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Appendix A – LDMS Codes

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<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

<strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

Table of Contents<br />

<strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong> ......................................................................................................... 382<br />

<strong>LDMS</strong> Primary <strong>Codes</strong> .............................................................................................................. 383<br />

<strong>LDMS</strong> Additive <strong>Codes</strong> .............................................................................................................. 384<br />

<strong>LDMS</strong> Derivative <strong>Codes</strong> .......................................................................................................... 385<br />

<strong>LDMS</strong> Sub Additive/Derivative <strong>Codes</strong> ..................................................................................... 387<br />

<strong>LDMS</strong> Miscellaneous <strong>Codes</strong> ................................................................................................... 389<br />

Measurement....................................................................................................................... 389<br />

VID Units ............................................................................................................................. 389<br />

Time Units ........................................................................................................................... 389<br />

Conditions ............................................................................................................................ 389<br />

<strong>LDMS</strong> Assay Censor <strong>Codes</strong> .................................................................................................... 390<br />

Specimen Management ...................................................................................................... 390<br />

Immunology ......................................................................................................................... 390<br />

Pharmacology...................................................................................................................... 390<br />

Virology ................................................................................................................................ 391<br />

© 2011 Frontier Science Foundation 382 September 2011


<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

<strong>LDMS</strong> Primary <strong>Codes</strong><br />

Refer to the <strong>LDMS</strong> Reports module for a complete listing of <strong>LDMS</strong> <strong>Codes</strong>.<br />

