Data from Harmonizing Cell-Free DNA Collection and Processing Practices through Evidence-Based Guidance Article Swipe

View

Sarah R. Greytak , Kelly B. Engel , Sonya Parpart-Li , Muhammed Murtaza , Abel J. Bronkhorst , Mark D. Pertile , Helen M. Moore ·

YOU? · · 2023 · Open Access · · DOI: https://doi.org/10.1158/1078-0432.c.6529598

Circulating cell-free DNA (cfDNA) is rapidly transitioning from discovery research to an important tool in clinical decision making. However, the lack of harmonization of preanalytic practices across institutions may compromise the reproducibility of cfDNA-derived data and hamper advancements in cfDNA testing in the clinic. Differences in cellular genomic contamination, cfDNA yield, integrity, and fragment length have been attributed to different collection tube types and anticoagulants, processing delays and temperatures, tube agitation, centrifugation protocols and speeds, plasma storage duration and temperature, the number of freeze-thaw events, and cfDNA extraction and quantification methods, all of which can also ultimately impact subsequent downstream analysis. Thus, there is a pressing need for widely applicable standards tailored for cfDNA analysis that include all preanalytic steps from blood draw to analysis. The NCI's Biorepositories and Biospecimen Research Branch has developed cfDNA-specific guidelines that are based upon published evidence and have been vetted by a panel of internationally recognized experts in the field. The guidelines include optimal procedures as well as acceptable alternatives to facilitate the generation of evidence-based protocols by individual laboratories and institutions. The aim of the document, which is entitled “Biospecimen Evidence-based Best Practices for Cell-free DNA: Biospecimen Collection and Processing,” is to improve the accuracy of cfDNA analysis in both basic research and the clinic by improving and harmonizing practices across institutions.

Related Topics

Concepts

Harmonization Best practice Computer science Medicine Risk analysis (engineering) Management Acoustics Economics Physics

Metadata

Type: preprint
Language: en
Landing Page: https://doi.org/10.1158/1078-0432.c.6529598
OA Status: gold
Related Works: 10
OpenAlex ID: https://openalex.org/W4361947443

All OpenAlex metadata

Raw OpenAlex JSON

OpenAlex ID: https://openalex.org/W4361947443

Canonical identifier for this work in OpenAlex
DOI: https://doi.org/10.1158/1078-0432.c.6529598

Digital Object Identifier
Title: Data from Harmonizing Cell-Free DNA Collection and Processing Practices through Evidence-Based Guidance

Work title
Type: preprint

OpenAlex work type
Language: en

Primary language
Publication year: 2023

Year of publication
Publication date: 2023-03-31

Full publication date if available
Authors: Sarah R. Greytak, Kelly B. Engel, Sonya Parpart-Li, Muhammed Murtaza, Abel J. Bronkhorst, Mark D. Pertile, Helen M. Moore

List of authors in order
Landing page: https://doi.org/10.1158/1078-0432.c.6529598

Publisher landing page
Open access: Yes

Whether a free full text is available
OA status: gold

Open access status per OpenAlex
OA URL: https://doi.org/10.1158/1078-0432.c.6529598

Direct OA link when available
Concepts: Harmonization, Best practice, Computer science, Medicine, Risk analysis (engineering), Management, Acoustics, Economics, Physics

