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PRJNA1262688 SRP585133

FMT for Crohn's disease cohort in Hong Kong

Fecal Microbiota Transplantation for CD cohort

52 fecal metagenome samples from Crohn's disease (CD) recipients (pre- and post-FMT) and donors in Hong Kong, China, in a fecal microbiota transplantation intervention study. machine-written summary

52 samples · 52 runs · HK · Age unknown · 2025 · 7.42 Gbp / sample

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Sources
✓Sequence archive 518–Abstract / description–Full text–Supplementary tables–External resources–User contribution–Human verified

Checked this project's papers and archive records yourself? Mark it human-verified.

what each source gave
✓ Sequence archive518 sample values (country, health condition, health condition detail, intervention, latitude, location locality, location region, longitude)
– Abstract / descriptionno abstract or project description
– Full textno open-access full text linked
– Supplementary tablesno supplementary tables available (or none open access)
– External resourcesnot covered by the external resources we ingest
– User contributionnothing uploaded yet
– Human verifiednot yet checked by a person · I checked this project — verify it
Interventions

intervention · arms resolved

before · no interventionbefore · no interventi25 samplesFMTFMT25 samples
single arm: samples before and on the intervention

25 people have samples in more than one arm.

Faecal microbiota transplantation design single_arm_before_after · population crohns_disease · Fecal microbiota transplantation, pre- and post-FMT sampling

“Fecal Microbiota Transplantation for CD cohort” — study.title (study level; per-sample arms are in the intervention column below)

Samples at a glance
1 sampling locations · 1 country
Age
unknown52
Condition
crohns_disease50
healthy_control2
Country
HK52
Body site
primary52
Sequencing depth per sample · this project all projects
all projects, 0–0.03 Gbp: 25,080 samples (4 %)all projects, 0.03–0.1 Gbp: 17,066 samples (3 %)all projects, 0.1–0.3 Gbp: 29,179 samples (5 %)all projects, 0.3–1 Gbp: 47,044 samples (8 %)all projects, 1–3 Gbp: 124,983 samples (22 %)all projects, 3–10 Gbp: 253,728 samples (44 %)this project, 3–10 Gbp: 52 samplesall projects, 10–30 Gbp: 72,533 samples (13 %)all projects, 30–100 Gbp: 3,024 samples (1 %)all projects, 100–300 Gbp: 106 samples (0 %)all projects, ≥ 300 Gbp: 9 samples (0 %)project median 7.42 Gbp per sample0130Gbp
Sampling design and relatedness

longitudinal — not resolvedFMT donor → recipient

25 of 27 people sampled more than once (50 samples; median 2, up to 2 per person). Schedule stated by the source: “pre-FMT and post-FMT stool samples from recipients; donor stool also collected” (time origin: transplant).

