Predicting next-season maize yield
Can historical field trials predict which maize hybrids will yield best next season?
Key finding
2024 ranking accuracy was modest (ρ = 0.143), with weaker predictions for novel hybrids.
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13 case studies
Mapping flowering time in rice breeding lines
Which genomic regions track flowering time after adjusting for trials, kinship, and population structure?
Key finding
119 significant markers cluster in one chromosome 3 region; the OsMADS50-linked candidate remains unvalidated in this panel.
When environment helps soybean prediction
When does environmental data improve genomic prediction in soybean?
Key finding
Environmental covariates improved CV1/CV2 accuracy by about 23% over genomic-only prediction, but reduced it in new environments.
Mapping transcription factor binding in soybean
Where does GLYMA.08G357600 bind, and which genes are candidate targets?
Key finding
7,693 peaks passed the stricter IDR threshold; nearby genes remain candidate targets.
How JCK1241 changes the tomato infection response
Does JCK1241 change the tomato transcriptional response to bacterial wilt infection?
Key finding
The primary interaction term identified 4,508 genes; pathway and network interpretations remain exploratory.
Profiling 172 drug responses in HepG2 cells
How do 172 compounds change the protein landscape of human HepG2 cells?
Key finding
Drug-response clusters showed recurring cell-cycle suppression; 12 RedMix-only drugs remain batch-confounded.
Tracking the salt-stress response in rice
How does the rice transcriptome respond to salt-alkali stress over time?
Key finding
The strict differential-expression set grew from 1,451 genes on Day 1 to 2,005 on Day 5.
Resolving cell populations in pancreatic islets
Which cell populations and marker genes appear in human pancreatic islets?
Key finding
2,681 cells formed 18 clusters, including a low-complexity artifact cluster flagged for review.
Measuring the airway response to dexamethasone
How does dexamethasone change gene expression in airway smooth muscle cells?
Key finding
4,000 genes passed FDR < 0.05 in an analysis that accounted for cell-line differences.
Comparing KRAS variants and pancreatic cancer survival
How do recorded survival outcomes differ across KRAS variants in pancreatic cancer?
Key finding
G12D had the largest unadjusted hazard ratio versus wild type; report denominators conflict.
Comparing FOXP2 across 15 vertebrates
How conserved is FOXP2, and which changes distinguish humans in a 15-vertebrate comparison?
Key finding
94.0% of the full alignment was conserved, with two reported human-specific sites in this sequence set.
Checking population frequencies of Rett-associated variants
How frequent are Rett-associated ClinVar variants in gnomAD population data?
Key finding
585 of 586 variants were classified as absent or ultra-rare; unresolved matches are disclosed.
Docking imatinib against ABL1
Which imatinib poses and residue contacts emerge from docking against ABL1?
Key finding
Ten poses were generated, but the failed redocking RMSD check leaves pose recovery unvalidated.
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