Top concepts (fields/topics) attached by OpenAlex
Cited by: 0

Total citation count in OpenAlex
Related works (count): 10

Other works algorithmically related by OpenAlex

Full payload

id	https://openalex.org/W4361947443
doi	https://doi.org/10.1158/1078-0432.c.6529598
ids.doi	https://doi.org/10.1158/1078-0432.c.6529598
ids.openalex	https://openalex.org/W4361947443
fwci	0.0
type	preprint
title	Data from Harmonizing Cell-Free DNA Collection and Processing Practices through Evidence-Based Guidance
biblio.issue
biblio.volume
biblio.last_page
biblio.first_page
topics[0].id	https://openalex.org/T11287
topics[0].field.id	https://openalex.org/fields/13
topics[0].field.display_name	Biochemistry, Genetics and Molecular Biology
topics[0].score	0.9994999766349792
topics[0].domain.id	https://openalex.org/domains/1
topics[0].domain.display_name	Life Sciences
topics[0].subfield.id	https://openalex.org/subfields/1306
topics[0].subfield.display_name	Cancer Research
topics[0].display_name	Cancer Genomics and Diagnostics
topics[1].id	https://openalex.org/T10231
topics[1].field.id	https://openalex.org/fields/27
topics[1].field.display_name	Medicine
topics[1].score	0.9800999760627747
topics[1].domain.id	https://openalex.org/domains/4
topics[1].domain.display_name	Health Sciences
topics[1].subfield.id	https://openalex.org/subfields/2730
topics[1].subfield.display_name	Oncology
topics[1].display_name	Pancreatic and Hepatic Oncology Research
topics[2].id	https://openalex.org/T10582
topics[2].field.id	https://openalex.org/fields/27
topics[2].field.display_name	Medicine
topics[2].score	0.9733999967575073
topics[2].domain.id	https://openalex.org/domains/4
topics[2].domain.display_name	Health Sciences
topics[2].subfield.id	https://openalex.org/subfields/2739
topics[2].subfield.display_name	Public Health, Environmental and Occupational Health
topics[2].display_name	Ethics in Clinical Research
is_xpac	False
apc_list
apc_paid
concepts[0].id	https://openalex.org/C2779962950
concepts[0].level	2
concepts[0].score	0.7319703698158264
concepts[0].wikidata	https://www.wikidata.org/wiki/Q5659376
concepts[0].display_name	Harmonization
concepts[1].id	https://openalex.org/C184356942
concepts[1].level	2
concepts[1].score	0.4481934607028961
concepts[1].wikidata	https://www.wikidata.org/wiki/Q830382
concepts[1].display_name	Best practice
concepts[2].id	https://openalex.org/C41008148
concepts[2].level	0
concepts[2].score	0.43956196308135986
concepts[2].wikidata	https://www.wikidata.org/wiki/Q21198
concepts[2].display_name	Computer science
concepts[3].id	https://openalex.org/C71924100
concepts[3].level	0
concepts[3].score	0.38300782442092896
concepts[3].wikidata	https://www.wikidata.org/wiki/Q11190
concepts[3].display_name	Medicine
concepts[4].id	https://openalex.org/C112930515
concepts[4].level	1
concepts[4].score	0.37918955087661743
concepts[4].wikidata	https://www.wikidata.org/wiki/Q4389547
concepts[4].display_name	Risk analysis (engineering)
concepts[5].id	https://openalex.org/C187736073
concepts[5].level	1
concepts[5].score	0.0
concepts[5].wikidata	https://www.wikidata.org/wiki/Q2920921
concepts[5].display_name	Management
concepts[6].id	https://openalex.org/C24890656
concepts[6].level	1
concepts[6].score	0.0
concepts[6].wikidata	https://www.wikidata.org/wiki/Q82811
concepts[6].display_name	Acoustics
concepts[7].id	https://openalex.org/C162324750
concepts[7].level	0
concepts[7].score	0.0
concepts[7].wikidata	https://www.wikidata.org/wiki/Q8134
concepts[7].display_name	Economics
concepts[8].id	https://openalex.org/C121332964
concepts[8].level	0
concepts[8].score	0.0
concepts[8].wikidata	https://www.wikidata.org/wiki/Q413
concepts[8].display_name	Physics
keywords[0].id	https://openalex.org/keywords/harmonization
keywords[0].score	0.7319703698158264
keywords[0].display_name	Harmonization
keywords[1].id	https://openalex.org/keywords/best-practice