APP Air Pollution Particles MSB Main Stem Bronchus Wash<br />

AMN Amniotic Fluid MEC Meconium<br />

ANL Anal NAS Nasal<br />

ART Arterial Blood Draw NPH Nasopharyngeal<br />

BLD Blood (Whole) NPW Nasopharyngeal Wash<br />

FST Blood from Fingerstick ORL Oral<br />

HST Blood from Heelstick ORH Oropharyngeal<br />

BMA Bone Marrow Aspirate OPW Oropharyngeal Wash<br />

BMC Bone Marrow Core Biopsy OTH Other<br />

BRN Brain Tissue PEN Penis<br />

BMK Breast Milk FSI Penis Foreskin, Inner Tissue<br />

BML Breast Milk - Left FSO Penis Foreskin, Outer Tissue<br />

BMR Breast Milk - Right FSK Penis Foreskin, Whole Tissue<br />

BRS Breast Tissue PAN Perianal<br />

BAL Bronchoalveolar Lavage PHX Pharynx<br />

BRB Bronchoscopy Brush PLC Placental Tissue<br />

BUC Buccal Cells PLQ Plaque<br />

CSF Cerebro-Spinal Fluid PFL Pleural Fluid<br />

CVB Cervical Biopsy/Aspirate PRT Prostate Tissue Biopsy<br />

CXC Cervical Culturette REC Rectal<br />

CSC Cervical Secretion ARB Rectal Biopsy by Anoscopy<br />

CXS Cervical Swab FSR Rectal Biopsy by Flexible Sigmoidoscopy<br />

CVL Cervical Vaginal Lavage RSC Rectosigmoid Colon<br />

CER Cervix SAL Saliva<br />

CRD Cord Blood SCR Scrotum<br />

EYE Corneal Tissue SEM Semen<br />

DIA Dialysate<br />

FSC Sigmoid Colon Biopsy by Flexible<br />

Sigmoidoscopy<br />

DPL Dried Plasma SKN Skin<br />

DWB Dried Whole Blood SLU Skin Lesion<br />

END Endometrium SPL Spleen<br />

EBC Exhaled Breath Condensate SPT Sputum<br />

EPS Expressed Prostatic Secretions SPI Sputum, Induced<br />

GAS Gastric Secretions SIN Sputum, Induced Non-Select<br />

GLU Genital Lesion/Ulcer SIS Sputum, Induced Select<br />

GCF Gingival Crevicular Fluid SPS Sputum, Spontaneous<br />

GLN Glans SSN Sputum, Spontaneous Non-Select<br />

HAR Hair SSS Sputum, Spontaneous Select<br />

BHR Hair, Body STL Stool<br />

FHR Hair, Facial TER Tears<br />

PHR Hair, Pubic THR Throat Swab<br />

SHR Hair, Scalp THW Throat Wash<br />

INW Induction Waste THY Thymus<br />

INT Intestinal Biopsy/Aspirate TON Tonsillar Biopsy/Aspirate<br />

IVR Intra-vaginal Ring TCA Tracheal Aspirate<br />

KID Kidney Biopsy UNK Unknown Primary<br />

LBT Lateral Border of the Tongue UTH Urethra<br />

LPK Leukopak URN Urine<br />

LIV Liver Tissue VGL Vaginal<br />

LUE Lung, Excised VSC Vaginal Secretions<br />

LUF Lung, Filter Paper VAG Vaginal Swab<br />

LYM Lymph Node Biopsy/Aspirate VUL Vulva<br />

WAR Warts<br />

Frontier Science Foundation 383 October 2011


<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

<strong>LDMS</strong> Additive <strong>Codes</strong><br />

Refer to the <strong>LDMS</strong> Reports module for a complete listing of <strong>LDMS</strong> <strong>Codes</strong>.<br />

ACD Acid Citrate Dextrose PFM Paraformaldahyde<br />

AHP Ammonium Heparin PAX PAXgene Blood RNA tube<br />

BTM Biopsy Transport Media PBS Phosphate Buffered Saline<br />

BOR Boric Acid PPT Plasma Preparation Tube<br />

CPH Cell Preparation Tube Heparin PLP PLP Fixative<br />

CPS Cell Preparation Tube SCI PAC Port-a-cul Transport Tube<br />

CPD Citrate Phosphate Dextrose PED Potassium EDTA<br />

BBL CultureSwab Kit PRO ProbeTec Media<br />

DFA Desferoxamine RLS Ringer's Lactate Solution<br />

EDT EDTA RNL RNALater<br />

END Endometrial Tissue ROC Roche Media<br />

ETH Ethanol RPM RPMI 1640 Medium<br />

FFN Fetal Fibronectin Buffer<br />

PI1 S8820 Sigma SIGMAFAST? Protease<br />

FMD Formaldehyde SST<br />

Inhibitor Tablets<br />

Serum Separator<br />

FOR Formalin SKM Skim Milk<br />

GEN GenAptima Media<br />

STG Skim milk-Tryptone-Glucose-Glycerin<br />

Medium (STGG)<br />

GLT Glutaraldehyde SNP Snap/Flash Frozen<br />

GIT Guanidine Isothiocyanate (GITC) SCI Sodium Citrate<br />

GRB Guanidine Reduction Buffer SED Sodium EDTA<br />

HEP Heparin SFL Sodium Fluoride<br />

IST Internal Standard SPH Sucrose Phosphate<br />

ISO Isohelix kit SPO Sodium Fluoride/Potassium Oxalate<br />

LPE Liquid Potassium EDTA SPS Sodium Polyanetholesulfonate<br />

LSE Liquid Sodium EDTA DPE Spray Dried Potassium EDTA<br />

LHP Lithium Heparin DSE Spray Dried Sodium EDTA<br />

LHG Lithium Heparin and Gel for Plasma SCC Steck Cyto-Chex tubes - stabilized<br />

MPA Metaphosphoric Acid SPH Sucrose Phosphate<br />

NON None TEM Tempus Tube<br />

NSL Normal Saline THM Thrombin<br />

NOR Normasol TFM Tissue Freezing Medium<br />

OCT Optimum Cutting Temperature Medium TMS Transport Medium-Stuarts<br />

ORG Oragene Collection Container UNK Unknown Additive<br />

ORA OraSure Collection Container VTM Viral Transport Media<br />

OTH Other H2O Water<br />

Frontier Science Foundation 384 October 2011


<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

<strong>LDMS</strong> Derivative <strong>Codes</strong><br />

Refer to the <strong>LDMS</strong> Reports module for a complete listing of <strong>LDMS</strong> <strong>Codes</strong>.<br />

