The Human Cell Atlas

Aviv Regev, Sarah A Teichmann, Eric S Lander, Ido Amit, Christophe Benoist, Ewan Birney, Bernd Bodenmiller, Peter Campbell, Piero Carninci, Menna Clatworthy, Hans Clevers, Bart Deplancke, Ian Dunham, James Eberwine, Roland Eils, Wolfgang Enard, Andrew Farmer, Lars Fugger, Berthold Göttgens, Nir Hacohen, Muzlifah Haniffa, Martin Hemberg, Seung Kim, Paul Klenerman, Arnold Kriegstein, Ed Lein, Sten Linnarsson, Emma Lundberg, Joakim Lundeberg, Partha Majumder, John C Marioni, Miriam Merad, Musa Mhlanga, Martijn Nawijn, Mihai Netea, Garry Nolan, Dana Pe'er, Anthony Phillipakis, Chris P Ponting, Stephen Quake, Wolf Reik, Orit Rozenblatt-Rosen, Joshua Sanes, Rahul Satija, Ton N Schumacher, Alex Shalek, Ehud Shapiro, Padmanee Sharma, Jay W Shin, Oliver Stegle, Michael Stratton, Michael J T Stubbington, Fabian J Theis, Matthias Uhlen, Alexander van Oudenaarden, Allon Wagner, Fiona Watt, Jonathan Weissman, Barbara Wold, Ramnik Xavier, Nir Yosef, Human Cell Atlas Meeting Participants · eLife · 2017 · biology · 10.7554/elife.27041 · record regev2017-the-human-cell-atlas
tag layer · index · concepts · authors · עברית

Where this record's text came from. 2026-08-21, 2026-08-26 and 2026-08-28 schema-0.3 passes: every quote verified as an exact substring of the staged text and anchored at merge time; concept terms verified present; every edge endpoint an existing node.

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Other fields define these differently the same word, defined another way in another discipline
scRNA-seq 6 fields · quality control 3 fields · map 3 fields · open data 3 fields · proteins 3 fields · atlas 2 fields · and 1 more →

Tags on this paper

Every tag the record carries, each linking to every other paper in the corpus that carries it. A tag appears here whether or not its words occur in the article — the spans below are only the ones a sentence in this paper licenses. Of the 146 concept tags on this paper, all 146 are grounded in a quoted sentence. All carry the tagger's gloss of what the term means in this paper, which is not something the article can license.

cell type cell state Cell-type taxonomies markers Cell Theory scRNA-seq Human Cell Atlas comprehensive reference catalog stable properties transient features locations abundances map relationships fundamental processes system of coordinates human cell defined set of molecular markers expression level 20,000 human protein-coding genes point in ~20,000-dimensional space non-coding genes alternatively spliced forms chromatin state promoter and enhancer post-translationally modified form reduced representations histological and anatomical information temporal information disease status molecular profiles Single-cell multi-omics transcriptomic genomic epigenomic proteomic causal chains genetic variation regulatory mechanisms phenotypic outcome Multiplex in situ analysis spatial techniques nucleic acids proteins hybridization antibody staining sequencing tagging strategies dissociated cells spatial relationships cell-cell communication MERFISH Seq-FISH microscopy-based quantification Imaging Mass Cytometry tissue clearing expansion Histology tissue architecture expression signatures multi-gene signatures cell's molecular profile information about its neighborhood absolute coordinates relative terms machine vision development partly asynchronous branching pathways of development molecular changes gene-expression patterns trajectories in high-dimensional space Waddington's landscape sharp transitions sampling density sorting strategies rare, transient populations relative proportions of cells duration of each phase progenitor cells rate of cell proliferation death true lineage trees common progenitor cell type synthetic circuits molecular barcode lineage barcodes VDJ recombination somatic hypermutation lineage tracing somatic point mutations repeat expansions at microsatellite loci sound statistical sampling biological enrichment purification adaptive, iterative approach initial sparse sampling decisions about further sampling Sky Dive banking fixed or frozen tissues mixed strategy low coverage of the transcriptome deep profiles large-scale uniform sampling stratified sampling specialized sampling atlas cellular branch spatial branch massively parallel transcriptome analysis chromatin genome folding somatic mutations preserved tissue specimens 10 billion cells all tissues, organs, and systems world's diversity rarity of cell types/states spatial resolution coverage of disease and diversity functional assessment model organism atlases engineering animals validation and functional follow-up studies by proxy technically reproducible biological variation measurement noise rigorous protocols, standards, and benchmarks clinical annotations consistent meta-data dissociating samples into single cells fixation freezing validated standard operating procedures computational pipelines benchmarking samples and data sets open data standard models identifiable data platforms efficient aggregation and storage quality control analytical software user-friendly portals intellectually and technologically flexible criteria for 'completion' the Human Cell Atlas granularity similarity metric probability distribution review

