 1 2
Vac/Vac Membrane 5 8 0 3 8 16 – 78 50 77 32 33 3 6 13 3 11 5 5 9 10 6 4 4
Unique Cell Count 516 551 681 403 342 577 492 692 756 562 672 526 491 582 149 184 188 526 557 708 340 296 419
Labelled Cell Count 535 579 720 443 362 616 537 768 839 645 757 652 609 745 161 201 211 526 557 708 340 296 419


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) 14.6 18.2 9.8 12.7 7.9 11.7 – 11.3 11.0 11.2 11.4 11.3 18.3 18.2 18.4 20.5 21.2 21.0 17.0 17.5 18.1
Std Deviation (1e-4) 2.5 2.7 1.7 2.0 1.9 2.2 – 2.5 2.4 2.4 2.6 2.5 2.7 3.1 3.1 6.7 6.6 5.4 2.8 3.3 3.6
Intensity Change (Log2) – – – 0.37 -0.31 0.26 – 0.2 0.17 0.19 0.22 0.2 0.9 0.89 0.91 1.06 1.11 1.09 0.79 0.83 0.88


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 2.9 2.1 1.5 10.6 10.7 12.2 0 0 0
Bud -0.8 -1.2 -2.5 – -1.9 -1.3 -2.5 -2.8 -1.2 3.7 5.0 3.5 0 0 0
Bud Neck 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 3.6 0.9 -1.7 – 0.4 2.6 2.5 3.5 3.4 0.2 0.6 2.5 0 3.6 4.9
Cytoplasm -7.3 -7.4 -10.4 – -16.2 -15.0 -18.2 -15.8 -18.6 -16.7 -18.0 -20.2 -3.6 -4.9 -3.6
Endoplasmic Reticulum 4.7 3.5 7.3 – 7.2 6.3 8.9 8.8 9.8 5.1 4.7 4.0 0 0 0
Endosome 0 0 0 – 0 0 0 0 0 7.8 9.5 8.4 0 0 0
Golgi 0 0 0 – 0 0 0 0 0 11.4 9.7 12.7 0 0 0
Mitochondria 4.9 5.4 7.1 – 9.0 11.5 10.9 11.8 13.7 0 0 0 0 0 0
Nucleus 0 0 0 – 0 0 1.3 0 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0 – 0 0 3.8 0 0 0 0 0 0 0 0
Nucleolus 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
SpindlePole 0 0 0 – 0 0 0 0 0 4.9 5.7 7.0 0 0 0
Vacuole 0 0 4.4 – 10.8 7.1 8.6 6.3 5.9 0 0 3.9 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 15.854 18.6895 17.9195 17.0192 17.4881 16.9128 10.5521 13.7667 12.57 12.2305 10.5907 12.2298 15.1246 17.1531 16.5451 15.4794 15.3272 16.0252
Actin 0.002 0.0008 0.0003 0.0002 0.0006 0.0004 0.0118 0.0015 0.0078 0.0006 0.0116 0.0034 0.0003 0.0004 0.0004 0.0002 0.0001 0.0001
Bud 0.0002 0.0002 0.0001 0.0001 0.0001 0.0001 0.0006 0.0005 0.0007 0.0021 0.0054 0.0008 0.0004 0.0001 0.0001 0.0001 0.0001 0
Bud Neck 0.0003 0.0003 0.0003 0.0005 0.0006 0.0011 0.0008 0.0002 0.0017 0.0006 0.0007 0.0009 0.0008 0.0003 0.0002 0.0004 0.0004 0.0007
Bud Periphery 0.0001 0.0002 0 0 0 0.0001 0.0005 0.0001 0.0006 0.0006 0.0047 0.0004 0.0007 0 0 0 0 0
Bud Site 0.0001 0.0004 0.0001 0.0001 0.0001 0.0001 0.0013 0.003 0.0019 0.0007 0.0056 0.0001 0.0002 0.0002 0.0001 0 0 0
Cell Periphery 0.0001 0.0002 0.0001 0 0.0001 0.0001 0.0002 0.0001 0.0001 0.0001 0.0005 0 0.0003 0.0001 0 0 0 0
