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Table 5 Cmap performance under “real world” conditions

From: Fish connectivity mapping: linking chemical stressors by their mechanisms of action-driven transcriptomic profiles

Signatures (NCBI GEO accession)

1st – 2nd match

3rd-4th match

5th-6th match

7th-8th match

9th-10th match

EFFHa_5Perc_MaleLiver_14d (GSE29350)

self

BIF_Larvae

BIF_Larvae

Wastewater_Liver

FLU_50_Ovary

 

EFFLa_M_Liver

HutDS_Liver

EFFHb_M_Liver

HutUS_Liver

PFCs_Mix_Liver

EFFHb_5Perc_MaleLiver_14d (GSE29350)

self

Wastewater_Liver

FAD_Ovary

TRI_Ovary

RDX_Liver

 

E2_M_Liver

HutEFF_Ovary

VIN_Ovary

KET_Ovary

RDX_fry

ElyDS_999_Liver_4d (GSE49098)

self

HutEFF_Liver

RochUS_Liver

RochDS_Liver

PHE_Liver

 

ElyEFF_Liver

ElyUS_Liver

HutUS_Liver

HutDS_Liver

E2_M_Liver

ElyEFF_999_Liver_4d (GSE49098)

self

ElyUS_Liver

PHE_Liver

RochDS_Liver

RochUS_Liver

 

ElyDS_Liver

HutEFF_Liver

HutUS_Liver

PHE_Liver

E2_M_Liver

ElyUS_999_Liver_4d (GSE49098)

self

ElyDS_Liver

HutEFF_Liver

HutUS_Liver

BIF_Larvae

 

ElyEFF_Liver

PFCs_Liver

EFFHa_M_Liver

RochDS_Liver

PFCs_Mix_Liver

HutchinsonDS_999_Liver_4d (GSE49098)

self

RochDS_Liver

HutEFF_Liver

ElyEFF_Liver

PFCs_Mix_Liver

 

RochUS_Liver

ElyDS_Liver

HutUS_Liver

KET_Ovary

KET_Ovary

HutchinsonEFF_999_Liver_4d (GSE49098)

self

ElyDS_Liver

HutUS_Liver

HutDS_Liver

PHE_Liver

 

ElyEFF_Liver

ElyUS_Liver

RochUS_Liver

RochDS_Liver

KET_Ovary

RochesterDS_999_Liver_4d (GSE49098)

self

HutUS_Liver

HutDS_Liver

ElyEFF_Liver

RochEFF_Liver

 

RochUS_Liver

ElyDS_Liver

ElyUS_Liver

HutEFF_Liver

BIF_Larvae

RochesterEFF_999_Liver_4d (GSE49098)

HutUS_Liver

self

HutEFF_Liver

BIF_Larvae

PFCs_Mix_Liver

 

ElyUS_Liver

RochDS_Liver

ElyDS_Liver

RochUS_Liver

PFCs_Liver

RochesterUS_999_Liver_4d (GSE49098)

self

RochDS_Liver

HutEFF_Liver

HutUS_Liver

ElyUS_Liver

 

ElyDS_Liver

ElyEFF_Liver

HutDS_Liver

RochEFF_Liver

PFCs_Mix_Liver

Wastewater_999_Liver_48h (GSE37550)

self

CYP_Larvae

NA

NA

NA

 

E2_M_Liver

surfaceH2O_Testis

NA

NA

NA

  1. Fathead minnow samples were exposed to various water conditions near several waste water treatment plants in the USA either by field deployment or in a laboratory setting. Only those exposures generating a significant number of DEGs thus having query signatures available are listed. The top ten matched ROGLs are listed to provide a broad list of candidate chemicals. Waste water treatment plant locations: Ely, Hutchinson (Hut), Rochester (Roch), Minnesota; San Diego (Ha), Los Angeles (Hb), California; Gainesville (GSE37550), Florida. Abbreviations: EFF, effluent; US, upstream; DS, downstream. P-value cutoff 1/132 = 0.0076. Self: a query signature and the connected ROGLs originated from the same experiment
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BMC Genomics

ISSN: 1471-2164

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