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 24

System / cell line: drug ✕ Assay: small ✕ Clear

Proteomics and genomics: perspectives on drug and target discovery.

PMID 18302945 · PMC2386992 · Current opinion in chemical biology · 2008 · 8 claims · 8 setups

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Protein kinases account for approximately 25% of research and development projects in biotechnology and pharma

proteins blood carbohydrate medicinal x-ray microarrays glycan
Toxicogenomics: an emerging discipline.

PMID 12460812 · PMC1241126 · Environmental health perspectives · 2002 · 8 claims · 6 setups

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Toxicogenomics applies genomic tools (microarrays, proteomics, metabolomics) to characterize how cells and organisms respond to chemical/drug exposures.

drug stated acetaminophen tissues microarray gene genomic
Rapid detection, cloning and molecular cytogenetic characterisation of sequences from an MRP-encoding amplicon by chromosome microdissection.

PMID 8018546 · PMC2033297 · British journal of cancer · 1994 · 7 claims · 6 setups

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Chromosome microdissection can be used to rapidly detect, clone and cytogenetically characterise amplified sequences from hsrs/dmins in drug-resistant cells

ht1080 normal h69ar hsr micro-fish chromosome southern
Chemical genomics: what will it take and who gets to play?

PMID 11423004 · PMC138939 · Genome biology · 2001 · 8 claims · 8 setups

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Scaling chemical genetics to a genome-wide 'chemical genomics' requires large, well-funded, multidisciplinary centers that integrate compound libraries, protein resources, automation, and profiling technology, and freely distribute data and reagents.

iccb fluorescently yeast engineered cell-based small-molecule expression
The role of medical structural genomics in discovering new drugs for infectious diseases.

PMID 19855826 · PMC2756625 · PLoS computational biology · 2009 · 8 claims · 6 setups

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Structure-based drug design using X-ray/NMR protein structures has contributed to the development of numerous approved and improved therapeutics.

bacteria plasmodium candidate burkholderia high-throughput animal compound-target
Comprehensive data for studying serum exosome microRNA transcriptome in Parkinson's disease patients.

PMID 39406833 · PMC11480472 · Scientific data · 2024 · 8 claims · 8 setups

Has reproduction · 100

The study presents comprehensive serum exosome miRNA transcriptome data from four independent Japanese cohorts of PD patients and controls.

serum patients small mirna 123i-mibg
Genomics: applications in mechanism elucidation.

PMID 19166886 · PMC2698023 · Advanced drug delivery reviews · 2009 · 8 claims · 8 setups

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Genomic tools require no a priori knowledge of a compound's mode of action and can reveal biological pathways (metabolism, distribution, off-target effects) in addition to the precise mechanism of action.

extract panel saccharomyces inbred affinity cytotoxicity genome-wide
Cancer biomarker AKR1B10 and carbonyl metabolism.

PMID 19028477 · PMC6193474 · Chemico-biological interactions · 2009 · 8 claims · 6 setups

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AKR1B10 reduces the anticancer drug daunorubicin to daunorubicinol, decreasing its chemotherapeutic effectiveness

recombinant fenofibrate enzyme sds-page x-ray
A simple and robust method for connecting small-molecule drugs using gene-expression signatures.

PMID 18518950 · PMC2464610 · BMC bioinformatics · 2008 · 8 claims · 4 setups

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A new method for building reference gene-expression profiles and scoring/testing connections improves on the original Connectivity Map by enabling statistical significance testing of connections.

lines random gene-expression connectivity
New strategies in drug discovery.

PMID 16671397 · PMC7120019 · Methods in molecular biology (Clifton, N.J.) · 2006 · 8 claims · 8 setups

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A new integrated drug discovery paradigm has emerged combining clinical, genetic, genomic, and molecular phenotype data with cheminformatics, managed via informatics

animal normal low-abundance mice situ microarray taqman
Genomics, proteomics and bioinformatics: all in the same boat.

PMID 12374575 · PMC244909 · Genome biology · 2002 · 8 claims · 8 setups

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Microarray sensitivity has improved enough to analyze clinical samples as small as 10-50 nanograms, and many early microarray experiments may need to be repeated due to data quality issues

clinical oligonucleotide-immobilized dendritic blood microarray chip combined
Chips to hits.

PMID 11983055 · PMC139346 · Genome biology · 2002 · 8 claims · 8 setups

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Illumina's fiber-optic bead array technology allows ~2,000 oligonucleotide-based assays per bead array for high-throughput genotyping

individual yeast pools lncap cell-based affymetrix automated
Non-linear mapping for exploratory data analysis in functional genomics.

