scout: v_kd: 7 rows where assay_method = "QCM" sorted by kd_log10

742 distinct verbatim-verified aptamer–target Kd measurements (canonical Gold v1; 555 intrinsic-equilibrium; 300 unique targets; 287 publications; 435 carry a verbatim-verified sequence). ★HOW TO READ: 'kd_reported' is the value EXACTLY as written in the paper (units are MIXED — pM/nM/M — so it is NOT directly comparable). To compare, sort, or train an ML model, use ONLY 'kd_log10_molar' (lower = tighter) and filter measurement_class=intrinsic + target_type=protein. The same target appears in several rows because of different aptamers, assays, conditions (temperature/buffer) or papers — see those columns. For a clean ready-to-use subset use the 'kd_ready_to_use' query. Source: corpus literature-extraction pipeline (E. Dohi).

Data license: CC BY 4.0 · Data source: apt-scout automated curation pipeline (E. Dohi, NCNP) — values harvested from public databases; raw source stored per target

target_name_canonical: Target as named in the source paper.
target_type: protein / cell-line+EV / glycan-conjugate. Filter to 'protein' for molecular targets.
target_uniprot: UniProt accession when a human protein (sparse for now; links to apt-scout target).
aptamer_name: Aptamer identifier as reported.
kd_reported: Kd value AS REPORTED in the paper (value + unit). Units are MIXED — do NOT compare this column directly.
kd_log10_molar: log10(Kd in molar). THE column to sort / compare / learn on (lower = tighter).
measurement_class: intrinsic = equilibrium vs purified target; non_intrinsic = apparent/cellular or avidity (NOT comparable to intrinsic).
binding_constant_type: Kd / apparent-Kd etc. as reported.
assay_method: SPR / filter binding / flow cytometry / ITC / BLI …
assay_temperature_k: Assay temperature (K) — a reason the same pair can have several rows.
source_pmid: PubMed ID of the source paper (links out).
verbatim_quote: The exact sentence the value was taken from.
verification_level: QC status (honest, growing): human_verified / human_corrected = a logged human verdict from the stratified-random sample; multi_agent_verified = passed independent multi-agent (L2) check; extraction_verified = extraction-pipeline verified; automated. Human verification is in progress: as of this release 0 records carry a logged human verdict — the published set is multi-agent-/extraction-verified, and human spot-checking is being added post-publication (version-tracked). No record is labelled human_verified without a logged human review.
sequence_status: Aptamer-sequence provenance: verified_in_text_or_SI = sequence verbatim-verified against the source text/SI (shown); pending_manual_supp / pending_supp_oa / pending_manual_figure = sequence reported only in a (often paywalled) SI or a figure, being curated post-submission; no_single_sequence_pool = a pool/library/primer, no single sequence exists.
pi_provenance_flag: PI manual-review flag: KEEP_seq_in_figure = valid record, sequence is in a 3D-structure figure; FLAG_cited_data = Kd may be a value cited from elsewhere, re-verify. (EXCLUDE rows are hidden from this view.)
seq_source: original (already in source DB) / backfill_text_verified (recovered from paper or SI text).