Method, as described: single-cell genomic profiling at scale, with unsupervised clustering as an initial framework for discovering types

Legend

relation to other work	`claim_relations`	how this paper stands to another: agrees, contradicts, extends, qualifies
claim type	`claim_type`	the shape of the claim: existence, mechanism, method, critique, prediction, null
concept edge	`concept_edges`	an asserted relation between two concepts, with the sentence asserting it
concept	`concepts`	an idea the paper works with, quoted where the paper uses it
content tag	`content_tags`	a finding, definition, quantity, statistic or variable named in the paper
contribution	`contribution`	what the paper claims to add
control	`controls`	an experiment run to eliminate a rival explanation
limitation	`limitations`	what the paper says its evidence cannot support
mechanism	`mechanisms`	how the reported effect is said to come about
method	`method`	how the paper produced its evidence
object of study	`object_of_study`	what the paper is about — the thing it investigates
phenomenon	`phenomenon`	the effect or regularity under study
research question	`research_question`	the question the paper sets itself
sense	`senses`	a distinct use of a term, quoted where the paper fixes it
unrecordable relation	`unhoused_relations`	a relation the paper asserts that this vocabulary cannot express, with the reason

The paper

The full text is not reproduced here. This article is not cleared for redistribution, so the page carries the tag layer only. Its evidence sentences are withheld; the grounding status remains with each tag, and the article itself is at https://doi.org/10.7554/elife.27041. The reading view exists for the papers whose licence permits it.

Every tag on this page

claim_relations 2 · claim_type 1 · concept_edges 6 · concepts 146 · content_tags 15 · contribution 1 · controls 2 · limitations 6 · mechanisms 2 · method 1 · object_of_study 1 · phenomenon 1 · research_question 1 · senses 16 · unhoused_relations 13

Relations on this page carry a quotation for the claim. Where a relation was separately evidenced — and so tested against the vocabulary for its type — the row says so; 6 of 6 relations here carry that mark. The rest are the tagger’s reading of the sentence quoted beside them.

