DeepGene damage signature

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

Damage score · retest day 90

64/100

vs baseline (day 0)

-20

8 improved · 2 worsened

synthetic signature · consistent with this patient's biology

4 opportunists above range: Escherichia coli, Enterococcus faecium, Streptococcus gallolyticus
4 keystone species absent
Shannon 2.48 (expected ≥ 3)
7 resistance genes
Tissue recycling index 44

Pathogens / opportunists4/5

↑ from 3

Keystone species4/8

Diversity1/2

↓ from 2

Metabolic modules1/4

Vitamin synthesis3/7

↓ from 4

Oral translocation1/1

Host DNA0/1

↓ from 1

Tissue recycling1/1

Central mechanisms0/2

↓ from 2

Virulence factors4/4

Antibiotic resistance genes7/7

↓ from 8

Genetic predisposition2/2

Opportunists above range

Escherichia coli 21.984% AR

Enterococcus faecium 10.992% AR

Streptococcus gallolyticus 2.198% AR

Clostridioides difficile 2.198% AR

Keystone species absent

Akkermansia muciniphila, Bifidobacterium longum, Butyricicoccus pullicaecorum, Eubacterium rectale

Capacity

Shannon 2.48 · butyrate 541 CPM · SCFA 854

H2S above band

3 vitamins below

Host & mechanisms

tissue recycling 44/100

oral translocation 5% AR

7 resistance genes · 4 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	0.703 % AR · in range	21.984 % AR · above range(worsened)	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	6.971 % AR · above range	0.216 % AR · in range(improved)	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	0.116 % AR · in range	10.992 % AR · above range(worsened)	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	2.324 % AR · above range	2.198 % AR · above range	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	2.324 % AR · above range	2.198 % 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	1.15 % AR · in range	0.57 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	0.22 % AR · in range	1.44 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	1.03 % AR · in range	0.2 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.1 % AR · in range	1.13 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	2.26 · below range	2.48 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	85 specii · below range	100 specii · in range(improved)	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	487 CPM · in range	541 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	825 CPM · in range	854 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	257 CPM · in range	262 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	302 CPM · above range	373 CPM · above range	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	532 CPM · below range	516 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	282 CPM · below range	308 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	223 CPM · below range	251 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	278 CPM · below range	3467 CPM · in range(improved)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	3631 CPM · in range	4204 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	4078 CPM · in range	3898 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	3071 CPM · in range	3558 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

5.28 % AR · above range

5 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

202 pb · atypical

165 pb · in range(improved)

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

44 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	70 /100 · above range	64 /100 · in range(improved)	expected < 65	Cross-reactive antigen load.
estrobolome	68 /100 · above range	65 /100 · in range(improved)	expected < 65	Estrogen-recycling capacity.

Species dominance · 1

Escherichia coli

27.11 % AR · above range

resolved(resolved)

expected < 20% per specie

One species occupies the niche of others.

Virulence factors · 4

fimD outer membrane usher	93 potriviri/M · present	97 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	41 potriviri/M · present	75 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	39 potriviri/M · present	90 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	24 potriviri/M · present	98 potriviri/M · present	expected absent	Virulence factor detected.

Antibiotic resistance genes · 8

sul1	1.6 citiri/M · present	9.6 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	2.8 citiri/M · present	10.8 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	6 citiri/M · present	9.6 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	10.1 citiri/M · present	4.4 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	10 citiri/M · present	8.1 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	11 citiri/M · present	8.2 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	4.5 citiri/M · present	3.7 citiri/M · present	expected nedetectat	Resistance gene detected.
Erm(49)	2.6 citiri/M · present	resolved(resolved)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 2

FUT2	2.96 OR · risk variant	2.88 OR · risk variant	expected reference genotype	Reduced mucosal fucosylation
IL6	3.2 OR · risk variant	2.06 OR · risk variant	expected reference genotype	Higher inflammatory tone