Within-species exploratory view · GSE43013

Western European hedgehog native expression

Erinaceus europaeus

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 → Open GEO ↗
Samples
6
Native features
22,448
Expression unit
GEO-supplied FPKM
6 samples in this species view
22,448 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.

Western European hedgehog GSE43013 PCA Scatter plot of 6 samples. Each point is keyboard focusable and labelled by accession and tissue. eeu.lv.1 · Liver · PC1 -107.80 · PC2 -55.09 eeu.lv.2 · Liver · PC1 -109.88 · PC2 -60.57 eeu.kd.1 · Kidney · PC1 -16.63 · PC2 95.84 eeu.kd.2 · Kidney · PC1 -14.31 · PC2 96.92 eeu.br.1 · Brain · PC1 119.38 · PC2 -35.50 eeu.br.2 · Brain · PC1 129.23 · PC2 -41.60
Observed ranges: PC1 -109.88 to 129.23; PC2 -60.57 to 96.92.

Tissue legend

  • Brain2
  • Kidney2
  • Liver2
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
eeu.lv.1 ↗ GSM1055002 Liver 13,090 7.274e+6 8.2301
eeu.lv.2 ↗ GSM1055003 Liver 12,902 6.892e+6 8.3602
eeu.kd.1 ↗ GSM1055052 Kidney 14,099 8.193e+6 19.9347
eeu.kd.2 ↗ GSM1055053 Kidney 14,145 9.866e+6 21.4397
eeu.br.1 ↗ GSM1055096 Brain 14,229 2.259e+7 22.4976
eeu.br.2 ↗ GSM1055097 Brain 14,862 3.980e+7 23.0665
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
    ENSEEUG00000022604
    log1p variance
    38.0833
    mean native value
    52,239.5
    detected samples
    3/6
  2. 02
    ENSEEUG00000016906
    log1p variance
    30.9134
    mean native value
    14,524.1
    detected samples
    3/6
  3. 03
    ENSEEUG00000023577
    log1p variance
    30.5303
    mean native value
    31,924.1
    detected samples
    4/6
  4. 04
    ENSEEUG00000023004
    log1p variance
    29.4796
    mean native value
    10,136.7
    detected samples
    3/6
  5. 05
    ENSEEUG00000016600
    log1p variance
    29.1364
    mean native value
    9,752.4
    detected samples
    3/6
  6. 06
    ENSEEUG00000019387
    log1p variance
    27.6890
    mean native value
    10,076.6
    detected samples
    2/6
  7. 07
    ENSEEUG00000019368
    log1p variance
    27.6549
    mean native value
    7,914.0
    detected samples
    3/6
  8. 08
    ENSEEUG00000017578
    log1p variance
    27.4107
    mean native value
    8,846.5
    detected samples
    3/6
  9. 09
    ENSEEUG00000018036
    log1p variance
    26.3398
    mean native value
    19,388.1
    detected samples
    4/6
  10. 10
    ENSEEUG00000013620
    log1p variance
    26.0752
    mean native value
    29,570.3
    detected samples
    4/6
  11. 11
    ENSEEUG00000018197
    log1p variance
    25.8453
    mean native value
    14,432.6
    detected samples
    4/6
  12. 12
    ENSEEUG00000016110
    log1p variance
    25.5337
    mean native value
    5,936.5
    detected samples
    2/6
  13. 13
    ENSEEUG00000016312
    log1p variance
    25.4929
    mean native value
    5,064.1
    detected samples
    3/6
  14. 14
    ENSEEUG00000019474
    log1p variance
    25.1539
    mean native value
    6,519.2
    detected samples
    3/6
  15. 15
    ENSEEUG00000018867
    log1p variance
    24.9787
    mean native value
    4,977.2
    detected samples
    3/6
  16. 16
    ENSEEUG00000018518
    log1p variance
    24.7487
    mean native value
    4,722.1
    detected samples
    3/6
  17. 17
    tRNA-Met
    log1p variance
    24.1212
    mean native value
    149,060.0
    detected samples
    5/6
  18. 18
    ENSEEUG00000018945
    log1p variance
    23.7850
    mean native value
    4,343.7
    detected samples
    2/6
  19. 19
    ENSEEUG00000019449
    log1p variance
    23.7246
    mean native value
    9,164.7
    detected samples
    4/6
  20. 20
    ENSEEUG00000017038
    log1p variance
    23.2074
    mean native value
    3,998.8
    detected samples
    2/6
  21. 21
    ENSEEUG00000022189
    log1p variance
    22.9098
    mean native value
    3,267.8
    detected samples
    3/6
  22. 22
    ENSEEUG00000016051
    log1p variance
    22.5674
    mean native value
    3,164.7
    detected samples
    3/6
  23. 23
    ENSEEUG00000016415
    log1p variance
    22.5410
    mean native value
    3,313.9
    detected samples
    2/6
  24. 24
    ENSEEUG00000018719
    log1p variance
    22.2556
    mean native value
    10,149.6
    detected samples
    4/6
  25. 25
    ENSEEUG00000016464
    log1p variance
    22.0814
    mean native value
    2,985.8
    detected samples
    2/6
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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