PMID 15661072 · PMC548129 · BMC bioinformatics · 2005 · 8 claims · 8 setups

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A relaxation method for non-linear mapping adapts one pair of points per step rather than all points at once, and was originally shown by Chang and Lee to outperform Sammon's mapping in cluster detection effectiveness and computational efficiency.

leukaemia small srbct brain relaxation self-organising sammon's
Identification of phenotype-specific networks from paired gene expression-cell shape imaging data.

PMID 35197309 · PMC8997347 · Genome research · 2022 · 8 claims · 5 setups

Has reproduction · 100

A network-based approach integrating RNA-seq and cell-shape imaging data identifies data-derived signaling networks specific to cell-shape regulation in breast cancer.

breast representative kinases bulk high-throughput immunofluorescence
Institutional Profile: The University of California Pharmacogenomics Center: at the interface of genomics, biological mechanisms and drug therapy.

PMID 19842929 · PMC2923222 · Pharmacogenomics · 2009 · 8 claims · 8 setups

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Approximately 15-20% of nonsynonymous variants in membrane transporters exhibit reduced function

abc hek293 expressing sophie computational transporter transport
Social and ethical implications of genomics, race, ethnicity, and health inequities.

PMID 19000599 · PMC2892396 · Seminars in oncology nursing · 2008 · 8 claims · 5 setups

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Race and ethnicity are increasingly viewed as genetic surrogates for predicting disease risk and treatment response, though directly assessing genomic and environmental factors is more accurate.

population prostate non-small-cell breast genome-wide gene somatic
Protein microarray technology.

PMID 17126887 · PMC1828913 · Mechanisms of ageing and development · 2007 · 8 claims · 8 setups

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Protein microarrays enable high-throughput characterization of protein biochemical activities across an entire proteome in a single experiment

yeast sh2 protein-protein protein-dna chromatin
Identification and verification of diagnostic biomarkers in recurrent pregnancy loss via machine learning algorithm and WGCNA.

PMID 37691920 · PMC10485775 · Frontiers in immunology · 2023 · 8 claims · 8 setups

Has reproduction · 55

352 DEGs (198 up-regulated, 154 down-regulated) were identified between RPL and control endometrial samples

endometrial degs hub decidua microarray wgcna machine
Specific signature biomarkers highlight the potential mechanisms of circulating neutrophils in aneurysmal subarachnoid hemorrhage.

PMID 36438795 · PMC9685413 · Frontiers in pharmacology · 2022 · 7 claims · 8 setups

Has reproduction · 80

Six genes (CST7, HSP90AB1, PADI4, PLBD1, RAB32, SLAMF6) are signature diagnostic biomarkers for aSAH identified by LASSO and SVM-RFE.

peripheral overlapping asah drug-treatment microarray wgcna ppi
Machine Learning-Based Integrated Analysis of PANoptosis Patterns in Acute Myeloid Leukemia Reveals a Signature Predicting Survival and Immunotherapy.

PMID 38322112 · PMC10846924 · International journal of clinical practice · 2024 · 7 claims · 7 setups

Has reproduction · 71

AML patients can be categorized into two distinct PANRG-based clusters with differing prognosis and immune characteristics

aml leukemia bulk consensus immune

Experiments

Proteomics and genomics: perspectives on drug and target discovery.

Toxicogenomics: an emerging discipline.

Rapid detection, cloning and molecular cytogenetic characterisation of sequences from an MRP-encoding amplicon by chromosome microdissection.

Chemical genomics: what will it take and who gets to play?

The role of medical structural genomics in discovering new drugs for infectious diseases.

Comprehensive data for studying serum exosome microRNA transcriptome in Parkinson's disease patients.

Genomics: applications in mechanism elucidation.

Cancer biomarker AKR1B10 and carbonyl metabolism.

A simple and robust method for connecting small-molecule drugs using gene-expression signatures.

New strategies in drug discovery.

Genomics, proteomics and bioinformatics: all in the same boat.

Chips to hits.

Non-linear mapping for exploratory data analysis in functional genomics.

Identification of phenotype-specific networks from paired gene expression-cell shape imaging data.

Institutional Profile: The University of California Pharmacogenomics Center: at the interface of genomics, biological mechanisms and drug therapy.

Social and ethical implications of genomics, race, ethnicity, and health inequities.

Protein microarray technology.

Identification and verification of diagnostic biomarkers in recurrent pregnancy loss via machine learning algorithm and WGCNA.

Specific signature biomarkers highlight the potential mechanisms of circulating neutrophils in aneurysmal subarachnoid hemorrhage.

Machine Learning-Based Integrated Analysis of PANoptosis Patterns in Acute Myeloid Leukemia Reveals a Signature Predicting Survival and Immunotherapy.