ADL Adipose Tissue Layer NKC Natural Killer Cells<br />

AMN Amniotic Fluid NCL Neutrophil (PMN) - Viable cells<br />

APL Applicator Tip<br />

NPE Neutrophil (PMN) Dried Cell Pellet, Non<br />

Viable<br />

ASP Aspirate NON None<br />

BPS Biopsy NXD Non-extracted DNA<br />

BLD Blood (Whole)<br />

PEN Non-viable cells from non-blood<br />

specimen type<br />

BMA Bone Marrow Aspirate PEL Non-viable PBMC s<br />

BMC Bone Marrow Core Biopsy<br />

N/A Not Applicable - Same as Primary<br />

Specimen Type<br />

BRN Brain Tissue OTH Other<br />

BMK Breast Milk OPC Ova & Parasite Concentrate<br />

BML Breast Milk - Left CEL PBMC Cells, Viable<br />

BMR Breast Milk - Right FSI Penis Foreskin, Inner Tissue<br />

BMS Breast Milk - Spun FSO Penis Foreskin, Outer Tissue<br />

BMW Breast Milk - Whole UMB Placenta - Cord Slice<br />

BRS Breast Tissue PLM Placenta - Membrane Slice<br />

BAL Bronchoalveolar Lavage PLT Placenta - Placenta Slice<br />

BUC Buccal Cells PLC Placental Tissue<br />

CAN Candida PLH Plasma High Spin<br />

CD4 CD4 Positive T-Cells PL* Plasma, All<br />

CLI Cell Lines PL2 Plasma, Double-Spun<br />

CTC Cells from a CTL Assay DPL Plasma, Dried<br />

CGN Cells in GITC DPE Plasma, Dried Extract<br />

CIO Cells in Other (Solution), Non-<br />

Viable<br />

FPL Plasma, Filtered<br />

CSF Cerebro-Spinal Fluid<br />

CXS Cervical Swab PL1 Plasma, Single-Spun<br />

CVL Cervical Vaginal Lavage PLA Plasma, Unknown Processing<br />

CCC Cryopreserved Cells from a Culture,<br />

Viable<br />

PDC Plasmacytoid Dendritic Cells<br />

CLN Cryopreserved primary cells from STK Quantitative Culture Held beyond 14<br />

Non-Blood Spec Type, Viable<br />

Days<br />

SUP Culture Supernatant REC Rectal<br />

PCC Culture Supernatant and Cells RBC Red Blood Cells<br />

CTB Cytobrush SAL Saliva<br />

CMV CytoMegaloVirus Isolate SEC Secretions<br />

DSP Digested Sputum SEM Semen<br />

DBE Dried Blood Extract SER Serum<br />

DBS Dried Blood Spot CSR Serum - Chilled<br />

PED Dried Pellet - Digene SRH Serum - High Speed Spun<br />

PER Dried Pellet - Roche SKN Skin<br />

DPS Dried Plasma Spot SLD Slide from a primary sample<br />

DWB Dried Whole Blood SMR Smear<br />

CDP Dry Pellet from a Culture, Non<br />

Viable<br />

SNO SNO - Strip<br />

END Endometrial Tissue SPG Sponge<br />

XDA Extracted DNA DPE Spray Dried EDTA<br />

XFL Extracted Fluid from RNA RT PCR WFS Stimulated whole blood cells, lysed,<br />

for Sequencing<br />

fixed, frozen (with DMSO) for flow<br />

XPD Extracted Pellet from DNA PCR for<br />

Sequencing<br />

STL Stool<br />

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<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

