Slide Menu
System Maintenance Notice, Monday, December 5, 2022 @ 1pm-5pm Eastern. The Operations Team will be performing system maintenance. During this scheduled downtime, InPort will not be available.
View All
Search Help Show/Hide Menu

Item Identification

Title: Dataset Parameters for Benthic Surveillance Pathology data
Short Name: Dataset Parameters for Benthic Surveillance Pathology data
Status: Completed
Abstract:

The PATHOLOGY data file reports information regarding study parameters. | Description Source: National Status and Trends, Benthic Surveillance Project

Notes:

Converted from FGDC using 'fgdc_to_inport_xml_entity.pl' script.

Data Attributes

Attribute Summary

Rubric Score Primary Key? Name Type Description
100
NST_SITE VARCHAR NSandT site identifier (5 letter code site identifier). | Description Source: National Status and Trends, Benthic Surveillance Project
100
YEAR VARCHAR Year the site was sampled. | Description Source: National Status and Trends, Benthic Surveillance Project
100
SPEC_CD1 VARCHAR Species abbreviation (Usually a 2 or 3 letter code which identifies the common species name). | Description Source: National Status and Trends, Benthic Surveillance Project
100
SPEC_NO VARCHAR Laboratory specimen number | Description Source: National Status and Trends, Benthic Surveillance Project
100
SEX VARCHAR Sex of the specimen | Description Source: National Status and Trends, Benthic Surveillance Project
100
AGEYEARS VARCHAR Age of the specimen | Description Source: National Status and Trends, Benthic Surveillance Project
100
LENGTH VARCHAR Length of the specimen (millimeters) | Description Source: National Status and Trends, Benthic Surveillance Project
100
WEIGHT VARCHAR Weight of the specimen (grams) | Description Source: National Status and Trends, Benthic Surveillance Project
100
EPNEO VARCHAR Liver epithelial neoplasms (Incidence of epithelial lesions). | Description Source: National Status and Trends, Benthic Surveillance Project
100
MESNEO VARCHAR Liver mesenchymal neoplasms (Incidence of mesenchymal lesions). | Description Source: National Status and Trends, Benthic Surveillance Project
100
ALLNEO VARCHAR All types of liver neoplasms. It includes both epithelial and mesenchymal: Epithelial (liver cell adenoma, cholangioma, hepatocellular, carcinoma, cholangiocellular, carcinoma, mixed hepatobiliary carcinoma, biliary cystadenoma, biliary cystadenocarcinoma, pancreatic acinar cell adenoma, pancreatic ductal adenoma pancreatic cystadenoma, pancreatic acinar cell carcinoma, pancreatic adenocarcinoma); Mesenchymal (hemangioma, hemangioendothelioma, hemagiontothelial sarcoma, fibroma, fibrosarcoma, hemangiopericytoma, neurilemmona, neurofibroma, neurofibrosarcoma) | Description Source: National Status and Trends, Benthic Surveillance Project
100
HYDVAC VARCHAR Hydropic vacuolation: Hepatocellular or biliary hydropic vacuolation (syn RAM cell areas, atypical cellular vacuolation) | Description Source: National Status and Trends, Benthic Surveillance Project
100
KIDNEO VARCHAR Kidney neoplasms (Incidence of kidney neoplasms). | Description Source: National Status and Trends, Benthic Surveillance Project
100
GPAENEP VARCHAR Gross epidermal papilloma/abgioepithelial nodule (Incidence of gross epidermal papilloma/abgioepithelial nodule). | Description Source: National Status and Trends, Benthic Surveillance Project
100
FINEROS VARCHAR Fin erosion (Incidence of fin erosion and associated lesions, including loss of fin, hemorrhagic fin tissue, fused rays, bent fin, exposed fin rays, fin ray blunting or retraction, and reflection of fin tissue back onto body surface). | Description Source: National Status and Trends, Benthic Surveillance Project
100
ALLFCA VARCHAR All foci of cellular alteration. Putative preneoplastic focal lesions (foci of cellular alteration, including clear cell focus, eosinophilic focus, basophilic cell focus, and hyperplastic hepatocellular regeneration) | Description Source: National Status and Trends, Benthic Surveillance Project
100
LIVPROL VARCHAR Liver, non-neoplastic proliferative lesions (includes biliary hyperplasia, hep. regeneration, oval cell proliferation, cholangiofibrosis, increased mitotic index) | Description Source: National Status and Trends, Benthic Surveillance Project
100
SDN VARCHAR Specific degeneration/necrosis (includes hep. nuclear pleomorphism, hepatic megalocytosis) | Description Source: National Status and Trends, Benthic Surveillance Project
100
SPONGHEP VARCHAR Spongiosis hepatis or cystic degeneration of hepatocellular parenchyma | Description Source: National Status and Trends, Benthic Surveillance Project
100
NECROSIS VARCHAR Necrosis (NOT same as SDN), primarily includes hep. coagulative necrosis, biliary epithelial cell necrosis, hep. and biliary pyknosis, karyorrhexis) | Description Source: National Status and Trends, Benthic Surveillance Project
100
LIVER VARCHAR Examined liver: This just indicates whether or not the liver was examined. | Description Source: National Status and Trends, Benthic Surveillance Project
100
NEPHPROL VARCHAR Kidney, proliferative lesions (includes multiple lesions including tubular regeneration, tubular hyperplasia, glomerular hypercellularity, proliferation of parietal and visceral layers of Bowman's capsule, other rarely encountered lesions) | Description Source: National Status and Trends, Benthic Surveillance Project
100
NEPHNEC VARCHAR Kidney necrosis (includes a long list of multiple lesions, including mesangiolysis, tubular necrosis, hydropic degeneration of tubular epithelium, hyalinization of tubular epithelium, others) | Description Source: National Status and Trends, Benthic Surveillance Project
100
NEPHSCLR VARCHAR Kidney, sclerotic/fibrotic conditions (includes mesangiosclerosis, hypermembranous tubules, hypermembraneous glomerular tuft, calcification, glomerulosclerosis, peritubular fibrosis, and fibrosis/fibroplasia of the interstitium) | Description Source: National Status and Trends, Benthic Surveillance Project
100
KIDNEY VARCHAR Examined kidney: This just indicates whether or not the kidney was examined. | Description Source: National Status and Trends, Benthic Surveillance Project
100
REV_PATH VARCHAR Last Revision of Taxonomy/Pathology File | Description Source: National Status and Trends, Benthic Surveillance Project