facet	tag	field	conf.	whose words
object_of_study	the human cell types themselves - a reference atlas defining them by molecular profile and connecting that to classical description Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`object_of_study`		the paper's words
research_question	whether all human cell types can be identified and defined by molecular profile, 150 years after the effort began Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`research_question`		the paper's words
contribution	a design for a comprehensive cell atlas WHICH DECLINES TO DEFINE ITS OWN CENTRAL TERM: the definition of 'cell type' is deferred to empirical observation on purpose, and the reasons are stated Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`contribution`		the paper's words
claim_type	method Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`claim_type`		the paper's words
phenomenon	cells as points in a high-dimensional molecular space, where similar cells are close but never identical Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`phenomenon`		the paper's words
method	review Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: review	`method`		the paper's words
mechanisms	a cell TYPE is proposed as a REGION or a PROBABILITY DISTRIBUTION in the full-dimensional molecular space or a projection of it - the category becomes a geometry rather than a list of properties Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`mechanisms[0]`	0.95	the tagger's words
mechanisms	types discovered as regions in feature space are then to be DISTILLED into simple molecular and morphological signatures, so that independent laboratories can index and compare cells at all Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`mechanisms[1]`	0.95	the tagger's words
limitations	THE PROJECT DECLINES TO DEFINE ITS CENTRAL TERM AND SAYS SO: `we have not attempted to propose a precise definition of 'cell type'. Rather, the definition should evolve based on empirical observation` - in a paper whose stated aim is to define all human cell types Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`limitations[0]`	0.95	the tagger's words
limitations	the field lacks a rigorous definition of BOTH `cell type` and `cell state`, and the boundary between them is blurred because cells change over time in ways not fully understood Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`limitations[1]`	0.95	the tagger's words
limitations	THE TAXONOMY MAY NOT BE A TAXONOMY: finer distinctions may not obey a strict hierarchy, some distinctions are graded rather than discrete, and IT REMAINS UNCLEAR WHETHER THE MORPHOLOGICAL, MOLECULAR AND PHYSIOLOGICAL AXES AGREE WITH EACH OTHER Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`limitations[2]`	0.95	the tagger's words
limitations	the existing molecular classification is AD HOC - built on markers discovered by accident or chosen for convenience rather than systematically Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`limitations[3]`	0.95	the tagger's words
limitations	clustering supplies only a starting framework: the `right` features, the `right` similarity metric and the `right` level of granularity are all open, and the paper puts each of the three in scare quotes Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`limitations[4]`	0.95	the tagger's words
limitations	the full lineage tree from zygote to adult is known for exactly one organism - C. elegans, transparent, with about 1,000 cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`limitations[5]`	0.95	the tagger's words
controls	the definition of 'cell type' is deferred to empirical observation rather than fixed in advance, and the deferral is stated as a decision with its reasons Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. eliminates: a catalogue whose categories were settled before the data that was supposed to produce them - and the paper's own reasons are that the hierarchy may not hold, the distinctions may be graded, and the axes may not agree · outcome: held	`controls[0]`	0.95	the tagger's words
controls	types found as regions in feature space must be distilled into signatures that independent laboratories can apply Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. eliminates: a taxonomy that exists only inside the clustering run that produced it and cannot be used to index, aggregate or compare across labs and individuals · outcome: held	`controls[1]`	0.95	the tagger's words
concepts	cell type Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: cell type	`concepts[0]`	0.95	the paper's words
concepts	cell state Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: cell state	`concepts[1]`	0.95	the paper's words
concepts	Cell-type taxonomies Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Cell-type taxonomies	`concepts[2]`	0.95	the paper's words
concepts	markers Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: markers	`concepts[3]`	0.95	the paper's words
concepts	Cell Theory Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Cell Theory	`concepts[4]`	0.95	the paper's words
concepts	scRNA-seq Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: scRNA-seq	`concepts[5]`	0.95	the paper's words
concepts	Human Cell Atlas Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Human Cell Atlas	`concepts[6]`	0.95	the paper's words
concepts	comprehensive reference catalog Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: comprehensive reference catalog	`concepts[7]`	0.95	the paper's words
concepts	stable properties Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: stable properties	`concepts[8]`	0.95	the paper's words
concepts	transient features Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: transient features	`concepts[9]`	0.95	the paper's words
concepts	locations Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: locations	`concepts[10]`	0.95	the paper's words
concepts	abundances Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: abundances	`concepts[11]`	0.95	the paper's words
concepts	map Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: map	`concepts[12]`	0.95	the paper's words
concepts	relationships Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: relationships	`concepts[13]`	0.95	the paper's words
concepts	fundamental processes Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: fundamental processes	`concepts[14]`	0.95	the paper's words
concepts	system of coordinates Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: system of coordinates	`concepts[15]`	0.95	the paper's words
concepts	human cell Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: human cell	`concepts[16]`	0.95	the paper's words
concepts	defined set of molecular markers Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: defined set of molecular markers	`concepts[17]`	0.95	the paper's words
