DeepGene damage signature

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

Damage score · retest day 90

78/100

vs baseline (day 0)

2 improved · 7 worsened

synthetic signature · consistent with this patient's biology

4 opportunists above range: Escherichia coli, Klebsiella pneumoniae, Enterococcus faecium
6 keystone species absent
Shannon 1.89 (expected ≥ 3)
10 resistance genes
Tissue recycling index 56

Pathogens / opportunists4/5

Keystone species6/8

↑ from 4

Diversity2/2

Metabolic modules0/4

Vitamin synthesis5/7

↑ from 4

Oral translocation1/1

Host DNA0/1

Tissue recycling1/1

Central mechanisms2/2

Virulence factors6/6

↑ from 4

Antibiotic resistance genes10/10

↑ from 9

Genetic predisposition2/2

Opportunists above range

Escherichia coli 30.739% AR

Enterococcus faecium 15.37% AR

Klebsiella pneumoniae 9.222% AR

Clostridioides difficile 3.074% AR

Keystone species absent

Akkermansia muciniphila, Bifidobacterium longum, Butyricicoccus pullicaecorum, Eubacterium rectale, Faecalibacterium prausnitzii

Capacity

Shannon 1.89 · butyrate 340 CPM · SCFA 635

5 vitamins below

Host & mechanisms

tissue recycling 56/100

oral translocation 6.97% AR

molecular_mimicry above

estrobolome above

10 resistance genes · 6 virulence factors

Import a sample

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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	23.399 % AR · above range	30.739 % AR · above range	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	7.02 % AR · above range	9.222 % AR · above range	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	0.065 % AR · in range	15.37 % AR · above range(worsened)	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	2.34 % AR · above range	0.052 % AR · in range(improved)	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	2.34 % AR · above range	3.074 % AR · above 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	0.81 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	1.2 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	0.76 % AR · in range	1.25 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.38 % AR · in range	1.48 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	2.19 · below range	1.89 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	94 specii · below range	56 specii · below range	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	514 CPM · in range	340 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	877 CPM · in range	635 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	245 CPM · in range	181 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	138 CPM · in range	139 CPM · in range	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	447 CPM · below range	450 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	203 CPM · below range	164 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	535 CPM · below range	408 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	359 CPM · below range	380 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	3569 CPM · in range	504 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	3774 CPM · in range	4146 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	3035 CPM · in range	2636 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

5.31 % AR · above range

6.97 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

160 pb · in range

155 pb · in range

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

49 /100 · above range

56 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	68 /100 · above range	73 /100 · above range	expected < 65	Cross-reactive antigen load.
estrobolome	67 /100 · above range	72 /100 · above range	expected < 65	Estrogen-recycling capacity.

Species dominance · 1

Bifidobacterium breve

34.91 % AR · above range

resolved(resolved)

expected < 20% per specie

One species occupies the niche of others.

Virulence factors · 6

fimD outer membrane usher	31 potriviri/M · present	70 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	76 potriviri/M · present	28 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	29 potriviri/M · present	53 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	74 potriviri/M · present	66 potriviri/M · present	expected absent	Virulence factor detected.
kpsD polysialic acid transport	—	92 potriviri/M · present(new)	expected absent	Virulence factor detected.
acrB acriflavine resistance	—	49 potriviri/M · present(new)	expected absent	Virulence factor detected.

Antibiotic resistance genes · 10

sul1	5 citiri/M · present	5.9 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	9 citiri/M · present	5.5 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	2.5 citiri/M · present	8.3 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	5.5 citiri/M · present	8.3 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	8.4 citiri/M · present	9.3 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	10.7 citiri/M · present	3.8 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	9.8 citiri/M · present	6.4 citiri/M · present	expected nedetectat	Resistance gene detected.
Erm(49)	4.7 citiri/M · present	8.9 citiri/M · present	expected nedetectat	Resistance gene detected.
msrC	1.9 citiri/M · present	2.5 citiri/M · present	expected nedetectat	Resistance gene detected.
eptB	—	10.8 citiri/M · present(new)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 2

FUT2	3.24 OR · risk variant	1.55 OR · risk variant	expected reference genotype	Reduced mucosal fucosylation
CYP2D6	3.38 OR · risk variant	2.83 OR · risk variant	expected reference genotype	Higher exposure at standard dose