Attribute Details

NST_SITE

CC ID: 533144
Seq. Order: 1
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

NSandT site identifier (5 letter code site identifier). | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

YEAR

CC ID: 533145
Seq. Order: 2
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Year the site was sampled. | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

SPEC_CD1

CC ID: 533146
Seq. Order: 3
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Species abbreviation (Usually a 2 or 3 letter code which identifies the common species name). | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

SPEC_NO

CC ID: 533147
Seq. Order: 4
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Laboratory specimen number | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

SEX

CC ID: 533148
Seq. Order: 5
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Sex of the specimen | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

AGEYEARS

CC ID: 533149
Seq. Order: 6
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Age of the specimen | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

LENGTH

CC ID: 533150
Seq. Order: 7
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Length of the specimen (millimeters) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

WEIGHT

CC ID: 533151
Seq. Order: 8
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Weight of the specimen (grams) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

EPNEO

CC ID: 533152
Seq. Order: 9
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Liver epithelial neoplasms (Incidence of epithelial lesions). | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

MESNEO

CC ID: 533153
Seq. Order: 10
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Liver mesenchymal neoplasms (Incidence of mesenchymal lesions). | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

ALLNEO

CC ID: 533154
Seq. Order: 11
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

All types of liver neoplasms. It includes both epithelial and mesenchymal: Epithelial (liver cell adenoma, cholangioma, hepatocellular, carcinoma, cholangiocellular, carcinoma, mixed hepatobiliary carcinoma, biliary cystadenoma, biliary cystadenocarcinoma, pancreatic acinar cell adenoma, pancreatic ductal adenoma pancreatic cystadenoma, pancreatic acinar cell carcinoma, pancreatic adenocarcinoma); Mesenchymal (hemangioma, hemangioendothelioma, hemagiontothelial sarcoma, fibroma, fibrosarcoma, hemangiopericytoma, neurilemmona, neurofibroma, neurofibrosarcoma) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

