DeepGene damage signature

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

Damage score · retest day 90

85/100

vs baseline (day 0)

1 improved · 9 worsened

synthetic signature · consistent with this patient's biology

3 opportunists above range: Enterococcus faecium, Streptococcus gallolyticus, Clostridioides difficile
6 keystone species absent
Shannon 1.64 (expected ≥ 3)
10 resistance genes
Host DNA fragmentation atypical
Tissue recycling index 60

Pathogens / opportunists3/5

Keystone species6/8

↑ from 5

Diversity2/2

Metabolic modules1/4

↑ from 0

Vitamin synthesis6/7

↑ from 4

Oral translocation1/1

Host DNA1/1

Tissue recycling1/1

Central mechanisms2/2

Species dominance1/1

↑ from 0

Virulence factors6/6

↑ from 5

Antibiotic resistance genes10/10

↑ from 8

Genetic predisposition2/2

Opportunists above range

Enterococcus faecium 16.88% AR

Streptococcus gallolyticus 3.376% AR

Clostridioides difficile 3.376% AR

Keystone species absent

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

Capacity

Shannon 1.64 · butyrate 282 CPM · SCFA 603

H2S above band

6 vitamins below

Host & mechanisms

host DNA fragmentation atypical

tissue recycling 60/100

oral translocation 7.65% 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	0.561 % AR · in range	0.534 % AR · in range	expected <= 1%	In excess raises LPS load and zonulin release, opening tight junctions.
Klebsiella pneumoniae	7.962 % AR · above range	0.134 % AR · in range(improved)	expected <= 0.3%	Opportunist above range; relevant after antibiotics and in inflammation.
Enterococcus faecium	0.395 % AR · in range	16.88 % AR · above range(worsened)	expected <= 0.5%	Opportunist above range; relevant after antibiotics and in inflammation.
Streptococcus gallolyticus	2.654 % AR · above range	3.376 % AR · above range	expected <= 0.1%	Opportunist above range; relevant after antibiotics and in inflammation.
Clostridioides difficile	2.654 % AR · above range	3.376 % 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 % AR · absent	0 % AR · absent	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Lactobacillus species	1.15 % AR · in range	0 % AR · absent(worsened)	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Roseburia intestinalis	0.61 % AR · in range	1.44 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.
Ruminococcus bromii	0.73 % AR · in range	0.58 % AR · in range	expected 0.15-2.24%	Keystone butyrate producer / mucin specialist.

Diversity · 2

indice Shannon	1.93 · below range	1.64 · below range	expected >= 3.0	Low diversity: fewer reserve metabolic routes, slower recovery after perturbation.
numar de specii detectate	82 specii · below range	45 specii · below range	expected >= 100	Species count below reference.

Metabolic modules · 4

Butyrate production	408 CPM · in range	282 CPM · in range	expected 255.83-1089.91 CPM	Butyrate is the main colonocyte fuel and barrier signal.
Short Chain Fatty Acid Production	757 CPM · in range	603 CPM · in range	expected 535.03-1572.59 CPM	Total SCFA capacity.
GABA production	211 CPM · in range	122 CPM · in range	expected 87.31-766.53 CPM	Gut–brain axis capacity.
H2S production (sulfate reduction)	102 CPM · in range	414 CPM · above range(worsened)	expected banda de referinta	Hydrogen sulfide above band irritates the mucosa.

Vitamin synthesis · 7

Vitamin B1 - Thiamin	471 CPM · below range	321 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B2 - Riboflavin	525 CPM · below range	433 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B5 - Pantothenic acid	481 CPM · below range	301 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B6 - Pyridoxine	408 CPM · below range	450 CPM · below range	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B7 - Biotin	3382 CPM · in range	528 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B9 - Folate	3948 CPM · in range	540 CPM · below range(worsened)	expected 2000-5000 CPM	Microbial synthesis capacity.
Vitamin B12 - Cobalamin	3396 CPM · in range	4215 CPM · in range	expected 2000-5000 CPM	Microbial synthesis capacity.

Oral translocation · 1

Translocare orala (indice)

6.02 % AR · above range

7.65 % AR · above range

expected <= 2%

Oral taxa in stool: reduced gastric barrier or dysbiosis.

Host DNA · 1

fragmentare mixta

225 pb · atypical

233 pb · atypical

expected 150-170 pb

Host cell-free DNA fragmentation pattern.

Tissue recycling · 1

indice de reciclare tisulara

51 /100 · above range

60 /100 · above range

expected < 35

Epithelial turnover.

Central mechanisms · 2

molecular_mimicry	69 /100 · above range	79 /100 · above range	expected < 65	Cross-reactive antigen load.
estrobolome	67 /100 · above range	72 /100 · above range	expected < 65	Estrogen-recycling capacity.

Species dominance · 1

Escherichia coli

—

21.44 % AR · above range(new)

expected < 20% per specie

One species occupies the niche of others.

Virulence factors · 6

fimD outer membrane usher	43 potriviri/M · present	33 potriviri/M · present	expected absent	Virulence factor detected.
chuA heme/hemoglobin receptor	36 potriviri/M · present	58 potriviri/M · present	expected absent	Virulence factor detected.
irp2 yersiniabactin synthetase	81 potriviri/M · present	85 potriviri/M · present	expected absent	Virulence factor detected.
espX4 type III secretion	48 potriviri/M · present	23 potriviri/M · present	expected absent	Virulence factor detected.
kpsD polysialic acid transport	85 potriviri/M · present	99 potriviri/M · present	expected absent	Virulence factor detected.
acrB acriflavine resistance	—	84 potriviri/M · present(new)	expected absent	Virulence factor detected.

Antibiotic resistance genes · 10

sul1	4.3 citiri/M · present	8.6 citiri/M · present	expected nedetectat	Resistance gene detected.
sul2	1.6 citiri/M · present	7.5 citiri/M · present	expected nedetectat	Resistance gene detected.
tet(O/M/O)	5.1 citiri/M · present	10.9 citiri/M · present	expected nedetectat	Resistance gene detected.
Ecol_ampC_BLA	6.7 citiri/M · present	1.9 citiri/M · present	expected nedetectat	Resistance gene detected.
aadA	10.8 citiri/M · present	5 citiri/M · present	expected nedetectat	Resistance gene detected.
dfrA1	9 citiri/M · present	8.8 citiri/M · present	expected nedetectat	Resistance gene detected.
APH(6)-Id	10.4 citiri/M · present	7.2 citiri/M · present	expected nedetectat	Resistance gene detected.
Erm(49)	10.7 citiri/M · present	3 citiri/M · present	expected nedetectat	Resistance gene detected.
msrC	—	6.8 citiri/M · present(new)	expected nedetectat	Resistance gene detected.
eptB	—	9.2 citiri/M · present(new)	expected nedetectat	Resistance gene detected.

Genetic predisposition · 2

FUT2	1.67 OR · risk variant	2.04 OR · risk variant	expected reference genotype	Reduced mucosal fucosylation
IL6	1.98 OR · risk variant	2.1 OR · risk variant	expected reference genotype	Higher inflammatory tone