25 Crohn's FMT recipients (pre/post) linked to 2 sequenced donors (D001: 11, D002: 14 recipients).

donor: SAMN48479493, SAMN48479494, SAMN48479495, SAMN48479496, SAMN48479497, SAMN48479498, SAMN48479499, SAMN48479500, SAMN48479501, SAMN48479502, SAMN48479503, SAMN48479504, SAMN48479505, SAMN48479507, SAMN48479518, SAMN48479519, SAMN48479520, SAMN48479521, SAMN48479522, SAMN48479523, SAMN48479524,SAMN48479543 donor of SAMN48479493SAMN48479543 donor of SAMN48479518SAMN48479543 donor of SAMN48479494SAMN48479543 donor of SAMN48479519SAMN48479543 donor of SAMN48479495SAMN48479543 donor of SAMN48479520SAMN48479543 donor of SAMN48479496SAMN48479543 donor of SAMN48479521SAMN48479543 donor of SAMN48479497SAMN48479543 donor of SAMN48479522SAMN48479543 donor of SAMN48479498SAMN48479543 donor of SAMN48479523SAMN48479543 donor of SAMN48479499SAMN48479543 donor of SAMN48479524SAMN48479543 donor of SAMN48479500SAMN48479543 donor of SAMN48479525SAMN48479543 donor of SAMN48479501SAMN48479543 donor of SAMN48479526SAMN48479543 donor of SAMN48479502SAMN48479543 donor of SAMN48479527SAMN48479543 donor of SAMN48479503SAMN48479543 donor of SAMN48479528SAMN48479543 donor of SAMN48479504SAMN48479543 donor of SAMN48479529SAMN48479543 donor of SAMN48479505SAMN48479543 donor of SAMN48479530SAMN48479543 donor of SAMN48479507SAMN48479543 donor of SAMN48479532SAMN48479493 — recipient · 1 sampleR493SAMN48479494 — recipient · 1 sampleR494SAMN48479495 — recipient · 1 sampleR495SAMN48479496 — recipient · 1 sampleR496SAMN48479497 — recipient · 1 sampleR497SAMN48479498 — recipient · 1 sampleR498SAMN48479499 — recipient · 1 sampleR499SAMN48479500 — recipient · 1 sampleR500SAMN48479501 — recipient · 1 sampleR501SAMN48479502 — recipient · 1 sampleR502SAMN48479503 — recipient · 1 sampleR503SAMN48479504 — recipient · 1 sampleR504SAMN48479505 — recipient · 1 sampleR505SAMN48479507 — recipient · 1 sampleR507SAMN48479518 — recipient · 1 sampleR518SAMN48479519 — recipient · 1 sampleR519SAMN48479520 — recipient · 1 sampleR520SAMN48479521 — recipient · 1 sampleR521SAMN48479522 — recipient · 1 sampleR522SAMN48479523 — recipient · 1 sampleR523SAMN48479524 — recipient · 1 sampleR524SAMN48479525 — recipient · 1 sampleR525SAMN48479526 — recipient · 1 sampleR526SAMN48479527 — recipient · 1 sampleR527SAMN48479528 — recipient · 1 sampleR528SAMN48479529 — recipient · 1 sampleR529SAMN48479530 — recipient · 1 sampleR530SAMN48479532 — recipient · 1 sampleR532SAMN48479543 — donor · 1 sampleD543SAMN48479…
donor: SAMN48479506, SAMN48479508, SAMN48479509, SAMN48479510, SAMN48479511, SAMN48479512, SAMN48479513, SAMN48479514, SAMN48479515, SAMN48479516, SAMN48479517, SAMN48479531, SAMN48479533, SAMN48479534, SAMN48479535, SAMN48479536, SAMN48479537, SAMN48479538, SAMN48479539, SAMN48479540, SAMN48479541,SAMN48479544 donor of SAMN48479506SAMN48479544 donor of SAMN48479531SAMN48479544 donor of SAMN48479508SAMN48479544 donor of SAMN48479533SAMN48479544 donor of SAMN48479509SAMN48479544 donor of SAMN48479534SAMN48479544 donor of SAMN48479510SAMN48479544 donor of SAMN48479535SAMN48479544 donor of SAMN48479511SAMN48479544 donor of SAMN48479536SAMN48479544 donor of SAMN48479512SAMN48479544 donor of SAMN48479537SAMN48479544 donor of SAMN48479513SAMN48479544 donor of SAMN48479538SAMN48479544 donor of SAMN48479514SAMN48479544 donor of SAMN48479539SAMN48479544 donor of SAMN48479515SAMN48479544 donor of SAMN48479540SAMN48479544 donor of SAMN48479516SAMN48479544 donor of SAMN48479541SAMN48479544 donor of SAMN48479517SAMN48479544 donor of SAMN48479542SAMN48479506 — recipient · 1 sampleR06SAMN48479508 — recipient · 1 sampleR08SAMN48479509 — recipient · 1 sampleR09SAMN48479510 — recipient · 1 sampleR10SAMN48479511 — recipient · 1 sampleR11SAMN48479512 — recipient · 1 sampleR12SAMN48479513 — recipient · 1 sampleR13SAMN48479514 — recipient · 1 sampleR14SAMN48479515 — recipient · 1 sampleR15SAMN48479516 — recipient · 1 sampleR16SAMN48479517 — recipient · 1 sampleR17SAMN48479531 — recipient · 1 sampleR31SAMN48479533 — recipient · 1 sampleR33SAMN48479534 — recipient · 1 sampleR34SAMN48479535 — recipient · 1 sampleR35SAMN48479536 — recipient · 1 sampleR36SAMN48479537 — recipient · 1 sampleR37SAMN48479538 — recipient · 1 sampleR38SAMN48479539 — recipient · 1 sampleR39SAMN48479540 — recipient · 1 sampleR40SAMN48479541 — recipient · 1 sampleR41SAMN48479542 — recipient · 1 sampleR42SAMN48479544 — donor · 1 sampleD44SAMN484795…

