BAYLOR COLLEGE OF MEDICINE CHILDRENS FOUNDATION MALAWI

LILONGWE

Unclaimed

Subcontracting experience

1 record from government sources. Past participation is not evidence of current teaming interest.

Role	Agency	Description	Vehicle	Obligated	Action date	Period
Subcontractor	Department of Health and Human Services	SUBMIT GENOME SEQUENCING (BAM, CRAM AND VCF FILES) TO DBGAP UNDER SDY PARENT STUDY. WHOLE GENOME SEQUENCING SUBMISSION TYPE: DNA SAMPLETYPE: GERMLINE SPECIES: HOMO SAPIENS LIBRARY PREP: TRUSEQ PCR-FREE, 450BP NOVASEQ, 2X150 COVERAGE/READS: 40X ANALYSIS: GRM (GERMLINE) REQUIREMENTS WGS TRUSEQ PCR-FREE SAMPLE REQUIREMENTS CLIENT WILL PROVIDE THE FOLLOWING (“PURCHASER MATERIALS”): - A MINIMUM OF 2.5ΜG OF UNAMPLIFIED, HIGH MOLECULAR WEIGHT, RNASE TREATED DNA IS REQUIRED - SAMPLES SHOULD BE SUBMITTED IN A TOTAL VOLUME OF 50UL TO 100UL EB - SAMPLES SHOULD HAVE ABSORBANCE VALUES OF OD260/280 1.7- 2.0 AND OD260/230 >2.0 - SAMPLES SHOULD BE QUANTIFIED BY PICOGREEN (OR EQUIVALENT) - IF AVAILABLE, PLEASE SUBMIT AN AGAROSE GEL IMAGE TO VERIFY DNA QUALITY ANALYSIS WHOLE GENOME SEQUENCING ANALYSIS - ALIGNMENT OF RAW READS TO GRCH38 USING BWA-MEM - PICARD MARKDUPLICATES - GATK BASE QUALITY SCORE RECALIBRATION - VARIANT CALLING USING GATK HAPLOTYPECALLER - SINGLE SAMPLE GENOTYPING - ANNOTATIONS INCLUDE VARIANT EFFECT PREDICTIONS USING VEP; ALLELE FREQUENCIES FROM GNOMAD;DBSNP; CONSERVATION SCORES FROM PHYLOP, PHASTCONS; DAMAGING EFFECT PREDICTIONS FROM POLYPHEN 2, SIFT AND CLINICALLY RELEVANT INFORMATION FROM CLINVAR. - STRUCTURAL VARIANT CALLING USING MANTA/CANVAS DELIVERABLES WHOLE GENOME SEQUENCING DELIVERABLES - EXPECTED MEAN TARGET COVERAGE AS SPECIFIED IN THE SERVICE DESCRIPTION - >75% OF BASES SEQUENCED WITH A QUALITY SCORE ABOVE Q30 - BAM FORMAT FILE CONTAINING ALL PASSED FILTER READS AND QUALITY SCORES - RECALIBRATED VARIANT CALLS IN VCF FORMAT - ANNOTATED VARIANT CALLS IN TAB DELIMITED TEXT FILE FORMAT - PER-SAMPLE ANNOTATED UNFILTERED MANTA/CANVAS RESULTS IN VCF FORMAT, BGZIPPED AND TABIX INDEXED BAYLOR 24-QA-100131-12G-504200 Parent award context Parent award agency: Department of Health and Human Services · National Institutes of Health Parent award NAICS: 541715 Parent award performance state: MI Parent award description: SUDDEN DEATH IN THE YOUNG CASE REGISTRY (SDY) - DATA COORDINATING CENTER BIOSPECIMEN AND CONSENT ACTIVITIES View parent award on USAspending	—	$80,000	Jul 16, 2025	— – —

Contract vehicles are shown only when present in the source record. Linked award numbers and vehicles open the authoritative record on USAspending.gov.