Cytoplasm 0.9297 0.9741 0.9726 0.9384 0.9564 0.9367 0.8217 0.9615 0.9315 0.8868 0.9015 0.9422 0.9274 0.9749 0.979 0.9461 0.964 0.9625
Cytoplasmic Foci 0.0041 0.003 0.0028 0.0057 0.0035 0.0047 0.0315 0.008 0.0144 0.0066 0.0046 0.0127 0.0061 0.0031 0.0031 0.0045 0.0051 0.0039
Eisosomes 0 0 0 0 0 0 0.0001 0 0 0 0 0 0 0 0 0 0 0
Endoplasmic Reticulum 0.0345 0.0097 0.0121 0.0287 0.0164 0.0319 0.0282 0.0111 0.0079 0.0755 0.0066 0.0148 0.0282 0.0118 0.0105 0.0243 0.0112 0.0194
Endosome 0.0089 0.0045 0.0045 0.0141 0.0104 0.0123 0.0493 0.006 0.0155 0.0118 0.0143 0.0127 0.0106 0.0035 0.0032 0.017 0.0099 0.0066
Golgi 0.0009 0.0012 0.0004 0.0007 0.0006 0.0011 0.0102 0.0015 0.0038 0.0007 0.001 0.0027 0.0005 0.0008 0.0003 0.0006 0.0003 0.0004
Lipid Particles 0.0001 0.0001 0 0 0.0001 0 0.0063 0.0002 0.0005 0.0001 0.0002 0.0001 0.0008 0.0001 0 0 0 0
Mitochondria 0.0006 0.0005 0.0002 0.0006 0.0003 0.0011 0.0071 0.0016 0.0023 0.0008 0.0008 0.0016 0.0006 0.0003 0.0002 0.0004 0.0003 0.0009
None 0.0014 0.0004 0.0004 0.0003 0.0004 0.0005 0.0044 0.0011 0.0021 0.002 0.003 0.0016 0.0062 0.0005 0.0004 0.0006 0.0007 0.0007
Nuclear Periphery 0.0077 0.0013 0.0024 0.0023 0.0035 0.0035 0.0062 0.0008 0.0027 0.0046 0.0214 0.001 0.0057 0.0016 0.0008 0.0015 0.0024 0.0014
Nucleolus 0 0 0 0 0 0 0.0002 0 0.0001 0 0.0002 0 0.0001 0 0 0 0 0
Nucleus 0.0038 0.0015 0.0017 0.0022 0.0025 0.0033 0.0042 0.0011 0.002 0.0028 0.0115 0.0016 0.0041 0.0013 0.0009 0.0015 0.0034 0.0018
Peroxisomes 0.0001 0 0 0.0001 0 0 0.0029 0.0004 0.0009 0.0001 0.0001 0.0016 0.0001 0 0 0 0 0
Punctate Nuclear 0.0002 0.0001 0.0001 0.0001 0.0001 0.0001 0.0038 0.0005 0.0006 0.0005 0.0017 0.0003 0.0007 0.0001 0.0001 0.0001 0.0002 0.0001
Vacuole 0.0044 0.0011 0.0015 0.0045 0.0034 0.0022 0.007 0.0007 0.0021 0.0025 0.0034 0.0012 0.0053 0.0009 0.0005 0.002 0.0014 0.001
Vacuole Periphery 0.0008 0.0002 0.0003 0.0013 0.0008 0.0007 0.0019 0.0002 0.0007 0.0006 0.0012 0.0005 0.001 0.0002 0.0001 0.0007 0.0004 0.0003

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 49.1459 59.5227 48.3749 67.3693 57.5534 19.0137 47.2869 57.061 68.153 63.3825
Translational Efficiency 3.1628 2.3436 2.4887 2.3943 2.5327 8.7422 2.9782 2.4685 2.2959 2.683

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
Localization
Cell Percentages cytoplasm (93%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-5

Lsm7

Lsm7


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 (Lsm7-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