DeepGene damage signature

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

Damage score · retest day 90

88/100

vs baseline (day 0)

+12

1 improved · 11 worsened

synthetic signature · consistent with this patient's biology

5 opportunists above range: Escherichia coli, Klebsiella pneumoniae, Enterococcus faecium
6 keystone species absent
Shannon 1.58 (expected ≥ 3)
10 resistance genes
Host DNA fragmentation atypical
Tissue recycling index 61

Pathogens / opportunists5/5

Keystone species6/8

↑ from 4

Diversity2/2

Metabolic modules1/4

Vitamin synthesis6/7

↑ from 4

Oral translocation1/1

Host DNA1/1

↑ from 0

Tissue recycling1/1

Central mechanisms2/2

↑ from 1

Species dominance1/1

Virulence factors6/6

↑ from 4

Antibiotic resistance genes10/10

↑ from 8

Genetic predisposition2/2

Opportunists above range

Escherichia coli 33.687% AR

Enterococcus faecium 16.843% AR

Klebsiella pneumoniae 10.106% AR

Streptococcus gallolyticus 3.369% AR

Keystone species absent

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

Capacity

Shannon 1.58 · butyrate 304 CPM · SCFA 553

H2S above band

6 vitamins below

Host & mechanisms

host DNA fragmentation atypical

tissue recycling 61/100

oral translocation 7.63% 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	22.099 % AR · above range	33.687 % AR · above range	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	6.63 % AR · above range	10.106 % AR · above range	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	11.049 % AR · above range	16.843 % AR · above range	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	2.21 % AR · above range	3.369 % AR · above range	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	2.21 % AR · above range	3.369 % 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	0.01 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	0.78 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	1.06 % AR · in range	0.14 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.49 % AR · in range	1.21 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	2.53 · below range	1.58 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	89 specii · below range	55 specii · below range	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	512 CPM · in range	304 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	909 CPM · in range	553 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	267 CPM · in range	139 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	304 CPM · above range	477 CPM · above range	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	169 CPM · below range	225 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	286 CPM · below range	164 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	304 CPM · below range	195 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	465 CPM · below range	248 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	3779 CPM · in range	480 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	4429 CPM · in range	434 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	4302 CPM · in range	4379 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

5.02 % AR · above range

7.63 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

166 pb · in range

202 pb · atypical(worsened)

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

43 /100 · above range

61 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	65 /100 · in range	77 /100 · above range(worsened)	expected < 65	Cross-reactive antigen load.
estrobolome	69 /100 · above range	76 /100 · above range	expected < 65	Estrogen-recycling capacity.

Species dominance · 2

Bifidobacterium breve	38.84 % AR · above range	resolved(resolved)	expected < 20% per specie	One species occupies the niche of others.
Escherichia coli	—	30.85 % AR · above range(new)	expected < 20% per specie	One species occupies the niche of others.

Virulence factors · 6

fimD outer membrane usher	69 potriviri/M · present	38 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	91 potriviri/M · present	54 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	53 potriviri/M · present	50 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	41 potriviri/M · present	98 potriviri/M · present	expected absent	Virulence factor detected.
kpsD polysialic acid transport	—	84 potriviri/M · present(new)	expected absent	Virulence factor detected.
acrB acriflavine resistance	—	59 potriviri/M · present(new)	expected absent	Virulence factor detected.

Antibiotic resistance genes · 10

sul1	7.7 citiri/M · present	1.7 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	2 citiri/M · present	6.5 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	3.6 citiri/M · present	4 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	9.9 citiri/M · present	5.3 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	2.6 citiri/M · present	2.8 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	8.3 citiri/M · present	6.7 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	3.1 citiri/M · present	11 citiri/M · present	expected nedetectat	Resistance gene detected.
Erm(49)	7.5 citiri/M · present	6.3 citiri/M · present	expected nedetectat	Resistance gene detected.
msrC	—	1.4 citiri/M · present(new)	expected nedetectat	Resistance gene detected.
eptB	—	10.2 citiri/M · present(new)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 2

FUT2	3.42 OR · risk variant	2.53 OR · risk variant	expected reference genotype	Reduced mucosal fucosylation
IL6	2.03 OR · risk variant	1.82 OR · risk variant	expected reference genotype	Higher inflammatory tone