concepts	expression level Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: expression level	`concepts[18]`	0.95	the paper's words
concepts	20,000 human protein-coding genes Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: 20,000 human protein-coding genes	`concepts[19]`	0.95	the paper's words
concepts	point in ~20,000-dimensional space Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: point in ~20,000-dimensional space	`concepts[20]`	0.95	the paper's words
concepts	non-coding genes Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: non-coding genes	`concepts[21]`	0.95	the paper's words
concepts	alternatively spliced forms Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: alternatively spliced forms	`concepts[22]`	0.95	the paper's words
concepts	chromatin state Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: chromatin state	`concepts[23]`	0.95	the paper's words
concepts	promoter and enhancer Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: promoter and enhancer	`concepts[24]`	0.95	the paper's words
concepts	post-translationally modified form Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: post-translationally modified form	`concepts[25]`	0.95	the paper's words
concepts	reduced representations Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: reduced representations	`concepts[26]`	0.95	the paper's words
concepts	histological and anatomical information Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: histological and anatomical information	`concepts[27]`	0.95	the paper's words
concepts	temporal information Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: temporal information	`concepts[28]`	0.95	the paper's words
concepts	disease status Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: disease status	`concepts[29]`	0.95	the paper's words
concepts	molecular profiles Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: molecular profiles	`concepts[30]`	0.95	the paper's words
concepts	Single-cell multi-omics Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Single-cell multi-omics	`concepts[31]`	0.95	the paper's words
concepts	transcriptomic Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: transcriptomic	`concepts[32]`	0.95	the paper's words
concepts	genomic Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: genomic	`concepts[33]`	0.95	the paper's words
concepts	epigenomic Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: epigenomic	`concepts[34]`	0.95	the paper's words
concepts	proteomic Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: proteomic	`concepts[35]`	0.95	the paper's words
concepts	causal chains Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: causal chains	`concepts[36]`	0.95	the paper's words
concepts	genetic variation Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: genetic variation	`concepts[37]`	0.95	the paper's words
concepts	regulatory mechanisms Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: regulatory mechanisms	`concepts[38]`	0.95	the paper's words
concepts	phenotypic outcome Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: phenotypic outcome	`concepts[39]`	0.95	the paper's words
concepts	Multiplex in situ analysis Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Multiplex in situ analysis	`concepts[40]`	0.95	the paper's words
concepts	spatial techniques Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: spatial techniques	`concepts[41]`	0.95	the paper's words
concepts	nucleic acids Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: nucleic acids	`concepts[42]`	0.95	the paper's words
concepts	proteins Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: proteins	`concepts[43]`	0.95	the paper's words
concepts	hybridization Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: hybridization	`concepts[44]`	0.95	the paper's words
concepts	antibody staining Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: antibody staining	`concepts[45]`	0.95	the paper's words
concepts	sequencing Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: sequencing	`concepts[46]`	0.95	the paper's words
concepts	tagging strategies Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: tagging strategies	`concepts[47]`	0.95	the paper's words
concepts	dissociated cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: dissociated cells	`concepts[48]`	0.95	the paper's words
concepts	spatial relationships Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: spatial relationships	`concepts[49]`	0.95	the paper's words
concepts	cell-cell communication Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: cell-cell communication	`concepts[50]`	0.95	the paper's words
concepts	MERFISH Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: MERFISH	`concepts[51]`	0.95	the paper's words
concepts	Seq-FISH Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Seq-FISH	`concepts[52]`	0.95	the paper's words
concepts	microscopy-based quantification Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: microscopy-based quantification	`concepts[53]`	0.95	the paper's words
concepts	Imaging Mass Cytometry Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Imaging Mass Cytometry	`concepts[54]`	0.95	the paper's words
concepts	tissue clearing Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: tissue clearing	`concepts[55]`	0.95	the paper's words
concepts	expansion Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: expansion	`concepts[56]`	0.95	the paper's words
concepts	Histology Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Histology	`concepts[57]`	0.95	the paper's words
concepts	tissue architecture Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: tissue architecture	`concepts[58]`	0.95	the paper's words
concepts	expression signatures Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: expression signatures	`concepts[59]`	0.95	the paper's words
concepts	multi-gene signatures Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: multi-gene signatures	`concepts[60]`	0.95	the paper's words
concepts	cell's molecular profile Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: cell's molecular profile	`concepts[61]`	0.95	the paper's words
concepts	information about its neighborhood Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: information about its neighborhood	`concepts[62]`	0.95	the paper's words
concepts	absolute coordinates Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: absolute coordinates	`concepts[63]`	0.95	the paper's words
concepts	relative terms Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: relative terms	`concepts[64]`	0.95	the paper's words
concepts	machine vision Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: machine vision	`concepts[65]`	0.95	the paper's words