keywords[1].score	0.4481934607028961
keywords[1].display_name	Best practice
keywords[2].id	https://openalex.org/keywords/computer-science
keywords[2].score	0.43956196308135986
keywords[2].display_name	Computer science
keywords[3].id	https://openalex.org/keywords/medicine
keywords[3].score	0.38300782442092896
keywords[3].display_name	Medicine
keywords[4].id	https://openalex.org/keywords/risk-analysis
keywords[4].score	0.37918955087661743
keywords[4].display_name	Risk analysis (engineering)
language	en
locations[0].id	doi:10.1158/1078-0432.c.6529598
locations[0].is_oa	True
locations[0].source
locations[0].license	cc-by
locations[0].pdf_url
locations[0].version	acceptedVersion
locations[0].raw_type	posted-content
locations[0].license_id	https://openalex.org/licenses/cc-by
locations[0].is_accepted	True
locations[0].is_published	False
locations[0].raw_source_name
locations[0].landing_page_url	https://doi.org/10.1158/1078-0432.c.6529598
indexed_in	crossref
authorships[0].author.id	https://openalex.org/A5067701906
authorships[0].author.orcid	https://orcid.org/0000-0002-2823-7136
authorships[0].author.display_name	Sarah R. Greytak
authorships[0].author_position	first
authorships[0].raw_author_name	Sarah R. Greytak
authorships[0].is_corresponding	False
authorships[1].author.id	https://openalex.org/A5075321828
authorships[1].author.orcid	https://orcid.org/0000-0003-4567-313X
authorships[1].author.display_name	Kelly B. Engel
authorships[1].author_position	middle
authorships[1].raw_author_name	Kelly B. Engel
authorships[1].is_corresponding	False
authorships[2].author.id	https://openalex.org/A5086036723
authorships[2].author.orcid
authorships[2].author.display_name	Sonya Parpart-Li
authorships[2].author_position	middle
authorships[2].raw_author_name	Sonya Parpart-Li
authorships[2].is_corresponding	False
authorships[3].author.id	https://openalex.org/A5061412281
authorships[3].author.orcid	https://orcid.org/0000-0001-7557-2861
authorships[3].author.display_name	Muhammed Murtaza
authorships[3].author_position	middle
authorships[3].raw_author_name	Muhammed Murtaza
authorships[3].is_corresponding	False
authorships[4].author.id	https://openalex.org/A5064958931
authorships[4].author.orcid	https://orcid.org/0000-0003-4809-8900
authorships[4].author.display_name	Abel J. Bronkhorst
authorships[4].author_position	middle
authorships[4].raw_author_name	Abel J. Bronkhorst
authorships[4].is_corresponding	False
authorships[5].author.id	https://openalex.org/A5001289521
authorships[5].author.orcid	https://orcid.org/0000-0001-8363-2879
authorships[5].author.display_name	Mark D. Pertile
authorships[5].author_position	middle
authorships[5].raw_author_name	Mark D. Pertile
authorships[5].is_corresponding	False
authorships[6].author.id	https://openalex.org/A5103168636
authorships[6].author.orcid	https://orcid.org/0000-0003-4585-1581
authorships[6].author.display_name	Helen M. Moore
authorships[6].author_position	last
authorships[6].raw_author_name	Helen M. Moore
authorships[6].is_corresponding	False
has_content.pdf	False
has_content.grobid_xml	False
is_paratext	False
open_access.is_oa	True
open_access.oa_url	https://doi.org/10.1158/1078-0432.c.6529598
open_access.oa_status	gold
open_access.any_repository_has_fulltext	False
created_date	2025-10-10T00:00:00
display_name	Data from Harmonizing Cell-Free DNA Collection and Processing Practices through Evidence-Based Guidance
has_fulltext	False
is_retracted	False
updated_date	2025-11-06T03:46:38.306776
primary_topic.id	https://openalex.org/T11287
primary_topic.field.id	https://openalex.org/fields/13
primary_topic.field.display_name	Biochemistry, Genetics and Molecular Biology
primary_topic.score	0.9994999766349792
primary_topic.domain.id	https://openalex.org/domains/1
primary_topic.domain.display_name	Life Sciences
primary_topic.subfield.id	https://openalex.org/subfields/1306