XPR Extracted Pellet from RNA RT PCR PLP Supernatant & Cells from a Quantitative<br />

for Sequencing<br />

Culture<br />

XPA Extracted RNA SDI Supernatant Dermis, Inner<br />

FLD Fluid Portion from a Non-Blood<br />

Specimen Type<br />

SDO Supernatant Dermis, Outer<br />

CEN Fresh Cells from a Non-Blood<br />

Spec. Type<br />

SEI Supernatant Epidermis, Inner<br />

CRY Generic Cryptococcus SEO Supernatant Epidermis, Outer<br />

HAR Hair SPQ Supernatant from a Quantitative Culture<br />

BHR Hair, Body<br />

CTS Supernatant generated from a CTL<br />

Assay<br />

FHR Hair, Facial<br />

ICK Supernatant generated from Inducible<br />

Cytokines<br />

PHR Hair, Pubic SWB Swab<br />

SHR Hair, Scalp TFS Tear-Flo Strips<br />

IVR Intra vaginal Ring THW Throat Wash<br />

LAV Lavage THY Thymus<br />

LPK Leukopak TIS Tissue<br />

LPD Lipid Layer BLK Tissue Block<br />

LIV Liver Tissue TON Tonsillar Biopsy/Aspirate<br />

LYM Lymph Node Biopsy/Aspirate TRU Trucount<br />

LYS Lysed whole blood<br />

BUF Unficolled Cryopreserved Buffy Coat,<br />

Viable<br />

MCL Macrophage Cells - Viable SPT Unfractioned Sputum<br />

MPE Macrophage Dried Cell Pellet, Non<br />

Viable<br />

SPI Unfractioned Sputum, Induced<br />

MEC Meconium UNK Unknown Derivative<br />

IPK Methanol Extract Supernatant<br />

WFC Unstimulated whole blood cell, lysed ,<br />

fixed, frozen (with DMSO) for flow<br />

MCS Microbiology Culture Slant URN Urine<br />

MTB MTB Isolates VAG Vaginal<br />

MUC Mucins PEO Wet Pellet Prep - Organon Teknika<br />

MDC Myeloid Dendritic Cells W/D Wet/Dry<br />

NPW Nasopharyngeal Wash WPK Whole Blood Packed<br />

WBP Whole Blood Pellet, Specify<br />

Methodology<br />

WEK Wick/Wek Cell Sponge<br />

Frontier Science Foundation 386 October 2011


<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

<strong>LDMS</strong> Sub Additive/Derivative <strong>Codes</strong><br />

Refer to the <strong>LDMS</strong> Reports module for a complete listing of <strong>LDMS</strong> <strong>Codes</strong>.<br />