concepts	development Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: development	`concepts[66]`	0.95	the paper's words
concepts	partly asynchronous branching pathways of development Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: partly asynchronous branching pathways of development	`concepts[67]`	0.95	the paper's words
concepts	molecular changes Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: molecular changes	`concepts[68]`	0.95	the paper's words
concepts	gene-expression patterns Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: gene-expression patterns	`concepts[69]`	0.95	the paper's words
concepts	trajectories in high-dimensional space Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: trajectories in high-dimensional space	`concepts[70]`	0.95	the paper's words
concepts	Waddington's landscape Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Waddington's landscape	`concepts[71]`	0.95	the paper's words
concepts	sharp transitions Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: sharp transitions	`concepts[72]`	0.95	the paper's words
concepts	sampling density Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: sampling density	`concepts[73]`	0.95	the paper's words
concepts	sorting strategies Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: sorting strategies	`concepts[74]`	0.95	the paper's words
concepts	rare, transient populations Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: rare, transient populations	`concepts[75]`	0.95	the paper's words
concepts	relative proportions of cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: relative proportions of cells	`concepts[76]`	0.95	the paper's words
concepts	duration of each phase Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: duration of each phase	`concepts[77]`	0.95	the paper's words
concepts	progenitor cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: progenitor cells	`concepts[78]`	0.95	the paper's words
concepts	rate of cell proliferation Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: rate of cell proliferation	`concepts[79]`	0.95	the paper's words
concepts	death Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: death	`concepts[80]`	0.95	the paper's words
concepts	true lineage trees Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: true lineage trees	`concepts[81]`	0.95	the paper's words
concepts	common progenitor cell type Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: common progenitor cell type	`concepts[82]`	0.95	the paper's words
concepts	synthetic circuits Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: synthetic circuits	`concepts[83]`	0.95	the paper's words
concepts	molecular barcode Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: molecular barcode	`concepts[84]`	0.95	the paper's words
concepts	lineage barcodes Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: lineage barcodes	`concepts[85]`	0.95	the paper's words
concepts	VDJ recombination Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: VDJ recombination	`concepts[86]`	0.95	the paper's words
concepts	somatic hypermutation Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: somatic hypermutation	`concepts[87]`	0.95	the paper's words
concepts	lineage tracing Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: lineage tracing	`concepts[88]`	0.95	the paper's words
concepts	somatic point mutations Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: somatic point mutations	`concepts[89]`	0.95	the paper's words
concepts	repeat expansions at microsatellite loci Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: repeat expansions at microsatellite loci	`concepts[90]`	0.95	the paper's words
concepts	sound statistical sampling Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: sound statistical sampling	`concepts[91]`	0.95	the paper's words
concepts	biological enrichment purification Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: biological enrichment purification	`concepts[92]`	0.95	the paper's words
concepts	adaptive, iterative approach Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: adaptive, iterative approach	`concepts[93]`	0.95	the paper's words
concepts	initial sparse sampling Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: initial sparse sampling	`concepts[94]`	0.95	the paper's words
concepts	decisions about further sampling Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: decisions about further sampling	`concepts[95]`	0.95	the paper's words
concepts	Sky Dive Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Sky Dive	`concepts[96]`	0.95	the paper's words
concepts	banking Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: banking	`concepts[97]`	0.95	the paper's words
concepts	fixed or frozen tissues Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: fixed or frozen tissues	`concepts[98]`	0.95	the paper's words
concepts	mixed strategy Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: mixed strategy	`concepts[99]`	0.95	the paper's words
concepts	low coverage of the transcriptome Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: low coverage of the transcriptome	`concepts[100]`	0.95	the paper's words
concepts	deep profiles Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: deep profiles	`concepts[101]`	0.95	the paper's words
concepts	large-scale uniform sampling Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: large-scale uniform sampling	`concepts[102]`	0.95	the paper's words
concepts	stratified sampling Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: stratified sampling	`concepts[103]`	0.95	the paper's words
concepts	specialized sampling Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: specialized sampling	`concepts[104]`	0.95	the paper's words
concepts	atlas Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: atlas	`concepts[105]`	0.95	the paper's words
concepts	cellular branch Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: cellular branch	`concepts[106]`	0.95	the paper's words
concepts	spatial branch Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: spatial branch	`concepts[107]`	0.95	the paper's words
concepts	massively parallel transcriptome analysis Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: massively parallel transcriptome analysis	`concepts[108]`	0.95	the paper's words
concepts	chromatin Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: chromatin	`concepts[109]`	0.95	the paper's words
concepts	genome folding Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: genome folding	`concepts[110]`	0.95	the paper's words
concepts	somatic mutations Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: somatic mutations	`concepts[111]`	0.95	the paper's words
concepts	preserved tissue specimens Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: preserved tissue specimens	`concepts[112]`	0.95	the paper's words