primary_topic.subfield.display_name	Cancer Research
primary_topic.display_name	Cancer Genomics and Diagnostics
related_works	https://openalex.org/W2899084033, https://openalex.org/W2748952813, https://openalex.org/W2001114473, https://openalex.org/W2111735440, https://openalex.org/W2497773966, https://openalex.org/W2217373323, https://openalex.org/W2082077143, https://openalex.org/W3008992799, https://openalex.org/W2017749101, https://openalex.org/W2996373856
cited_by_count	0
locations_count	1
best_oa_location.id	doi:10.1158/1078-0432.c.6529598
best_oa_location.is_oa	True
best_oa_location.source
best_oa_location.license	cc-by
best_oa_location.pdf_url
best_oa_location.version	acceptedVersion
best_oa_location.raw_type	posted-content
best_oa_location.license_id	https://openalex.org/licenses/cc-by
best_oa_location.is_accepted	True
best_oa_location.is_published	False
best_oa_location.raw_source_name
best_oa_location.landing_page_url	https://doi.org/10.1158/1078-0432.c.6529598
primary_location.id	doi:10.1158/1078-0432.c.6529598
primary_location.is_oa	True
primary_location.source
primary_location.license	cc-by
primary_location.pdf_url
primary_location.version	acceptedVersion
primary_location.raw_type	posted-content
primary_location.license_id	https://openalex.org/licenses/cc-by
primary_location.is_accepted	True
primary_location.is_published	False
primary_location.raw_source_name
primary_location.landing_page_url	https://doi.org/10.1158/1078-0432.c.6529598
publication_date	2023-03-31
publication_year	2023
referenced_works_count	0
abstract_inverted_index.a	104, 147
abstract_inverted_index.an	11
abstract_inverted_index.as	161, 163
abstract_inverted_index.by	146, 173, 212
abstract_inverted_index.in	14, 38, 41, 45, 153, 205
abstract_inverted_index.is	4, 103, 184, 197
abstract_inverted_index.of	21, 23, 32, 82, 92, 149, 170, 180, 202
abstract_inverted_index.to	10, 58, 123, 166, 198
abstract_inverted_index.DNA	2
abstract_inverted_index.The	125, 156, 178
abstract_inverted_index.aim	179
abstract_inverted_index.all	91, 117
abstract_inverted_index.and	35, 52, 63, 67, 73, 78, 85, 88, 128, 142, 176, 195, 209, 214
abstract_inverted_index.are	137
abstract_inverted_index.can	94
abstract_inverted_index.for	107, 112, 190
abstract_inverted_index.has	132
abstract_inverted_index.may	28
abstract_inverted_index.the	19, 30, 42, 80, 154, 168, 181, 200, 210
abstract_inverted_index.Best	188
abstract_inverted_index.DNA:	192
abstract_inverted_index.also	95
abstract_inverted_index.been	56, 144
abstract_inverted_index.both	206
abstract_inverted_index.data	34
abstract_inverted_index.draw	122
abstract_inverted_index.from	7, 120
abstract_inverted_index.have	55, 143
abstract_inverted_index.lack	20
abstract_inverted_index.need	106
abstract_inverted_index.that	115, 136
abstract_inverted_index.tool	13
abstract_inverted_index.tube	61, 69
abstract_inverted_index.upon	139
abstract_inverted_index.well	162
abstract_inverted_index.NCI's	126
abstract_inverted_index.Thus,	101
abstract_inverted_index.based	138
abstract_inverted_index.basic	207
abstract_inverted_index.blood	121
abstract_inverted_index.cfDNA	39, 49, 86, 113, 203
abstract_inverted_index.panel	148
abstract_inverted_index.steps	119
abstract_inverted_index.there	102
abstract_inverted_index.types	62
abstract_inverted_index.which	93, 183
abstract_inverted_index.Branch	131
abstract_inverted_index.across	26, 217
abstract_inverted_index.clinic	211
abstract_inverted_index.delays	66
abstract_inverted_index.field.	155
abstract_inverted_index.hamper	36
abstract_inverted_index.impact	97
abstract_inverted_index.length	54
abstract_inverted_index.number	81
abstract_inverted_index.plasma	75
abstract_inverted_index.vetted	145
abstract_inverted_index.widely	108
abstract_inverted_index.yield,	50
abstract_inverted_index.(cfDNA)	3
abstract_inverted_index.clinic.	43
abstract_inverted_index.events,	84