TCA 1% Thimersol/ 6.6% EACA (Epsilon<br />

Amino Caproic Acid)<br />

DCF 2 - deoxycoformycin.<br />

GLY 20% Glycerol<br />

ADA Adenosine Deaminase<br />

MUC Mucins<br />

TSC Myeloid dendritic cell infect w/ Sendai<br />

Cantell & treat w/ TSST<br />

TND Myeloid dendritic cell infected with NDVW<br />

and treated with TSST<br />

TMD Myeloid dendritic cell non infected and<br />

ATC Animal Tumor Cell Line NCL<br />

treated with TSST<br />

N-acetyl-L-cysteine<br />

APR Aprotinin NDV NDVB1, Newcastle disease virus wild type<br />

ASC Ascorbate (Vit C)<br />

NDN NDVNS1, Newcastle disease virus with<br />

NS1 influenza protein<br />

AUO Auramine O NPI Neuropepsidase Inhibitor<br />

BCG Bacille Calmette-Gu‚rin<br />

NDW Newcastle disease virus with W influenza<br />

BCL B-cell Lymphoblastoid Cell Line NON<br />

protein<br />

None<br />

BML Breast - Left NSL Normal Saline<br />

BMR Breast - Right N/A Not Applicable<br />

CAN Candida (CASTA) NUC Nucleotides<br />

CCM CareHPV Collection Medium OKT OKT3 Treated<br />

CON Control OCT Optimum Cutting Temperature Medium<br />

SUP Cultural Supernatant P24 P24<br />

CME Culture Media PFM Paraformaldahyde<br />

CYT Cytokines PAR Parrafin<br />

CMV CytoMegaloVirus PHA PHA-Treated<br />

CSP Cytospin Slides PMI Phorbol Myristate Acetate-Ionomycin<br />

DEA DEACTIVATED PBS Phosphate Buffered Saline<br />

DPL Depleted Cell Populations PPA Phosphoric Acid<br />

DTM Digene/Qiagen Specimen Transport<br />

PLD Plasma, Depleted<br />

Medium<br />

DMS Dimethylsulfoxide (DMSO) PWM Pokeweed Mitogen<br />

DTT Dithiothreitol PVA Polyvinyl alcohol<br />

EDT EDTA PCS PreserveCytSolution<br />

ETH Ethanol RTB Reverse Transcriptase buffer<br />

FBS Fetal Bovine Serum RGT Right<br />

FOR Formalin RNP RNA Protect<br />

FUN Fungal Broth RNL RNAlater<br />

GMS Giemsa Staining RFW RNAse free water<br />

GLT Glutaraldehyde RPM RPMI 1640 Medium<br />

GLM Glycerol Media<br />

PI1 S8820 Sigma SIGMAFAST Protease<br />

Inhibitor Tablets<br />

GRS Gram Stain<br />

S52 Sendai 52 virus with defective infectious<br />

particules<br />

GIT Guanidine Isothiocyanate (GITC) SEB Sigma Staphylococcus Enterotoxin B<br />

HPA Hep A<br />

STG Skim milk-Tryptone-Glucose-Glycerin<br />

H&E Hematoxylin and Eosin Stain SCB<br />

Medium (STGG)<br />

Sodium Carbonate<br />

GAG HIV GAG envelope peptide NOH Sodium Hydroxide<br />

HTC Human Tumor Cell Line STM Stimulated by Multiple Antigens<br />

HCl Hydrochloric Acid TCL T-cell Lymphoblastoid Cell Line<br />

ILA IL-12/IL-15, Interleukin-12/Interleukin-15 TEM Tempus Tube<br />

I18 IL-18 TTX Tetanus Toxoid treated<br />

Frontier Science Foundation 387 October 2011


<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

I1b IL-1b TFM Tissue Freezing Medium<br />

IL2 IL-2, Interleukin 2 TOC Tocopherol (Vit E)<br />

INK India Ink TMS Transport Medium-Stuarts<br />

IAP Iodoacetic Acid/Phenanthrolene TRI TriReagent<br />

562 K562 Cell Line TCM Trichrome Stain<br />

LFT Left TRX Triton X<br />

LES Lesion TRZ Trizol<br />

LPS Lipopolysaccaride TNV TSST with NDVB1<br />

LVT L-var Target TNN TSST with NDVNS1<br />

LYB Lysis Buffer TSS TSST, Toxic-Shock Syndrome Toxin<br />

MAS M. Avium Sensitin UNK Unknown Sub A/D<br />

MA1 MAC 101 UNT Untreated / Unstimulated<br />

MAC MAC Antigen VTM Viral Transport Media<br />

MAF MAC LR114F Culture Filtrate VIR Virus<br />

MIF Merthoilate Formalin/Merthiolate-Iodine<br />

Formalin (MF/MIF)<br />

VPS VP Stimulator<br />

MRN Messenger RNA VPT VP Target<br />

MET Methanol H2O Water<br />

MT2 MT2 Cell Line DPH Wyeth Ayerst Diphtheria Antigen<br />

ZLN Ziehl Neelsen<br />

Frontier Science Foundation 388 October 2011


<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

<strong>LDMS</strong> Miscellaneous <strong>Codes</strong><br />

Refer to the <strong>LDMS</strong> Reports module for a complete listing of <strong>LDMS</strong> <strong>Codes</strong>.<br />