concepts	10 billion cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: 10 billion cells	`concepts[113]`	0.95	the paper's words
concepts	all tissues, organs, and systems Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: all tissues, organs, and systems	`concepts[114]`	0.95	the paper's words
concepts	world's diversity Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: world's diversity	`concepts[115]`	0.95	the paper's words
concepts	rarity of cell types/states Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: rarity of cell types/states	`concepts[116]`	0.95	the paper's words
concepts	spatial resolution Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: spatial resolution	`concepts[117]`	0.95	the paper's words
concepts	coverage of disease and diversity Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: coverage of disease and diversity	`concepts[118]`	0.95	the paper's words
concepts	functional assessment Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: functional assessment	`concepts[119]`	0.95	the paper's words
concepts	model organism atlases Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: model organism atlases	`concepts[120]`	0.95	the paper's words
concepts	engineering animals Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: engineering animals	`concepts[121]`	0.95	the paper's words
concepts	validation and functional follow-up studies Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: validation and functional follow-up studies	`concepts[122]`	0.95	the paper's words
concepts	by proxy Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: by proxy	`concepts[123]`	0.95	the paper's words
concepts	technically reproducible Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: technically reproducible	`concepts[124]`	0.95	the paper's words
concepts	biological variation Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: biological variation	`concepts[125]`	0.95	the paper's words
concepts	measurement noise Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: measurement noise	`concepts[126]`	0.95	the paper's words
concepts	rigorous protocols, standards, and benchmarks Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: rigorous protocols, standards, and benchmarks	`concepts[127]`	0.95	the paper's words
concepts	clinical annotations Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: clinical annotations	`concepts[128]`	0.95	the paper's words
concepts	consistent meta-data Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: consistent meta-data	`concepts[129]`	0.95	the paper's words
concepts	dissociating samples into single cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: dissociating samples into single cells	`concepts[130]`	0.95	the paper's words
concepts	fixation Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: fixation	`concepts[131]`	0.95	the paper's words
concepts	freezing Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: freezing	`concepts[132]`	0.95	the paper's words
concepts	validated standard operating procedures Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: validated standard operating procedures	`concepts[133]`	0.95	the paper's words
concepts	computational pipelines Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: computational pipelines	`concepts[134]`	0.95	the paper's words
concepts	benchmarking samples and data sets Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: benchmarking samples and data sets	`concepts[135]`	0.95	the paper's words
concepts	open data Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: open data	`concepts[136]`	0.95	the paper's words
concepts	standard models Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: standard models	`concepts[137]`	0.95	the paper's words
concepts	identifiable Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: identifiable	`concepts[138]`	0.95	the paper's words
concepts	data platforms Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: data platforms	`concepts[139]`	0.95	the paper's words
concepts	efficient aggregation and storage Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: efficient aggregation and storage	`concepts[140]`	0.95	the paper's words
concepts	quality control Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: quality control	`concepts[141]`	0.95	the paper's words
concepts	analytical software Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: analytical software	`concepts[142]`	0.95	the paper's words
concepts	user-friendly portals Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: user-friendly portals	`concepts[143]`	0.95	the paper's words
concepts	intellectually and technologically flexible Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: intellectually and technologically flexible	`concepts[144]`	0.95	the paper's words
concepts	criteria for 'completion' Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: criteria for 'completion'	`concepts[145]`	0.95	the paper's words
unhoused_relations	Human Cell Atlas → relationships Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. The atlas shows relationships among catalogued elements. Shows is absent from the eight governed types.	`unhoused_relations[0]`	0.95	the tagger's words
unhoused_relations	duration of each phase → relative proportions of cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Relative cell proportions convey information about the duration of each phase. Conveys-information-about is absent from the eight governed types.	`unhoused_relations[1]`	0.95	the tagger's words
unhoused_relations	development → trajectories in high-dimensional space Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. The paper proposes reconstructing development as trajectories in molecular space. Reconstructs-as is absent from the eight governed types.	`unhoused_relations[2]`	0.95	the tagger's words
unhoused_relations	Single-cell multi-omics → causal chains Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Multi-omic measurements could help fill in causal chains. Enables is absent from the eight governed types.	`unhoused_relations[3]`	0.95	the tagger's words
unhoused_relations	dissociated cells → tissue samples Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. In-situ results map genomic information from dissociated cells back onto tissue samples. Maps-onto is absent from the eight governed types.	`unhoused_relations[4]`	0.95	the tagger's words
unhoused_relations	expression data → absolute coordinates Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Cell expression data can help map cell position in absolute coordinates. Maps-position is absent from the eight governed types.	`unhoused_relations[5]`	0.95	the tagger's words
