Within-species exploratory view · GSE43013

Brazilian free-tailed Bat native expression

Tadarida brasiliensis

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
3
Native features
8,657
Expression unit
GEO-supplied FPKM
3 samples in this species view
8,657 source-native feature IDs
GSE43013 GEO-supplied FPKM
1 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.

Brazilian free-tailed Bat GSE43013 PCA Scatter plot of 3 samples. Each point is keyboard focusable and labelled by accession and tissue. tbr.lv.1 · Liver · PC1 -19.37 · PC2 -14.12 tbr.lv.2 · Liver · PC1 -6.26 · PC2 19.93 tbr.lv.3 · Liver · PC1 25.63 · PC2 -5.81
Observed ranges: PC1 -19.37 to 25.63; PC2 -14.12 to 19.93.

Tissue legend

  • 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
tbr.lv.1 ↗ GSM1055033 Liver 8,612 1.195e+6 24.7755
tbr.lv.2 ↗ GSM1055034 Liver 8,641 1.195e+6 24.0787
tbr.lv.3 ↗ GSM1055035 Liver 8,648 1.277e+6 22.6382
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
    TBRG00000009654
    log1p variance
    11.0509
    mean native value
    236.8055
    detected samples
    3/3
  2. 02
    TBRG00000004609
    log1p variance
    9.2816
    mean native value
    175.6961
    detected samples
    3/3
  3. 03
    TBRG00000009689
    log1p variance
    7.9706
    mean native value
    150.3630
    detected samples
    3/3
  4. 04
    TBRG00000009650
    log1p variance
    6.6038
    mean native value
    32.8203
    detected samples
    2/3
  5. 05
    TBRG00000004560
    log1p variance
    6.4522
    mean native value
    57.5548
    detected samples
    2/3
  6. 06
    TBRG00000009389
    log1p variance
    6.3293
    mean native value
    35.6301
    detected samples
    2/3
  7. 07
    TBRG00000003933
    log1p variance
    6.1779
    mean native value
    48.7259
    detected samples
    2/3
  8. 08
    TBRG00000004513
    log1p variance
    6.0720
    mean native value
    46.9240
    detected samples
    2/3
  9. 09
    TBRG00000007779
    log1p variance
    5.8487
    mean native value
    45.4228
    detected samples
    2/3
  10. 10
    TBRG00000008348
    log1p variance
    5.6732
    mean native value
    40.6714
    detected samples
    2/3
  11. 11
    TBRG00000007071
    log1p variance
    5.3629
    mean native value
    36.1495
    detected samples
    2/3
  12. 12
    TBRG00000009723
    log1p variance
    4.8632
    mean native value
    14.8623
    detected samples
    1/3
  13. 13
    TBRG00000009835
    log1p variance
    4.7570
    mean native value
    14.2385
    detected samples
    1/3
  14. 14
    TBRG00000008707
    log1p variance
    4.6424
    mean native value
    19.1927
    detected samples
    2/3
  15. 15
    TBRG00000009819
    log1p variance
    4.4648
    mean native value
    12.6185
    detected samples
    1/3
  16. 16
    TBRG00000005678
    log1p variance
    4.4458
    mean native value
    25.3046
    detected samples
    2/3
  17. 17
    TBRG00000009731
    log1p variance
    4.3788
    mean native value
    25.6771
    detected samples
    3/3
  18. 18
    TBRG00000009794
    log1p variance
    4.3709
    mean native value
    18.2916
    detected samples
    2/3
  19. 19
    TBRG00000009753
    log1p variance
    4.3530
    mean native value
    12.0347
    detected samples
    1/3
  20. 20
    TBRG00000008687
    log1p variance
    4.2279
    mean native value
    11.4045
    detected samples
    1/3
  21. 21
    TBRG00000009839
    log1p variance
    4.2210
    mean native value
    18.6285
    detected samples
    2/3
  22. 22
    TBRG00000009707
    log1p variance
    4.0682
    mean native value
    10.6337
    detected samples
    1/3
  23. 23
    TBRG00000007671
    log1p variance
    4.0622
    mean native value
    21.3633
    detected samples
    2/3
  24. 24
    TBRG00000009741
    log1p variance
    4.0592
    mean native value
    13.0365
    detected samples
    2/3
  25. 25
    TBRG00000009867
    log1p variance
    4.0015
    mean native value
    20.6908
    detected samples
    2/3
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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