Measurement<br />

CEL Cells MM Millimeters<br />

CM Centimeters N/A Not Applicable<br />

EA Each PG Picograms<br />

Fmole Femtomole Pmole Picomole<br />

GR Grams UG Micrograms<br />

MG Milligrams UL Microliters<br />

ML Milliliters UNK Unknown Units<br />

VID Units<br />

A A POR Post study & redraw<br />

B B CFM Post Study Confirmation Test<br />

B/L Baseline SRV Post Study Service Test<br />

Bth Birth Pst Post-Infusion<br />

Ch Challenge Pos Post-Study<br />

Cb Cord Blood PE Pre-entry<br />

Day Days Pri Pre-Infusion<br />

EOX End of Study & possible recent<br />

Prf Proficiency<br />

exposure<br />

EOR End of Study & redraw Qul Qualification<br />

Eos End-Of-Study Exp Recent Exposure<br />

Ent Entry/Baseline Rdw Redraw<br />

Ext Exit/Discontinuation Scr Screening<br />

FUP Follow-up Test SP Sero Positive<br />

Inf Infected Participant Testing SC Seroconversion<br />

L&D Labor & Delivery SCK Sick<br />

Mo Months Sps Special Studies<br />

OFP Off PrEP UnK Unknown<br />

ONP On PrEP Uns Unscheduled<br />

Gel On study without gel Vst Visit<br />

PPt Post Partum Wk Weeks<br />

POX Post study & possible recent<br />

exposure<br />

Yr Years<br />

Time Units<br />

Day Day Pst Post-Fasting<br />

Fst Fasting Prd Predialyzer<br />

Hrs Hours Pre Pre-Dose<br />

Min Minutes Ran Random<br />

Nft Non-Fasting RPD Random Post Dose<br />

Pol Pooled Sec Seconds<br />

Psd Postdialyzer Tr Trough<br />

UNK Unknown Time Unit<br />

Conditions<br />

CLT Clotted LBE Lab Error<br />

Frontier Science Foundation 389 October 2011


<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

COC Combination of Conditions (Explain) LIP Lipemic<br />

CTM Contaminated LSH Lost Shipment<br />

DSH Delayed Shipment LYS Lysed<br />

DSR Destroyed OTH Other (Explain)<br />

DIM Dry Ice Melted PST Processed after Specified Time<br />

EQF Equipment Failure QNS Quantity Not Sufficient<br />

EXP Expired REF Refrigerated<br />

HUM Exposed to high humidity SNC Sample not collected<br />

FRO Frozen SNR Sample Not Received,CRF Received<br />

HEM Hemolyzed SAT Satisfactory<br />

ICT Icteric (Excess Bilirubin)<br />

TNO Shipping/storage temperature not<br />

optimal/warmed<br />

INT Incorrect Tube TWD Thawed<br />

INV Invalid Specimen UNK Unknown Condition<br />

<strong>LDMS</strong> Assay Censor <strong>Codes</strong><br />

Specimen Management<br />

Reasons for Not Running an Assay<br />

CTM Contaminated NPA<br />

Sample drawn without patient<br />

adherence to regimen<br />

COR Controls out of range OUT Resulted outside the <strong>LDMS</strong><br />

EQF Equipment failure PSW<br />

Sample not drawn within protocolspecified<br />

window<br />

LBA Laboratory accident QNS Quantity not sufficient<br />

LBE Lab error WCT Wrong controls<br />

MSW Missing well STO Specimen too old to run on test<br />

Immunology<br />

User Censors<br />

C Contamination R Not required<br />

E Tech error/Lab error S Quantity not sufficient<br />

K Kit/Reagent problem V Poor viability<br />

N Not done<br />

Reasons Why Results Were Not Obtained<br />

A Wrong anticoagulant P Results reported under a different protocol<br />

C Contamination S Quantity not sufficient<br />

E Tech error/Lab error U Unsatisfactory sample<br />

K Kit/Reagent problem V Poor viability<br />

Pharmacology<br />

System Censors<br />

B Below quant. limit<br />

L Lower limit adjusted up for this run<br />

R Repeat (with L system censor only)<br />

User Censors<br />

A<br />

Invalid. Greater than the upper limit,<br />

dilute and repeat<br />

Q Not Quantifiable<br />

B Below quant. limit or no peak S Quantity Not Sufficient<br />

D Drug not required to be assayed X Per lab, sample must be repeated<br />

O QC out of range, dilute and repeat Z No result, lab issue<br />

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<strong>LDMS</strong> User Manual<br />