unhoused_relations	low coverage of the transcriptome → cell types Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Low-coverage transcriptomes can identify many cell types reliably. Identifies is absent from the eight governed types.	`unhoused_relations[6]`	0.95	the tagger's words
unhoused_relations	adaptive, iterative approach → Sky Dive Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. The adaptive approach is explicitly termed a Sky Dive. Naming is absent from the eight governed types.	`unhoused_relations[7]`	0.95	the tagger's words
unhoused_relations	deep profiles → low-coverage data Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. A smaller set of deep profiles helps interpret the broad low-coverage data. Helps-interpret is absent from the eight governed types.	`unhoused_relations[8]`	0.95	the tagger's words
unhoused_relations	preserved tissue specimens → analyzed later Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Preserved specimens allow collection now and analysis after methods mature. Enables-deferred-analysis is absent from the eight governed types.	`unhoused_relations[9]`	0.95	the tagger's words
unhoused_relations	validation and functional follow-up studies → conclusions drawn in the human atlas Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Model-organism studies help validate human-atlas conclusions by proxy. Validates-by-proxy is absent from the eight governed types.	`unhoused_relations[10]`	0.95	the tagger's words
unhoused_relations	data platforms → efficient aggregation and storage Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Atlas data platforms must provide aggregation and storage. Provides is absent from the eight governed types.	`unhoused_relations[11]`	0.95	the tagger's words
unhoused_relations	standard models → identifiable Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. Mapping sequence data onto standard gene models is proposed to mitigate identifiability. Mitigates is absent from the eight governed types.	`unhoused_relations[12]`	0.95	the tagger's words
senses	cell type - DELIBERATELY UNDEFINED HERE. Proposed as a region or probability distribution in molecular space, described as intuitively compelling and hard to state precisely, and left to evolve from the data Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[0]`	0.95	the tagger's words
senses	cell type against cell state - type implies PERSISTENCE (a hepatic stellate cell), state implies TRANSIENCE (the G1 phase), and the paper says the boundary between the two concepts can be blurred Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[1]`	0.95	the tagger's words
senses	Cell-type taxonomies - a hierarchy over morphological, physiological and molecular differences, which the paper says may not be strict and whose three axes may not agree with one another Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[2]`	0.95	the tagger's words
senses	`scRNA-seq` - A NAME FOR A CLASS, NOT A PROTOCOL, AND THE PAPER SAYS SO IN ITS DEFINING SENTENCE. `Quotation withheld` Two papers both reporting `scRNA-seq` may share no step of their procedure - the review goes straight on to distinguish methods taking a census of mRNA at the 3' or 5' end from those assessing full transcripts. The term is a citation-level abstraction that is never a method-level one. Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[3]`	0.95	the tagger's words
senses	`Cell Theory` - A THEORY DEFINED AS THREE CONJOINED CLAIMS, TWO STRUCTURAL AND ONE HISTORICAL. `Quotation withheld.` The first two say what a thing IS MADE OF and what the parts DO; the third is a claim about ORIGIN and is the only one that could have been false without the others failing with it. A citation to `Cell Theory` selects one of the three and the name records which no better than a coin. Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[4]`	0.9	the tagger's words
senses	Human Cell Atlas - a relational map and reference catalog of cell properties, features, locations, and abundances Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[5]`	0.95	the tagger's words
senses	Atlas coordinate system - molecular dimensions plus anatomical, temporal, and disease annotations that can be collapsed into application-specific views Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[6]`	0.95	the tagger's words
senses	Single-cell multi-omics - two or more molecular data types measured in the same cell to connect variation, regulation, and phenotype Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[7]`	0.95	the tagger's words
senses	Multiplex in-situ analysis - selected RNA or protein targets measured inside tissue so dissociated-cell profiles can be mapped back into spatial context Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[8]`	0.95	the tagger's words
senses	Developmental trajectory - branching paths in high-dimensional molecular space reconstructed from cross-sectional single-cell observations Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[9]`	0.95	the tagger's words
senses	Lineage tracing - ancestry inferred from engineered or naturally accumulated molecular barcodes Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[10]`	0.95	the tagger's words
senses	Sky Dive - adaptive sampling that moves from uniform to stratified to specialized sampling while increasing resolution Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[11]`	0.95	the tagger's words
senses	Two-branch atlas - individual-cell molecular profiling paired with in-situ spatial mapping of tissue organization Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[12]`	0.95	the tagger's words
senses	Full-atlas scope - at least ten billion cells across tissues, organs, systems, health states, and population diversity, with explicit resolution and functional limits Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[13]`	0.95	the tagger's words
senses	Atlas quality - reproducibility through shared protocols, metadata, tissue handling, pipelines, and benchmarking materials Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[14]`	0.95	the tagger's words
senses	Open-data infrastructure - aggregation, storage, quality control, analysis software, and portals under participant and legal constraints Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`senses[15]`	0.95	the tagger's words
claim_relations	critiques → the existing molecular classification of cells, on the ground that it is ad hoc - built on markers discovered by accident or chosen for convenience Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`claim_relations[0]`	0.95	the tagger's words
claim_relations	extends → Cell Theory as settled between 1838 and 1855, which named the cell as the unit and left the catalogue of kinds open for 150 years Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`claim_relations[1]`	0.95	the tagger's words