donorrecipient · circles are people (pale = no sequenced sample), arrows run donor → recipient and parent → child, curved lines join twins, partners and siblings, squares are shared settings or families without recorded roles. Shown: 2 linked groups from explicit relations. 27 people in the project overall.

How longitudinal and relatedness information is derived

Community composition
Bifidobacterium 10.9%Blautia_A 9.6%Bacteroides 8.0%Phocaeicola 6.5%Faecalibacterium 6.3%Roseburia 3.7%Collinsella 3.2%Mediterraneibacter 2.9%Streptococcus 2.8%Fusicatenibacter 2.8%Anaerostipes 1.8%Ruminococcoides 1.7%not assigned to a genus 4.1%other genera 35.9%

Genera, mean relative abundance over 51 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).

Field coverage
fieldsamplescoverageR1R2R3R4
age_category0 0%
country52 100%52
health_condition52 100%52
subject_id52 100%52
detailed_location52 100%
health_condition_detail52 100%52
latitude52 100%52
location_locality52 100%52
location_region52 100%52
longitude52 100%52
timepoint_label52 100%52
intervention50 96%50
Details
Archive description

This cohort contains the metagenomic sequencing data for CD recipients (pre-FMT and post-FMT) and donors

How this project entered the registry

Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.75. Assay shotgun_dna.

  • host run.scientific_name · “human metagenome”
  • body site study.title · “Fecal Microbiota Transplantation for CD cohort”
Evidence examples (one per field × route)
samplefieldvaluerouteconf.sourcequote
SAMN48479493countryHKR10.90sample.attr.geo_loc_nameChina: Hong Kong
SAMN48479493health_conditioncrohns_diseaseR10.85biosample.attribute:DESCRIPTIONDESCRIPTION: pre-FMT recipient corresponds to post-FMT F003, donor D002
SAMN48479493health_condition_detailpre-FMT recipient corresponds to post-FMT F003, donor D002R10.85biosample.attribute:DESCRIPTIONDESCRIPTION: pre-FMT recipient corresponds to post-FMT F003, donor D002
SAMN48479493interventionno_interventionR10.85biosample.attribute:TITLETITLE: pre-FMT
SAMN48479493latitude22.3027R10.90biosample.attribute:lat_lon22.302711 N 114.177216 E
SAMN48479493location_localityHong KongR10.85biosample.attribute:geo_loc_nameChina: Hong Kong
SAMN48479493location_regionKowloon CityR10.60biosample.attribute:lat_lon22.302711 N 114.177216 E
SAMN48479493longitude114.1772R10.90biosample.attribute:lat_lon22.302711 N 114.177216 E
SAMN48479493subject_idF003R10.85biosample.attribute:DESCRIPTIONpre-FMT recipient corresponds to post-FMT F003, donor D002
SAMN48479518subject_idF003R10.70sample.name_rule:biosample.aliasF003
SAMN48479493timepoint_labelpre-FMTR10.85biosample.attribute:TITLETITLE: pre-FMT
Sequencing

52 runs over 52 samples · mean 7.17 Gbp per run (median 7.42 Gbp, total 373.00 Gbp; 52 runs with a base count) · layout PAIRED 52 · platform ILLUMINA 52 · models Illumina NovaSeq 6000 (52) · 98% of runs with a Sandpiper profile · first public 2025-06-03 – 2025-06-23

Authors (0)

No author record.

Downloads

PRJNA1262688.csv.gz (2.5 KB) · parquet (72.3 KB) — all 52 samples, every field with route and confidence · PRJNA1262688_determinations.csv.gz (5.5 KB) — 518 evidence rows

Samples (52 · every field this project has values for · hover a cell for its source)
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