User Censors<br />

<strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

P Not able to interpret result<br />

Virology<br />

User Censors<br />

B1 BOOM extraction used P Equipment failure<br />

C<br />

Control re-run and valid <strong>–</strong> assay is<br />

valid<br />

Q Kit QC out of range <strong>–</strong> repeat<br />

D Contamination V Over-amplified<br />

E Poor viability W Inhibitory/Material did not amplify<br />

K Kit/Reagent problem Z Per lab, do not use<br />

O Lab error/Lab accident R Re-detected<br />

Abbott Realtime HIV-1 Assay (System Censors)<br />

F Invalid Control J Undetectable<br />

G<br />

Results less than lower limit of<br />

quantification<br />

H No Result<br />

X4<br />

Results greater than upper limit of<br />

quantification<br />

Roche Amplicor HIV Monitor (RT PCR) Assay (System Censors)<br />

A QS wells below lower limit L(HIV) HIV wells out of sequence<br />

B QS wells above upper limit L(QS) QS wells out of sequence<br />

C User re-selected well for algorithm R Re-read<br />

D OD ratio failure <strong>–</strong> repeat U<br />

Undetectable sample above cutoff <strong>–</strong><br />

repeat<br />

F Control out of range X2 Invalid standards <strong>–</strong> slope negative.<br />

I No QS wells in range X3 Invalid/Out of sequence control<br />

J<br />

HIV wells below lower limit <strong>–</strong> no HIV<br />

RNA detected<br />

X4<br />

Copies greater than the upper limit of<br />

quantification <strong>–</strong> dilute and repeat<br />

K HIV wells above upper limit<br />

Roche Amplicor HIV-1 Monitor UltraSensitive Assay (System Censors)<br />

A QS wells below lower limit L(HIV) HIV wells out of sequence<br />

B QS wells above upper limit L(QS) QS wells out of sequence<br />

C User re-selected well for algorithm R Re-read<br />

D OD ratio failure <strong>–</strong> repeat U<br />

Undetectable sample above cutoff <strong>–</strong><br />

repeat<br />

F Control out of range X2 Invalid standards <strong>–</strong> slope negative.<br />

I No QS wells in range X3 Invalid/Out of sequence control<br />

J<br />

HIV wells below lower limit <strong>–</strong> no HIV<br />

RNA detected<br />

X4<br />

Copies greater than the upper limit of<br />

quantification <strong>–</strong> dilute and repeat<br />

K HIV wells above upper limit<br />

Roche COBAS Amplicor HIV-1 Monitor Test (System Censors)<br />

F Invalid control J Undetectable<br />

I No QS wells in range K Wells out of range<br />

G<br />

Copies less than lower limit of<br />

quantification<br />

L(HIV) HIV wells out of sequence<br />

X4<br />

Copies greater than upper limit of<br />

quantification<br />

L(QS) QS wells out of sequence<br />

X3 Invalid/Out of sequence control R Re-read<br />

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<strong>LDMS</strong> User Manual <strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

Roche COBAS Amplicor HIV-1 Monitor Test, UltraSensitive (System Censors)<br />

F Invalid control J Undetectable<br />

I No QS wells in range K Wells out of range<br />

G<br />

Copies less than lower limit of<br />

quantification<br />

L(HIV) HIV wells out of sequence<br />

X4<br />

Copies greater than upper limit of<br />

quantification<br />

L(QS) QS wells out of sequence<br />

X3 Invalid/Out of sequence control R Re-read<br />

HIV DNA PCR (Roche Amplicor Detect) (System Censors)<br />

A 0 control not negative M<br />

Converted from RLMP <strong>–</strong> Out of range<br />

controls<br />

B 10 control not positive N Converted from RLMP <strong>–</strong> Lipemia<br />

C 20 control not positive U<br />

Converted from RLMP <strong>–</strong> Unable to<br />

calculate<br />

D 20 control OD ≤ 2.000 H Converted from RLMP <strong>–</strong> Clotted<br />

E Blind pellet invalid T<br />

Converted from RLMP <strong>–</strong> Prerequisite test<br />

failed<br />

F Previous runs invalid <strong>–</strong> Assay locked O Converted from RLMP <strong>–</strong> Lab error<br />

