SICO-KG-001 · KNOWLEDGE GAIN PILOT
From publication count to knowledge gain
A small representative prereview asks what each scientific output may have added—not how many papers existed.
9
K1 · New findingcandidate annotations
4
K2 · Validationcandidate annotations
3
K3 · Boundary expansioncandidate annotations
3
K4 · Conflict resolutioncandidate annotations
24
K5 · Relationship creationcandidate annotations
7
K6 · Capability creationcandidate annotations
Critical boundary: K1–K6 are annotation dimensions, not a score of scientific worth. First appearance in CIDM's corpus is not proof of global first discovery. Replication and validation are explicitly treated as possible knowledge gain.
Six-dimensional pilot
| Year | Publication | Pathogen | Technology | Candidate gain types |
|---|---|---|---|---|
| 1995 | Cryptococcal disease of the CNS in immunocompetent hosts: influence of cryptococcal variety on clinical manifestations and outcome. | Cryptococcus | Serology / immunology | K5 |
| 1996 | Identification by random amplification of polymorphic DNA of a common molecular type of Cryptococcus neoformans var. neoformans in patients with AIDS or other immunosuppressive conditions. | Cryptococcus | PCR / molecular diagnostics; Serology / immunology | K1 K5 K6 |
| 1996 | Differing antibody responses to Haemophilus influenzae type b after meningitis or epiglottitis. | Influenza / respiratory viruses | Serology / immunology | K5 |
| 1996 | Sporadic invasion of cultured epithelial cells by Haemophilus influenzae type b. | Influenza / respiratory viruses | Culture / phenotypic methods; Serology / immunology | K5 |
| 1997 | Comparison of use of phenotypic and genotypic characteristics for identification of species of the anamorph genus Candida and related teleomorph yeast species. | Candida / Candidozyma | Culture / phenotypic methods | K1 K2 K4 K5 |
| 1997 | Cloning and characterisation of the aroA and aroD genes of Shigella dysenteriae type 1. | Shigella | Culture / phenotypic methods; Serology / immunology | K5 |
| 1998 | Clinical evaluation of the Mycobacteria Growth Indicator Tube (MGIT) compared with radiometric (Bactec) and solid media for isolation of Mycobacterium species. | Nontuberculous mycobacteria | Culture / phenotypic methods | K2 K4 K5 |
| 1998 | Evaluation of four methods for rapid identification of Staphylococcus aureus from blood cultures. | Staphylococcus aureus / MRSA | Culture / phenotypic methods | K1 K2 K5 |
| 2005 | Diagnosis of cerebral cryptococcoma using a computerized analysis of 1H NMR spectra in an animal model. | Cryptococcus | Culture / phenotypic methods; Bioinformatics / modelling | K5 K6 |
| 2006 | Genotyping of Mycobacterium tuberculosis in New South Wales: results from 18 months of a statewide trial. | Mycobacterium tuberculosis complex; Nontuberculous mycobacteria | Clinical trial / therapy | K1 K5 |
| 2006 | Simultaneous detection and identification of Candida, Aspergillus, and Cryptococcus species by reverse line blot hybridization. | Candida / Candidozyma; Aspergillus; Cryptococcus | Culture / phenotypic methods | K1 K5 |
| 2006 | Use of PCR and reverse line blot hybridization macroarray based on 16S-23S rRNA gene internal transcribed spacer sequences for rapid identification of 34 mycobacterium species. | Nontuberculous mycobacteria | Whole-genome sequencing; PCR / molecular diagnostics; Culture / phenotypic methods | K1 K5 K6 |
| 2007 | Comparison of single- and multilocus sequence typing and toxin gene profiling for characterization of methicillin-resistant Staphylococcus aureus. | Staphylococcus aureus / MRSA | Whole-genome sequencing; Culture / phenotypic methods | K2 K4 K5 K6 |
| 2007 | Is Bordetella pertussis susceptibility to erythromycin changing? MIC trends among Australian isolates 1971-2006. | Bordetella pertussis | Culture / phenotypic methods | K5 |
| 2008 | Barmah Forest virus serology; implications for diagnosis and public health action. | Arboviruses | Serology / immunology | K5 K6 |
| 2009 | First report of putative Streptococcus pneumoniae serotype 6D among nasopharyngeal isolates from Fijian children. | Streptococcus pneumoniae | Clinical trial / therapy | K1 K5 |
| 2015 | Converting Mosquito Surveillance to Arbovirus Surveillance with Honey-Baited Nucleic Acid Preservation Cards. | Arboviruses | PCR / molecular diagnostics | K3 K5 |
| 2015 | Pertactin negative Bordetella pertussis demonstrates higher fitness under vaccine selection pressure in a mixed infection model. | Bordetella pertussis | Bioinformatics / modelling | K5 |
| 2016 | Combination of Vancomycin and β-Lactam Therapy for Methicillin-Resistant Staphylococcus aureus Bacteremia: A Pilot Multicenter Randomized Controlled Trial. | Staphylococcus aureus / MRSA | Clinical trial / therapy | K3 K5 |
| 2016 | Stimulation with lysates of Aspergillus terreus, Candida krusei and Rhizopus oryzae maximizes cross-reactivity of anti-fungal T cells. | Candida / Candidozyma; Aspergillus | Serology / immunology; Clinical trial / therapy | K5 |
| 2016 | Whole-genome sequencing of Mycobacterium tuberculosis for rapid diagnostics: feasibility of a decentralised model. | Mycobacterium tuberculosis complex; Nontuberculous mycobacteria | Whole-genome sequencing; Bioinformatics / modelling | K5 K6 |
| 2017 | Shigella species epidemiology and antimicrobial susceptibility: the implications of emerging azithromycin resistance for guiding treatment, guidelines and breakpoints. | Shigella | Culture / phenotypic methods; Clinical trial / therapy | K1 K3 K5 |
| 2018 | First documented gymnasium cluster of COVID-19 with whole genome sequencing in Australia. | SARS-CoV-2 | Whole-genome sequencing | K1 K5 K6 |
| 2021 | Association between convalescent plasma treatment and mortality in COVID-19: a collaborative systematic review and meta-analysis of randomized clinical trials. | SARS-CoV-2 | MALDI-TOF MS; Clinical trial / therapy | K5 |
The trajectory we eventually want
Publication → Evidence → Relationship → Knowledge Gain → Capability Gain → Subsequent Work. The pilot deliberately stops before creating a single ΔK number; evidence review must show whether these dimensions are reproducible and useful first.
Pilot annotations → · Publication Explorer → · Global Evidence Gate →