DeepGene damage signature

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

Damage score · retest day 90

78/100

vs baseline (day 0)

-3

2 improved · 8 worsened

synthetic signature · consistent with this patient's biology

5 opportunists above range: Escherichia coli, Klebsiella pneumoniae, Enterococcus faecium
6 keystone species absent
Shannon 2.05 (expected ≥ 3)
11 resistance genes
Tissue recycling index 55

Pathogens / opportunists5/5

↑ from 3

Keystone species6/8

↑ from 5

Diversity2/2

Metabolic modules0/4

Vitamin synthesis5/7

↑ from 4

Oral translocation1/1

Host DNA0/1

↓ from 1

Tissue recycling1/1

Central mechanisms2/2

Virulence factors6/6

↑ from 5

Antibiotic resistance genes11/11

↑ from 8

Genetic predisposition2/2

Opportunists above range

Escherichia coli 31.089% AR

Enterococcus faecium 15.544% AR

Klebsiella pneumoniae 9.327% AR

Streptococcus gallolyticus 3.109% AR

Keystone species absent

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

Capacity

Shannon 2.05 · butyrate 312 CPM · SCFA 615

5 vitamins below

Host & mechanisms

tissue recycling 55/100

oral translocation 7.05% AR

molecular_mimicry above

estrobolome above

11 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	26.821 % AR · above range	31.089 % AR · above range	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	8.046 % AR · above range	9.327 % AR · above range	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	13.41 % AR · above range	15.544 % AR · above range	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	0.032 % AR · in range	3.109 % AR · above range(worsened)	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	0.059 % AR · in range	3.109 % AR · above range(worsened)	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 % AR · absent	0 % AR · absent	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	1.42 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	0.3 % AR · in range	1.32 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.49 % AR · in range	0.04 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	2.17 · below range	2.05 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	77 specii · below range	70 specii · below range	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	442 CPM · in range	312 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	797 CPM · in range	615 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	218 CPM · in range	167 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	108 CPM · in range	121 CPM · in range	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	507 CPM · below range	279 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	208 CPM · below range	406 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	416 CPM · below range	363 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	384 CPM · below range	469 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	2765 CPM · in range	384 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	2952 CPM · in range	3676 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	3040 CPM · in range	4269 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

6.08 % AR · above range

7.05 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

237 pb · atypical

159 pb · in range(improved)

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

55 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	76 /100 · above range	79 /100 · above range	expected < 65	Cross-reactive antigen load.
estrobolome	71 /100 · above range	70 /100 · above range	expected < 65	Estrogen-recycling capacity.

Species dominance · 1

Bifidobacterium breve

20.35 % AR · above range

resolved(resolved)

expected < 20% per specie

One species occupies the niche of others.

Virulence factors · 6

fimD outer membrane usher	45 potriviri/M · present	88 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	46 potriviri/M · present	43 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	100 potriviri/M · present	76 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	42 potriviri/M · present	78 potriviri/M · present	expected absent	Virulence factor detected.
kpsD polysialic acid transport	77 potriviri/M · present	95 potriviri/M · present	expected absent	Virulence factor detected.
acrB acriflavine resistance	—	37 potriviri/M · present(new)	expected absent	Virulence factor detected.

Antibiotic resistance genes · 11

sul1	5.1 citiri/M · present	10.8 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	9 citiri/M · present	6.7 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	7.5 citiri/M · present	9.7 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	4.5 citiri/M · present	8.4 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	5.4 citiri/M · present	8.3 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	9 citiri/M · present	4.3 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	7.9 citiri/M · present	2.9 citiri/M · present	expected nedetectat	Resistance gene detected.
Erm(49)	3.5 citiri/M · present	3.4 citiri/M · present	expected nedetectat	Resistance gene detected.
msrC	—	7.2 citiri/M · present(new)	expected nedetectat	Resistance gene detected.
eptB	—	10.6 citiri/M · present(new)	expected nedetectat	Resistance gene detected.
ugd	—	9.7 citiri/M · present(new)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 2

FUT2	1.6 OR · risk variant	2.09 OR · risk variant	expected reference genotype	Reduced mucosal fucosylation
IL6	3.05 OR · risk variant	3.19 OR · risk variant	expected reference genotype	Higher inflammatory tone