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  1. Article ; Online: The ABC-D of animal linguistics: are syntax and compositionality for real?

    Schlenker, Philippe / Coye, Camille / Leroux, Maël / Chemla, Emmanuel

    Biological reviews of the Cambridge Philosophical Society

    2023  Volume 98, Issue 4, Page(s) 1142–1159

    Abstract: ... immediately followed by a recruitment call (e.g. D notes) to yield a complex call that triggers a third ... for animal syntax and compositionality and argue that, with one important exception (Japanese tit ABC-D ... hypothesis posits that there are separate expressions (e.g. ABC and D), but that they form separate ...

    Abstract In several animal species, an alarm call (e.g. ABC notes in the Japanese tit Parus minor) can be immediately followed by a recruitment call (e.g. D notes) to yield a complex call that triggers a third behaviour, namely mobbing. This has been taken to be an argument for animal syntax and compositionality (i.e. the property by which the meaning of a complex expression depends on the meaning of its parts and the way they are put together). Several additional discoveries were made across species. First, in some cases, animals respond with mobbing to the order alarm-recruitment but not to the order recruitment-alarm. Second, animals sometimes respond similarly to functionally analogous heterospecific calls they have never heard before, and/or to artificial hybrid sequences made of conspecific and heterospecific calls in the same order, thus adding an argument for the productivity of the relevant rules. We consider the details of these arguments for animal syntax and compositionality and argue that, with one important exception (Japanese tit ABC-D sequences), they currently remain ambiguous: there are reasonable alternatives on which each call is a separate utterance and is interpreted as such ('trivial compositionality'). More generally, we propose that future studies should argue for animal syntax and compositionality by explicitly pitting the target theory against two deflationary analyses: the 'only one expression' hypothesis posits that there is no combination in the first place, for example just a simplex ABCD call; while the 'separate utterances' hypothesis posits that there are separate expressions (e.g. ABC and D), but that they form separate utterances and are neither syntactically nor semantically combined.
    MeSH term(s) Animals ; Vocalization, Animal ; Linguistics ; Language ; Passeriformes
    Language English
    Publishing date 2023-03-24
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1423558-4
    ISSN 1469-185X ; 0006-3231 ; 1464-7931
    ISSN (online) 1469-185X
    ISSN 0006-3231 ; 1464-7931
    DOI 10.1111/brv.12944
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  2. Article ; Online: Minimal Compositionality versus Bird Implicatures: two theories of ABC-D sequences in Japanese tits.

    Schlenker, Philippe / Salis, Ambre / Leroux, Maël / Coye, Camille / Rizzi, Luigi / Steinert-Threlkeld, Shane / Chemla, Emmanuel

    Biological reviews of the Cambridge Philosophical Society

    2024  

    Abstract: ... that has an alert function, a D call that has a recruitment function, and an ABC-D call that is ... compositionally derived from ABC and D, and has a mobbing function. A key conclusion was that ABC-D differs ... from the combination of separate utterances of ABC and of D (e.g. as played by distinct but close loudspeakers ...

    Abstract It was argued in a series of experimental studies that Japanese tits (Parus minor) have an ABC call that has an alert function, a D call that has a recruitment function, and an ABC-D call that is compositionally derived from ABC and D, and has a mobbing function. A key conclusion was that ABC-D differs from the combination of separate utterances of ABC and of D (e.g. as played by distinct but close loudspeakers). While the logic of the argument is arguably sound, no explicit rule has been proposed to derive the meaning of ABC-D from that of its parts. We compare two analyses. One posits a limited instance of semantic compositionality ('Minimal Compositionality'); the other does without compositionality, but uses instead a more sophisticated pragmatics ('Bird Implicatures'). Minimal Compositionality takes the composition of ABC and D to deviate only minimally from what would be found with two independent utterances: ABC means that 'there is something that licenses an alert', D means that 'there is something that licenses recruitment', and ABC-D means that 'there is something that licenses both an alert and recruitment'. By contrast, ABC and D as independent utterances yield something weaker, namely: 'there is something that licenses an alert, and there is something that licenses recruitment', without any 'binding' across the two utterances. The second theory, Bird Implicatures, only requires that ABC-D should be more informative than ABC, and/or than D. It builds on the idea, proposed for several monkey species, that a less-informative call competes with a more informative one (the 'Informativity Principle'): when produced alone, ABC and D trigger an inference that ABC-D is false. We explain how both Minimal Compositionality and Bird Implicatures could have evolved, and we compare the predictions of the two theories. Finally, we extend the discussion to some chimpanzee and meerkat sequences that might raise related theoretical problems.
    Language English
    Publishing date 2024-03-28
    Publishing country England
    Document type Journal Article
    ZDB-ID 1423558-4
    ISSN 1469-185X ; 0006-3231 ; 1464-7931
    ISSN (online) 1469-185X
    ISSN 0006-3231 ; 1464-7931
    DOI 10.1111/brv.13068
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  3. Article ; Online: Rapid automated 3-D pose estimation of larval zebrafish using a physical model-trained neural network.