abstract_inverted_index.experts	152
abstract_inverted_index.genomic	47
abstract_inverted_index.improve	199
abstract_inverted_index.include	116, 158
abstract_inverted_index.making.	17
abstract_inverted_index.optimal	159
abstract_inverted_index.rapidly	5
abstract_inverted_index.speeds,	74
abstract_inverted_index.storage	76
abstract_inverted_index.testing	40
abstract_inverted_index.However,	18
abstract_inverted_index.Research	130
abstract_inverted_index.accuracy	201
abstract_inverted_index.analysis	114, 204
abstract_inverted_index.cellular	46
abstract_inverted_index.clinical	15
abstract_inverted_index.decision	16
abstract_inverted_index.duration	77
abstract_inverted_index.entitled	185
abstract_inverted_index.evidence	141
abstract_inverted_index.fragment	53
abstract_inverted_index.methods,	90
abstract_inverted_index.pressing	105
abstract_inverted_index.research	9, 208
abstract_inverted_index.tailored	111
abstract_inverted_index.Cell-free	191
abstract_inverted_index.Practices	189
abstract_inverted_index.analysis.	100, 124
abstract_inverted_index.cell-free	1
abstract_inverted_index.developed	133
abstract_inverted_index.different	59
abstract_inverted_index.discovery	8
abstract_inverted_index.document,	182
abstract_inverted_index.important	12
abstract_inverted_index.improving	213
abstract_inverted_index.practices	25, 216
abstract_inverted_index.protocols	72, 172
abstract_inverted_index.published	140
abstract_inverted_index.standards	110
abstract_inverted_index.Collection	194
abstract_inverted_index.acceptable	164
abstract_inverted_index.agitation,	70
abstract_inverted_index.applicable	109
abstract_inverted_index.attributed	57
abstract_inverted_index.collection	60
abstract_inverted_index.compromise	29
abstract_inverted_index.downstream	99
abstract_inverted_index.extraction	87
abstract_inverted_index.facilitate	167
abstract_inverted_index.generation	169
abstract_inverted_index.guidelines	135, 157
abstract_inverted_index.individual	174
abstract_inverted_index.integrity,	51
abstract_inverted_index.procedures	160
abstract_inverted_index.processing	65
abstract_inverted_index.recognized	151
abstract_inverted_index.subsequent	98
abstract_inverted_index.ultimately	96
abstract_inverted_index.Biospecimen	129, 193
abstract_inverted_index.Differences	44
abstract_inverted_index.freeze-thaw	83
abstract_inverted_index.harmonizing	215
abstract_inverted_index.preanalytic	24, 118
abstract_inverted_index.advancements	37
abstract_inverted_index.alternatives	165
abstract_inverted_index.institutions	27
abstract_inverted_index.laboratories	175
abstract_inverted_index.temperature,	79
abstract_inverted_index.cfDNA-derived	33
abstract_inverted_index.harmonization	22
abstract_inverted_index.institutions.	177
abstract_inverted_index.temperatures,	68
abstract_inverted_index.transitioning	6
abstract_inverted_index.Evidence-based	187
abstract_inverted_index.Processing,”	196
abstract_inverted_index.centrifugation	71
abstract_inverted_index.cfDNA-specific	134
abstract_inverted_index.contamination,	48
abstract_inverted_index.evidence-based	171
abstract_inverted_index.quantification	89
abstract_inverted_index.“Biospecimen	186
abstract_inverted_index.Biorepositories	127
abstract_inverted_index.anticoagulants,	64
abstract_inverted_index.internationally	150
abstract_inverted_index.reproducibility	31
abstract_inverted_index.institutions.</p></div>	218
abstract_inverted_index.<div>Abstract<p>Circulating	0
cited_by_percentile_year
countries_distinct_count	0
institutions_distinct_count	7
sustainable_development_goals[0].id	https://metadata.un.org/sdg/16
sustainable_development_goals[0].score	0.44999998807907104
sustainable_development_goals[0].display_name	Peace, Justice and strong institutions
citation_normalized_percentile.value	0.21523009
citation_normalized_percentile.is_in_top_1_percent	False
citation_normalized_percentile.is_in_top_10_percent	False