Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

Publications 1.3k Datasets 392.5k Experiments 6

System / cell line: synthetic ✕ Assay: substitution ✕ Clear

The i-motif in the bcl-2 P1 promoter forms an unexpectedly stable structure with a unique 8:5:7 loop folding pattern.

PMID 19908860 · PMC2787777 · Journal of the American Chemical Society · 2009 · 8 claims · 6 setups

Full-text index only

The full-length bcl-2 C-rich promoter sequence (Py39WT) forms one major intramolecular i-motif structure with a transitional pH of 6.6

py39wt fam 32p-labeled circular melting fret
Flanking p10 contribution and sequence bias in matrix based epitope prediction: revisiting the assumption of independent binding pockets.

PMID 18925947 · PMC2600787 · BMC structural biology · 2008 · 8 claims · 3 setups

Full-text index only

The extended matrix PP10 (built from a proline-containing peptide library) shows significant improvement in binding prediction over the original nine-residue matrix P9

recombinant peptides awcsdealplgsprcd peptide-mhc quantitative x-ray
Prime editing in mice reveals the essentiality of a single base in driving tissue-specific gene expression.

PMID 33722289 · PMC7962346 · Genome biology · 2021 · 7 claims · 8 setups

Has reproduction · 66

A three-base-pair (HDR) or single-base (PE2) substitution in the Tspan2 CArG box causes cell-specific loss of Tspan2 mRNA in aorta and bladder, but not heart or brain

tissues zygotes aorta spleen qrt-pcr allele-specific restriction
Grammar-based distance in progressive multiple sequence alignment.

PMID 18616828 · PMC2478692 · BMC bioinformatics · 2008 · 7 claims · 3 setups

Full-text index only

A grammar-based (LZ complexity) distance metric can be used to determine the order in which sequences are progressively pairwise aligned

balibase sequences amino sequence substitution
Magnetically assisted DNA assays: high selectivity using conjugated polymers for amplified fluorescent transduction.

PMID 15905472 · PMC1131937 · Nucleic acids research · 2005 · 8 claims · 8 setups

Full-text index only

Introducing streptavidin-coated magnetic microparticles (MMPs) into a sandwich-type CP-based DNA sensor significantly improves selectivity against non-cognate DNA compared with previously reported CP-amplified sensors.

cell-free synthetic brca1-related artificial fluorescence magnetically salt-stringency
Mutational specificity of gamma-radiation-induced guanine-thymine and thymine-guanine intrastrand cross-links in mammalian cells and translesion synthesis past the guanine-thymine lesion by human DNA polymerase eta.

PMID 18616294 · PMC2646719 · Biochemistry · 2008 · 8 claims · 6 setups

Full-text index only

Both G[8,5-Me]T and T[5-Me,8]G intrastrand cross-links are strongly mutagenic in COS-7 and 293T mammalian cells

cos-7 293t synthetic pms2 shuttle primer steady-state

Experiments

The i-motif in the bcl-2 P1 promoter forms an unexpectedly stable structure with a unique 8:5:7 loop folding pattern.

Flanking p10 contribution and sequence bias in matrix based epitope prediction: revisiting the assumption of independent binding pockets.

Prime editing in mice reveals the essentiality of a single base in driving tissue-specific gene expression.

Grammar-based distance in progressive multiple sequence alignment.

Magnetically assisted DNA assays: high selectivity using conjugated polymers for amplified fluorescent transduction.

Mutational specificity of gamma-radiation-induced guanine-thymine and thymine-guanine intrastrand cross-links in mammalian cells and translesion synthesis past the guanine-thymine lesion by human DNA polymerase eta.