R Re-read Q Converted from RLMP <strong>–</strong> QNS<br />

P<br />

Converted from RLMP <strong>–</strong> Equipment<br />

failure<br />

W<br />

Converted from RLMP <strong>–</strong> Material didn’t<br />

amplify<br />

G<br />

Converted from RLMP <strong>–</strong><br />

Contamination<br />

Y<br />

Converted from RLMP <strong>–</strong> No description<br />

available<br />

L<br />

Converted from RLMP <strong>–</strong> Missing<br />

well<br />

NASBA HIV-1 RNA Assay (System Censors)<br />

A Invalid standards <strong>–</strong> slope negative D Converted from RLMP <strong>–</strong> Contamination<br />

B Controls out of sequence T<br />

Converted from RLMP <strong>–</strong> Prerequisite test<br />

failed<br />

I Invalid specimen E Converted from RLMP <strong>–</strong> Poor viability<br />

J WT < LDL, Undetectable Q<br />

Converted from RLMP <strong>–</strong><br />

Improper/Questionable ID<br />

R Re-read U<br />

Converted from RLMP <strong>–</strong> Unable to<br />

calculate<br />

M<br />

Converted from RLMP <strong>–</strong> Out of<br />

range controls<br />

V Converted from RLMP <strong>–</strong> Over-amplified<br />

H Converted from RLMP <strong>–</strong> Broken tube W<br />

Converted from RLMP <strong>–</strong> Material didn’t<br />

amplify<br />

G Converted from RLMP <strong>–</strong> QNS O Converted from RLMP <strong>–</strong> Lab error<br />

F<br />

Converted from RLMP <strong>–</strong> Incorrect<br />

tube<br />

K<br />

Converted from RLMP <strong>–</strong> No sample<br />

received<br />

L<br />

Converted from RLMP <strong>–</strong> Laboratory<br />

accident<br />

X Converted from RLMP <strong>–</strong> Delayed shipment<br />

P<br />

Converted from RLMP <strong>–</strong> Equipment<br />

failure<br />

Y Converted from RLMP <strong>–</strong> Missing well<br />

Nuclisens HIV-1 QT Assay (System Censors)<br />

A Invalid slope D Converted from RLMP <strong>–</strong> Contamination<br />

B Controls out of sequence T<br />

Converted from RLMP <strong>–</strong> Prerequisite test<br />

failed<br />

I Invalid specimen E Converted from RLMP <strong>–</strong> Poor viability<br />

J WT < LDL, Undetectable Q<br />

Converted from RLMP <strong>–</strong><br />

Improper/Questionable ID<br />

R Re-read U<br />

Converted from RLMP <strong>–</strong> Unable to<br />

calculate<br />

Frontier Science Foundation 392 October 2011


<strong>LDMS</strong> User Manual<br />

Nuclisens HIV-1 QT Assay (System Censors)<br />

<strong>Appendix</strong> A <strong>–</strong> <strong>LDMS</strong> <strong>Codes</strong><br />

M<br />

Converted from RLMP <strong>–</strong> Out of range<br />

controls<br />

V Converted from RLMP <strong>–</strong> Over-amplified<br />

H Converted from RLMP <strong>–</strong> Broken tube W<br />

Converted from RLMP <strong>–</strong> Material didn’t<br />

amplify<br />

G Converted from RLMP <strong>–</strong> QNS O Converted from RLMP <strong>–</strong> Lab error<br />

F<br />

Converted from RLMP <strong>–</strong> Incorrect<br />

tube<br />

K<br />

Converted from RLMP <strong>–</strong> No sample<br />

received<br />

L<br />

Converted from RLMP <strong>–</strong> Laboratory<br />

accident<br />

X Converted from RLMP <strong>–</strong> Delayed shipment<br />

P<br />

Converted from RLMP <strong>–</strong> Equipment<br />

failure<br />

Y Converted from RLMP <strong>–</strong> Missing well<br />

P24 (System Censors)<br />

A Invalid standards <strong>–</strong> slope negative D Kit controls out of sequence<br />

B VQA standards out of sequence R Re-read<br />

C Missing media controls<br />

Frontier Science Foundation 393 October 2011

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