DeepGene damage signature

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

Damage score · retest day 90

88/100

vs baseline (day 0)

+28

0 improved · 13 worsened

synthetic signature · consistent with this patient's biology

4 opportunists above range: Escherichia coli, Enterococcus faecium, Streptococcus gallolyticus
5 keystone species absent
Shannon 2 (expected ≥ 3)
9 resistance genes
Host DNA fragmentation atypical
Tissue recycling index 61

Pathogens / opportunists4/5

↑ from 3

Keystone species5/8

↑ from 3

Diversity2/2

↑ from 1

Metabolic modules1/4

Vitamin synthesis5/7

↑ from 3

Oral translocation1/1

Host DNA1/1

↑ from 0

Tissue recycling1/1

Central mechanisms2/2

↑ from 1

Species dominance1/1

↑ from 0

Virulence factors5/5

↑ from 3

Antibiotic resistance genes9/9

↑ from 7

Genetic predisposition1/1

Opportunists above range

Escherichia coli 28.575% AR

Enterococcus faecium 14.287% AR

Streptococcus gallolyticus 2.857% AR

Clostridioides difficile 2.857% AR

Keystone species absent

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

Capacity

Shannon 2 · butyrate 385 CPM · SCFA 709

H2S above band

5 vitamins below

Host & mechanisms

host DNA fragmentation atypical

tissue recycling 61/100

oral translocation 6.48% AR

molecular_mimicry above

estrobolome above

9 resistance genes · 5 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	17.707 % AR · above range	28.575 % AR · above range	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	0.039 % AR · in range	0.219 % AR · in range	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	0.104 % AR · in range	14.287 % AR · above range(worsened)	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	1.771 % AR · above range	2.857 % AR · above range	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	1.771 % AR · above range	2.857 % 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	0.24 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Faecalibacterium prausnitzii	0.37 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	0.64 % AR · in range	1.11 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	1.09 % AR · in range	0.52 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.34 % AR · in range	0.34 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	2.51 · below range	2 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	104 specii · in range	73 specii · below range(worsened)	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	586 CPM · in range	385 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	972 CPM · in range	709 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	346 CPM · in range	218 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	331 CPM · above range	312 CPM · above range	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	479 CPM · below range	523 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	539 CPM · below range	533 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	217 CPM · below range	389 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	3967 CPM · in range	448 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	3124 CPM · in range	259 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	4143 CPM · in range	3900 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	2967 CPM · in range	4234 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

4.03 % AR · above range

6.48 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

158 pb · in range

205 pb · atypical(worsened)

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

41 /100 · above range

61 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	66 /100 · above range	78 /100 · above range	expected < 65	Cross-reactive antigen load.
estrobolome	61 /100 · in range	69 /100 · above range(worsened)	expected < 65	Estrogen-recycling capacity.

Species dominance · 1

Bifidobacterium breve

—

30.6 % AR · above range(new)

expected < 20% per specie

One species occupies the niche of others.

Virulence factors · 5

fimD outer membrane usher	68 potriviri/M · present	81 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	96 potriviri/M · present	65 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	36 potriviri/M · present	73 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	—	72 potriviri/M · present(new)	expected absent	Virulence factor detected.
kpsD polysialic acid transport	—	42 potriviri/M · present(new)	expected absent	Virulence factor detected.

Antibiotic resistance genes · 9

sul1	5.1 citiri/M · present	5.5 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	1.6 citiri/M · present	8.2 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	7.4 citiri/M · present	8.8 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	8.6 citiri/M · present	1.9 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	9.2 citiri/M · present	10 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	1.9 citiri/M · present	5.4 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	3.4 citiri/M · present	6.8 citiri/M · present	expected nedetectat	Resistance gene detected.
Erm(49)	—	1.9 citiri/M · present(new)	expected nedetectat	Resistance gene detected.
msrC	—	8 citiri/M · present(new)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 1

CYP2D6

1.6 OR · risk variant

2.31 OR · risk variant

expected reference genotype

Higher exposure at standard dose