DeepGene damage signature

SyntheticSynthetic demo data2 samples: baseline day 0 · retest day 90

Damage score · retest day 90

62/100

vs baseline (day 0)

-6

3 improved · 3 worsened

synthetic signature · consistent with this patient's biology

1 opportunist above range: Enterococcus faecium
4 keystone species absent
Shannon 2.19 (expected ≥ 3)
6 resistance genes
Tissue recycling index 47

Pathogens / opportunists1/5

Keystone species4/8

Diversity2/2

Metabolic modules0/4

Vitamin synthesis4/7

↑ from 3

Oral translocation1/1

Host DNA0/1

↓ from 1

Tissue recycling1/1

Central mechanisms1/2

Species dominance1/1

↑ from 0

Virulence factors4/4

Antibiotic resistance genes6/6

↓ from 7

Genetic predisposition2/2

Opportunists above range

Enterococcus faecium 11.165% AR

Keystone species absent

Akkermansia muciniphila, Bifidobacterium longum, Butyricicoccus pullicaecorum, Eubacterium rectale

Capacity

Shannon 2.19 · butyrate 494 CPM · SCFA 899

4 vitamins below

Host & mechanisms

tissue recycling 47/100

oral translocation 5.07% AR

molecular_mimicry above

6 resistance genes · 4 virulence factors

Import a sample

day Import DeepGene CSV

A baseline sample re-initializes this patient's microbiome, pathways and predispositions from the measurement; a retest adds a comparison and updates them. Every theory, steering gain and dietary sensitivity downstream is then conditioned on the measured signature.

All elements · baseline → latest

Value, status vs the expected range, and the implication on health. Changes coloured: green improved / resolved, red worsened / new.

Pathogens / opportunists · 5

Escherichia coli	0.731 % AR · in range	0.704 % AR · in range	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	6.023 % AR · above range	0.059 % AR · in range(improved)	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	0.001 % AR · in range	11.165 % AR · above range(worsened)	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	0.061 % AR · in range	0.004 % AR · in range	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	0.013 % AR · in range	0.011 % AR · in range	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.

Keystone species · 8

Akkermansia muciniphila	0 % AR · absent	0 % AR · absent	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Bifidobacterium longum	0 % AR · absent	0 % AR · absent	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Butyricicoccus pullicaecorum	0 % AR · absent	0 % AR · absent	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Eubacterium rectale	0 % AR · absent	0 % AR · absent	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Faecalibacterium prausnitzii	0.12 % AR · in range	0.22 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	0.24 % AR · in range	1.4 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	0.55 % AR · in range	0.08 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.16 % AR · in range	0.05 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	2.59 · below range	2.19 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	95 specii · below range	97 specii · below range	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	539 CPM · in range	494 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	956 CPM · in range	899 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	318 CPM · in range	287 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	85 CPM · in range	80 CPM · in range	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	538 CPM · below range	258 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	328 CPM · below range	541 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	405 CPM · below range	458 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	3590 CPM · in range	264 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	3667 CPM · in range	4201 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	2743 CPM · in range	4117 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	2879 CPM · in range	3069 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

4.57 % AR · above range

5.07 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

248 pb · atypical

163 pb · in range(improved)

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

48 /100 · above range

47 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	70 /100 · above range	66 /100 · above range	expected < 65	Cross-reactive antigen load.
estrobolome	61 /100 · in range	62 /100 · in range	expected < 65	Estrogen-recycling capacity.

Species dominance · 1

Escherichia coli

—

20.77 % AR · above range(new)

expected < 20% per specie

One species occupies the niche of others.

Virulence factors · 4

fimD outer membrane usher	68 potriviri/M · present	29 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	58 potriviri/M · present	45 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	63 potriviri/M · present	94 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	25 potriviri/M · present	81 potriviri/M · present	expected absent	Virulence factor detected.

Antibiotic resistance genes · 7

sul1	4.5 citiri/M · present	2.9 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	10.2 citiri/M · present	8.2 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	6.4 citiri/M · present	4.6 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	8.6 citiri/M · present	1.3 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	2.3 citiri/M · present	8.4 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	6.1 citiri/M · present	1.4 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	2.5 citiri/M · present	resolved(resolved)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 2

CYP2D6	1.86 OR · risk variant	3.23 OR · risk variant	expected reference genotype	Expected exposure
MTHFR	3.02 OR · risk variant	2.99 OR · risk variant	expected reference genotype	Reduced folate turnover