Within-species exploratory view · GSE43013

Domestic cat native expression

Felis catus

Sample QC, log-transformed PCA, and the most variable source-native feature IDs from Per-sample GEO-supplied FPKM files.

View PCA → Open Igf1 gene profile → Source samples → LACA content → Open GEO ↗
Samples
9
Native features
19,299
Expression unit
GEO-supplied FPKM
9 samples in this species view
19,299 source-native feature IDs
GSE43013 GEO-supplied FPKM
3 Table S1 tissues represented
Exploratory ordination

PCA of log1p native expression

SVD PCA after feature-wise centering after log1p(GEO-supplied FPKM). Axes apply only to this species and dataset.

Domestic cat GSE43013 PCA Scatter plot of 9 samples. Each point is keyboard focusable and labelled by accession and tissue. fca.lv.1 · Liver · PC1 -90.00 · PC2 -56.43 fca.lv.2 · Liver · PC1 -89.77 · PC2 -58.00 fca.lv.3 · Liver · PC1 -91.95 · PC2 -60.48 fca.kd.1 · Kidney · PC1 -34.64 · PC2 69.21 fca.kd.2 · Kidney · PC1 -38.32 · PC2 80.22 fca.kd.3 · Kidney · PC1 -26.00 · PC2 90.44 fca.br.1 · Brain · PC1 122.10 · PC2 -20.42 fca.br.2 · Brain · PC1 126.35 · PC2 -20.99 fca.br.3 · Brain · PC1 122.22 · PC2 -23.55
Observed ranges: PC1 -91.95 to 126.35; PC2 -60.48 to 90.44.

Tissue legend

  • Brain3
  • Kidney3
  • Liver3
Transform
log1p(GEO-supplied FPKM)
Feature policy
Intersection of native feature IDs across samples within each species.
Normalization
The source reports Cufflinks FPKM; LACA applies log1p only for within-species PCA/QC.
Sample-level quality context

Detected features and expression totals

These are descriptive summaries of the supplied GEO-supplied FPKM values—not read-depth QC metrics and not thresholds for sample exclusion.

Sample Tissue Detected native features Total GEO-supplied FPKM Median positive value
fca.lv.1 ↗ GSM1055004 Liver 13,097 1.088e+7 7.8252
fca.lv.2 ↗ GSM1055005 Liver 13,079 9.620e+6 7.6070
fca.lv.3 ↗ GSM1055006 Liver 13,271 1.029e+7 6.7031
fca.kd.1 ↗ GSM1055054 Kidney 14,014 1.519e+7 11.2648
fca.kd.2 ↗ GSM1055055 Kidney 13,813 1.760e+7 10.4809
fca.kd.3 ↗ GSM1055056 Kidney 13,887 1.023e+7 14.8974
fca.br.1 ↗ GSM1055098 Brain 14,463 2.173e+7 16.1050
fca.br.2 ↗ GSM1055099 Brain 14,499 1.496e+7 16.3366
fca.br.3 ↗ GSM1055100 Brain 14,255 1.555e+7 16.5380
Source-native feature ranking

Top variable native feature IDs

Ranked by variance after log1p transformation within this exact view. IDs are reported verbatim from the source matrix and must not be treated as cross-species orthologs.

  1. 01
    ENSFCAG00000019170
    log1p variance
    31.0055
    mean native value
    20,419.0
    detected samples
    4/9
  2. 02
    tRNA-Ser-2
    log1p variance
    29.2226
    mean native value
    35,923.8
    detected samples
    6/9
  3. 03
    ENSFCAG00000011236
    log1p variance
    26.3057
    mean native value
    8,119.6
    detected samples
    4/9
  4. 04
    ENSFCAG00000018261
    log1p variance
    25.9829
    mean native value
    8,772.1
    detected samples
    4/9
  5. 05
    tRNA-Phe
    log1p variance
    25.4413
    mean native value
    8,277.9
    detected samples
    4/9
  6. 06
    tRNA-Val
    log1p variance
    25.3465
    mean native value
    7,903.3
    detected samples
    3/9
  7. 07
    ENSFCAG00000020337
    log1p variance
    25.2091
    mean native value
    8,698.6
    detected samples
    3/9
  8. 08
    ENSFCAG00000021749
    log1p variance
    24.7705
    mean native value
    12,854.2
    detected samples
    5/9
  9. 09
    ENSFCAG00000010964
    log1p variance
    24.5692
    mean native value
    6,760.1
    detected samples
    3/9
  10. 10
    ENSFCAG00000018944
    log1p variance
    23.7731
    mean native value
    5,771.3
    detected samples
    3/9
  11. 11
    ENSFCAG00000016619
    log1p variance
    23.7495
    mean native value
    6,437.2
    detected samples
    3/9
  12. 12
    ENSFCAG00000019671
    log1p variance
    22.0709
    mean native value
    4,507.1
    detected samples
    5/9
  13. 13
    ENSFCAG00000020027
    log1p variance
    22.0708
    mean native value
    4,686.3
    detected samples
    5/9
  14. 14
    ENSFCAG00000021152
    log1p variance
    21.6810
    mean native value
    4,444.4
    detected samples
    5/9
  15. 15
    ENSFCAG00000020053
    log1p variance
    21.5093
    mean native value
    3,700.6
    detected samples
    5/9
  16. 16
    ENSFCAG00000021662
    log1p variance
    20.2183
    mean native value
    3,274.2
    detected samples
    4/9
  17. 17
    ENSFCAG00000018034
    log1p variance
    20.1938
    mean native value
    3,639.5
    detected samples
    3/9
  18. 18
    ENSFCAG00000019069
    log1p variance
    20.1222
    mean native value
    5,155.9
    detected samples
    8/9
  19. 19
    ENSFCAG00000020367
    log1p variance
    19.8808
    mean native value
    2,604.7
    detected samples
    3/9
  20. 20
    ENSFCAG00000017943
    log1p variance
    19.4765
    mean native value
    19,316.0
    detected samples
    7/9
  21. 21
    ENSFCAG00000019419
    log1p variance
    19.3482
    mean native value
    1,988.3
    detected samples
    4/9
  22. 22
    ENSFCAG00000021129
    log1p variance
    19.3165
    mean native value
    2,454.0
    detected samples
    5/9
  23. 23
    ENSFCAG00000019681
    log1p variance
    18.9390
    mean native value
    4,095.2
    detected samples
    6/9
  24. 24
    ENSFCAG00000019719
    log1p variance
    18.7367
    mean native value
    1,923.3
    detected samples
    3/9
  25. 25
    ENSFCAG00000020978
    log1p variance
    18.4512
    mean native value
    14,323.2
    detected samples
    7/9
Reproducible boundary

What this page computes—and what it does not

Input

Per-sample GEO-supplied FPKM files

The source reports Cufflinks FPKM; LACA applies log1p only for within-species PCA/QC.

Within-species computation

QC · PCA · variable features

Intersection of native feature IDs across samples within each species.

Not computed

No cross-species expression test

No matrix merge, differential-expression result, lifespan regression, or causal claim is presented here.

Source integrity

GSE43013_RAW.tar

SHA-256 550e7fd866249caa7d43d85beef62dd19f4d139cc41dae0b2d0a012ccb9e3bf1

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