concept_edges	cell state —distinct-from→ cell type Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. differs in: persistence against transience - and the paper says the boundary is blurred · the relation itself is separately evidenced · strength of the relation: 0.95 · differs in (stated by the tagger, no quotation): persistence against transience - and the paper says the boundary is blurred · the relation stated: type implies PERSISTENCE and state implies TRANSIENCE - and the paper says in the same passage that the boundary between the two CAN BE BLURRED, so the distinction is asserted and qualified together Audit 2026-09-28: DOUBTFUL - read against its full span and kept, but the span says the boundaries between cell type and cell state CAN BE BLURRED; distinct-from is hedged. also in: cell state · cell type	`concept_edges[0]`	0.95	the tagger's words
concept_edges	comprehensive reference catalog —part-of→ Human Cell Atlas Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. the relation itself is separately evidenced · strength of the relation: 1 · note: The atlas must include the comprehensive reference catalog. also in: comprehensive reference catalog · Human Cell Atlas	`concept_edges[1]`	0.95	the tagger's words
concept_edges	human cell —operationalised-as→ point in ~20,000-dimensional space Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. the relation itself is separately evidenced · strength of the relation: 0.7 · note: The paper proposes representing each cell as a point whose dimensions are gene-expression levels. Audit 2026-09-28: DOUBTFUL - read against its full span and kept, but the span says ONE MIGHT describe each cell as such a point; a proposal, hedged. also in: human cell · point in ~20,000-dimensional space	`concept_edges[2]`	0.95	the tagger's words
concept_edges	initial sparse sampling —causes→ decisions about further sampling Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. direction on the measure: increases · the relation itself is separately evidenced · strength of the relation: 1 · note: The paper says initial sparse sampling drives later sampling decisions. Audit 2026-09-28: DOUBTFUL - read against its full span and kept, but the span says an adaptive approach is LIKELY beneficial, with sparse sampling driving later sampling; hedged. also in: initial sparse sampling · decisions about further sampling	`concept_edges[3]`	0.95	the tagger's words
concept_edges	cellular branch —part-of→ atlas Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. the relation itself is separately evidenced · strength of the relation: 1 · note: The atlas must combine a cellular and a spatial branch. also in: cellular branch · atlas	`concept_edges[4]`	0.95	the tagger's words
concept_edges	spatial branch —part-of→ atlas Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. the relation itself is separately evidenced · strength of the relation: 1 · note: The atlas must combine a cellular and a spatial branch. also in: spatial branch · atlas	`concept_edges[5]`	0.95	the tagger's words
content_tags	the project does not propose a precise definition of 'cell type' and lets the definition evolve with empirical observation Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.findings[0]`	0.95	the tagger's words
content_tags	the cell-type hierarchy may not be strict, some distinctions are GRADED AND NOT DISCRETE, and it is unclear whether the morphological, molecular and physiological axes agree with each other Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.findings[1]`	0.95	the tagger's words
content_tags	molecular classification of cells has been AD HOC - markers discovered by accident or chosen for convenience rather than systematically Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.findings[2]`	0.95	the tagger's words
content_tags	the `right` features, the `right` similarity metric and the `right` granularity are all open problems, and the paper scare-quotes each of the three Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.findings[3]`	0.95	the tagger's words
content_tags	the full lineage tree from zygote to adult is known for one organism only - C. elegans, with about 1,000 cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.findings[4]`	0.95	the tagger's words
content_tags	a region or a probability distribution in the full-dimensional molecular space or a projection of it - offered as intuitively compelling and explicitly NOT as a precise definition Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: cell type	`content_tags.definitions[0]`	0.95	the tagger's words
content_tags	all organisms are composed of one or more cells; cells are the basic unit of structure and function in life; all cells are derived from pre-existing cells Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: Cell Theory	`content_tags.definitions[1]`	0.95	the tagger's words
content_tags	an international effort to define all human cell types by distinctive molecular profile and connect that to classical descriptions such as location and morphology Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: the Human Cell Atlas	`content_tags.definitions[2]`	0.95	the tagger's words
content_tags	years - the age of the effort to identify all human cell types, which this project proposes to complete Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.quantities[0]`	0.95	the tagger's words
content_tags	cells in C. elegans - the only organism whose full lineage tree from zygote to adult is known Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.quantities[1]`	0.95	the tagger's words
content_tags	the years in which Schleiden, Schwann, Remak and Virchow crystallised Cell Theory Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above.	`content_tags.quantities[2]`	0.95	the tagger's words
content_tags	probability distribution Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: probability distribution	`content_tags.statistics[0]`	0.95	the tagger's words
content_tags	granularity Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: granularity	`content_tags.variables[0]`	0.95	the tagger's words
content_tags	similarity metric Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: similarity metric	`content_tags.variables[1]`	0.95	the tagger's words
content_tags	molecular profiles Quotation withheld — this record is not cleared for redistribution. The sentence is in the paper at the link above. also in: molecular profiles	`content_tags.variables[2]`	0.95	the tagger's words

Interpretive choices

Tags that could not be placed in the text:

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What was deliberately not tagged, and why, is recorded per paper by the tagger. Where a paper has no such record, this page says so rather than implying that nothing was declined.