DeepGene damage signature

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

Damage score · retest day 90

85/100

vs baseline (day 0)

+11

1 improved · 10 worsened

synthetic signature · consistent with this patient's biology

4 opportunists above range: Klebsiella pneumoniae, Enterococcus faecium, Streptococcus gallolyticus
6 keystone species absent
Shannon 1.63 (expected ≥ 3)
10 resistance genes
Host DNA fragmentation atypical
Tissue recycling index 64

Pathogens / opportunists4/5

↑ from 2

Keystone species6/8

↑ from 4

Diversity2/2

Metabolic modules0/4

Vitamin synthesis5/7

↑ from 4

Oral translocation1/1

Host DNA1/1

Tissue recycling1/1

Central mechanisms2/2

↑ from 1

Virulence factors6/6

↑ from 4

Antibiotic resistance genes10/10

↑ from 8

Genetic predisposition2/2

Opportunists above range

Enterococcus faecium 15.941% AR

Klebsiella pneumoniae 9.564% AR

Streptococcus gallolyticus 3.188% AR

Clostridioides difficile 3.188% AR

Keystone species absent

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

Capacity

Shannon 1.63 · butyrate 323 CPM · SCFA 593

5 vitamins below

Host & mechanisms

host DNA fragmentation atypical

tissue recycling 64/100

oral translocation 7.22% AR

molecular_mimicry above

estrobolome above

10 resistance genes · 6 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	0.139 % AR · in range	0.112 % AR · in range	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	6.779 % AR · above range	9.564 % AR · above range	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	0.363 % AR · in range	15.941 % AR · above range(worsened)	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	2.26 % AR · above range	3.188 % AR · above range	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	0.042 % AR · in range	3.188 % 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	0.93 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	0.17 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	0.88 % AR · in range	0.26 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.29 % AR · in range	1.07 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	2.45 · below range	1.63 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	99 specii · below range	54 specii · below range	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	529 CPM · in range	323 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	886 CPM · in range	593 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	255 CPM · in range	156 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	107 CPM · in range	126 CPM · in range	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	194 CPM · below range	417 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	510 CPM · below range	200 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	372 CPM · below range	325 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	177 CPM · below range	508 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	4444 CPM · in range	163 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	3544 CPM · in range	2900 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	4446 CPM · in range	2678 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

5.13 % AR · above range

7.22 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

215 pb · atypical

243 pb · atypical

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

46 /100 · above range

64 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	67 /100 · above range	80 /100 · above range	expected < 65	Cross-reactive antigen load.
estrobolome	64 /100 · in range	68 /100 · above range(worsened)	expected < 65	Estrogen-recycling capacity.

Species dominance · 1

Bifidobacterium breve

26.43 % AR · above range

resolved(resolved)

expected < 20% per specie

One species occupies the niche of others.

Virulence factors · 6

fimD outer membrane usher	23 potriviri/M · present	60 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	58 potriviri/M · present	60 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	21 potriviri/M · present	80 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	89 potriviri/M · present	94 potriviri/M · present	expected absent	Virulence factor detected.
kpsD polysialic acid transport	—	40 potriviri/M · present(new)	expected absent	Virulence factor detected.
acrB acriflavine resistance	—	99 potriviri/M · present(new)	expected absent	Virulence factor detected.

Antibiotic resistance genes · 10

sul1	8.9 citiri/M · present	2.9 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	9.3 citiri/M · present	10.7 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	3.8 citiri/M · present	7.6 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	2.1 citiri/M · present	6.1 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	9.1 citiri/M · present	5.7 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	8.6 citiri/M · present	7.6 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	10.7 citiri/M · present	1.8 citiri/M · present	expected nedetectat	Resistance gene detected.
Erm(49)	6.3 citiri/M · present	10.3 citiri/M · present	expected nedetectat	Resistance gene detected.
msrC	—	1.8 citiri/M · present(new)	expected nedetectat	Resistance gene detected.
eptB	—	4.7 citiri/M · present(new)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 2

IL6	2.95 OR · risk variant	2.31 OR · risk variant	expected reference genotype	Higher inflammatory tone
CYP2D6	1.65 OR · risk variant	1.73 OR · risk variant	expected reference genotype	Expected exposure