HYDVAC

CC ID: 533155
Seq. Order: 12
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Hydropic vacuolation: Hepatocellular or biliary hydropic vacuolation (syn RAM cell areas, atypical cellular vacuolation) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

KIDNEO

CC ID: 533156
Seq. Order: 13
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Kidney neoplasms (Incidence of kidney neoplasms). | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

GPAENEP

CC ID: 533157
Seq. Order: 14
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Gross epidermal papilloma/abgioepithelial nodule (Incidence of gross epidermal papilloma/abgioepithelial nodule). | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

FINEROS

CC ID: 533158
Seq. Order: 15
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Fin erosion (Incidence of fin erosion and associated lesions, including loss of fin, hemorrhagic fin tissue, fused rays, bent fin, exposed fin rays, fin ray blunting or retraction, and reflection of fin tissue back onto body surface). | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

ALLFCA

CC ID: 533159
Seq. Order: 16
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

All foci of cellular alteration. Putative preneoplastic focal lesions (foci of cellular alteration, including clear cell focus, eosinophilic focus, basophilic cell focus, and hyperplastic hepatocellular regeneration) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

LIVPROL

CC ID: 533160
Seq. Order: 17
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Liver, non-neoplastic proliferative lesions (includes biliary hyperplasia, hep. regeneration, oval cell proliferation, cholangiofibrosis, increased mitotic index) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

SDN

CC ID: 533161
Seq. Order: 18
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Specific degeneration/necrosis (includes hep. nuclear pleomorphism, hepatic megalocytosis) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

SPONGHEP

CC ID: 533162
Seq. Order: 19
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Spongiosis hepatis or cystic degeneration of hepatocellular parenchyma | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

NECROSIS

CC ID: 533163
Seq. Order: 20
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Necrosis (NOT same as SDN), primarily includes hep. coagulative necrosis, biliary epithelial cell necrosis, hep. and biliary pyknosis, karyorrhexis) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

LIVER

CC ID: 533164
Seq. Order: 21
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Examined liver: This just indicates whether or not the liver was examined. | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

NEPHPROL

CC ID: 533165
Seq. Order: 22
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Kidney, proliferative lesions (includes multiple lesions including tubular regeneration, tubular hyperplasia, glomerular hypercellularity, proliferation of parietal and visceral layers of Bowman's capsule, other rarely encountered lesions) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

NEPHNEC

CC ID: 533166
Seq. Order: 23
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Kidney necrosis (includes a long list of multiple lesions, including mesangiolysis, tubular necrosis, hydropic degeneration of tubular epithelium, hyalinization of tubular epithelium, others) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

NEPHSCLR

CC ID: 533167
Seq. Order: 24
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Kidney, sclerotic/fibrotic conditions (includes mesangiosclerosis, hypermembranous tubules, hypermembraneous glomerular tuft, calcification, glomerulosclerosis, peritubular fibrosis, and fibrosis/fibroplasia of the interstitium) | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

KIDNEY

CC ID: 533168
Seq. Order: 25
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Examined kidney: This just indicates whether or not the kidney was examined. | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

REV_PATH

CC ID: 533169
Seq. Order: 26
Data Storage Type: VARCHAR
Required: No
Primary Key: No
Status: Active
Description:

Last Revision of Taxonomy/Pathology File | Description Source: National Status and Trends, Benthic Surveillance Project

Allowed Values: Dataset Parameters for Benthic Surveillance Pathology: National Status and Trends, Benthic Surveillance Projects

Catalog Details

Catalog Item ID: 41240
GUID: gov.noaa.nmfs.inport:41240
Metadata Record Created By: Tyler Christensen
Metadata Record Created: 2017-04-06 10:33+0000
Metadata Record Last Modified By: SysAdmin InPortAdmin
Metadata Record Last Modified: 2022-08-09 17:11+0000
Metadata Record Published: 2017-04-17
Owner Org: NCCOS
Metadata Publication Status: Published Externally
Do Not Publish?: N
Metadata Last Review Date: 2017-04-17
Metadata Review Frequency: 1 Year
Metadata Next Review Date: 2018-04-17