7 rows where assay_method = "QCM" sorted by kd_log10_molar

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id	target_name_canonical	target_type	target_uniprot	aptamer_name	aptamer_seq	kd_reported	kd_log10_molar ▼	measurement_class	binding_constant_type	tier	source_origin	verification_level	sequence_status	seq_source	assay_method	assay_ph	assay_buffer	assay_cations	aptamer_chemistry	aptamer_modifications	source_pmid	doi	verbatim_quote	source_db
343	PlanarAu	protein		1N	TATGCATGTGTAGTAAGACCTAGTCCACAATCAACG	5.600000000000001e-10 M	-9.252	intrinsic	Kd	Gold	v4	multi_agent_verified	verified_in_text_or_SI	original	QCM		AIB		DNA		30189130	10.1021/acscombsci.8b00048	aptamer 1N showing the highest affinity (0.56 nM)	step2c_acs_v1
59	RAGE	protein	P80511	RAGE-aptamer (clone #2)	TCTGTTCAGGTTGGTACGGTGGAAGGTGTGATTCACGAGG	4.44 nM	-8.353	intrinsic	Kd	Gold	v4	extraction_verified	verified_in_text_or_SI	original	QCM				DNA	phosphorothioate	28385802	10.2337/db16-1281	#2RAGE-aptamer \| tcTgTTcAggTTggTAcggTggAAggTgTgATTcAcgAgg \| 4.44±0.56	step2c_literal_v3
58	RAGE	protein	P80511	RAGE-aptamer (clone #1)	CCTGATATGGTGTCACCGCCGCCTTAGTATTGGTGTCTAC	5.68 nM	-8.246	intrinsic	Kd	Gold	v4	extraction_verified	verified_in_text_or_SI	original	QCM				DNA	phosphorothioate	28385802	10.2337/db16-1281	#1RAGE-aptamer \| ccTgATATggTgTcAccgccgccTTAgTATTggTgTcTAc \| 5.68±1.10	step2c_literal_v3
60	RAGE	protein	P80511	RAGE-aptamer (clone #3)	TTCCACTGAGTGCCGCGGACTGTTGTTGGGAGGTGGTGTG	12.44 nM	-7.905	intrinsic	Kd	Gold	v4	extraction_verified	verified_in_text_or_SI	original	QCM				DNA	phosphorothioate	28385802	10.2337/db16-1281	#3RAGE-aptamer \| tTccAcTgAgTgccgcggAcTgTTgTTgggAggTggTgTg \| 12.44±1.52	step2c_literal_v3
344	PlanarAu	protein		1N truncated	TATGCATGTGTATATCAACACTCCGGGTCTAATCGTTCA	1.304e-08 M	-7.885	intrinsic	Kd	Gold	v4	multi_agent_verified	verified_in_text_or_SI	original	QCM		AIB		DNA		30189130	10.1021/acscombsci.8b00048	1N truncated (Kd = 13.04 nM)	step2c_acs_v1
19	thrombin	protein	P00734	LOOP	GGTTGGTGTGGTTGGCAACC	39.0 nM	-7.409	intrinsic	Kd	Gold	v4	extraction_verified	verified_in_text_or_SI	original	QCM	7.4	140 mM NaCl, 5 mM KCl, 1 mM CaCl2, 1 mM MgCl2, 20 mM TRIS, pH 7.4	1.0	DNA	biotin at 3' end	16725379	10.1016/j.bioelechem.2006.03.012	LOOP \| 3.27±1.22 \| 127±100 \| 0.026±0.018 \| 39±27	step2c_literal_v3
18	thrombin	protein	P00734	APTA	GGGTTTTCACTTTTGTGGGTTGGACGGGATGG	88.0 nM	-7.056	intrinsic	Kd	Gold	v4	extraction_verified	verified_in_text_or_SI	original	QCM	7.4	140 mM NaCl, 5 mM KCl, 1 mM CaCl2, 1 mM MgCl2, 20 mM TRIS, pH 7.4	1.0	DNA	biotin at 3' end	16725379	10.1016/j.bioelechem.2006.03.012	APTA \| 0.97±0.45 \| 86±73 \| 0.011±0.006 \| 88±52	step2c_literal_v3

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CREATE VIEW v_kd AS
SELECT k.id,
 target_name_canonical,
 CASE
   WHEN target_name_canonical LIKE '%cell%' OR target_name_canonical LIKE '%vesicle%' OR target_name_canonical LIKE '%exosome%' THEN 'cell/EV'
   WHEN target_name_canonical LIKE '%BSA%' OR target_name_canonical LIKE '%sLe%' OR target_name_canonical LIKE '%glycan%' OR target_name_canonical LIKE '% Le %' THEN 'glycan/conjugate'
   ELSE 'protein'
 END AS target_type,
 target_uniprot, aptamer_name, aptamer_seq,
 (COALESCE(kd_value,'') || CASE WHEN COALESCE(kd_unit,'')!='' THEN ' '||kd_unit ELSE '' END) AS kd_reported,
 CAST(NULLIF(kd_log10_molar,'') AS REAL) AS kd_log10_molar,
 measurement_class, binding_constant_type, 'Gold' AS tier, k.tier AS source_origin,
 CASE
   WHEN vh.verdict='confirmed' THEN 'human_verified'
   WHEN vh.verdict='corrected' THEN 'human_corrected'
   WHEN vh.verdict='rejected'  THEN 'human_rejected'
   WHEN k.verification_status='agent_verified_L2' THEN 'multi_agent_verified'
   WHEN k.verification_status IN ('verified','CONFIRM') THEN 'extraction_verified'
   ELSE 'automated'
 END AS verification_level,
 sequence_status, seq_source, pi_provenance_flag,
 assay_method,
 CAST(NULLIF(assay_temperature_k,'') AS REAL) AS assay_temperature_k,
 CAST(NULLIF(assay_ph,'') AS REAL) AS assay_ph,
 assay_buffer, assay_cations, aptamer_chemistry, aptamer_modifications,
 source_pmid, doi, verbatim_quote, source_db
FROM kd_measurements k LEFT JOIN verification_human vh ON vh.row_id=k.source_record_id
WHERE LOWER(COALESCE(k.include_in_gold,''))='true';

Binding affinities (Kd) — source-verified (view)

7 rows where assay_method = "QCM" sorted by kd_log10_molar

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