    Ravan, Aniket / Feng, Ruopei / Gruebele, Martin / Chemla, Yann R

    PLoS computational biology

    2023  Volume 19, Issue 10, Page(s) e1011566

    Abstract: ... to record and track the pose of individual larval zebrafish in a 3-D environment, applicable when accurate ... human labeling is not possible; (ii) a rich annotated dataset of 3-D larval poses for ethologists and ... optical stimuli. We then employ a convolutional neural network to estimate 3-D larval poses from video ...

    Abstract Quantitative ethology requires an accurate estimation of an organism's postural dynamics in three dimensions plus time. Technological progress over the last decade has made animal pose estimation in challenging scenarios possible with unprecedented detail. Here, we present (i) a fast automated method to record and track the pose of individual larval zebrafish in a 3-D environment, applicable when accurate human labeling is not possible; (ii) a rich annotated dataset of 3-D larval poses for ethologists and the general zebrafish and machine learning community; and (iii) a technique to generate realistic, annotated larval images in different behavioral contexts. Using a three-camera system calibrated with refraction correction, we record diverse larval swims under free swimming conditions and in response to acoustic and optical stimuli. We then employ a convolutional neural network to estimate 3-D larval poses from video images. The network is trained against a set of synthetic larval images rendered using a 3-D physical model of larvae. This 3-D model samples from a distribution of realistic larval poses that we estimate a priori using a template-based pose estimation of a small number of swim bouts. Our network model, trained without any human annotation, performs larval pose estimation three orders of magnitude faster and with accuracy comparable to the template-based approach, capturing detailed kinematics of 3-D larval swims. It also applies accurately to other datasets collected under different imaging conditions and containing behavioral contexts not included in our training.
    MeSH term(s) Animals ; Humans ; Zebrafish/physiology ; Larva ; Neural Networks, Computer ; Swimming/physiology ; Imaging, Three-Dimensional/methods
    Language English
    Publishing date 2023-10-23
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2193340-6
    ISSN 1553-7358 ; 1553-734X
    ISSN (online) 1553-7358
    ISSN 1553-734X
    DOI 10.1371/journal.pcbi.1011566
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  4. Article ; Online: Rapid automated 3-D pose estimation of larval zebrafish using a physical model-trained neural network.

    Aniket Ravan / Ruopei Feng / Martin Gruebele / Yann R Chemla

    PLoS Computational Biology, Vol 19, Iss 10, p e

    2023  Volume 1011566

    Abstract: ... to record and track the pose of individual larval zebrafish in a 3-D environment, applicable when accurate ... human labeling is not possible; (ii) a rich annotated dataset of 3-D larval poses for ethologists and ... optical stimuli. We then employ a convolutional neural network to estimate 3-D larval poses from video ...

    Abstract Quantitative ethology requires an accurate estimation of an organism's postural dynamics in three dimensions plus time. Technological progress over the last decade has made animal pose estimation in challenging scenarios possible with unprecedented detail. Here, we present (i) a fast automated method to record and track the pose of individual larval zebrafish in a 3-D environment, applicable when accurate human labeling is not possible; (ii) a rich annotated dataset of 3-D larval poses for ethologists and the general zebrafish and machine learning community; and (iii) a technique to generate realistic, annotated larval images in different behavioral contexts. Using a three-camera system calibrated with refraction correction, we record diverse larval swims under free swimming conditions and in response to acoustic and optical stimuli. We then employ a convolutional neural network to estimate 3-D larval poses from video images. The network is trained against a set of synthetic larval images rendered using a 3-D physical model of larvae. This 3-D model samples from a distribution of realistic larval poses that we estimate a priori using a template-based pose estimation of a small number of swim bouts. Our network model, trained without any human annotation, performs larval pose estimation three orders of magnitude faster and with accuracy comparable to the template-based approach, capturing detailed kinematics of 3-D larval swims. It also applies accurately to other datasets collected under different imaging conditions and containing behavioral contexts not included in our training.
    Keywords Biology (General) ; QH301-705.5
    Subject code 006
    Language English
    Publishing date 2023-10-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article: Commentary: Direct estimation of central aortic pressure from measured or quantified mean and diastolic brachial blood pressure: agreement with invasive records.

    Chemla, Denis / Jozwiak, Mathieu

    Frontiers in cardiovascular medicine

    2023  Volume 10, Page(s) 1295467

    Language English
    Publishing date 2023-12-19
    Publishing country Switzerland
    Document type Journal Article ; Comment
    ZDB-ID 2781496-8
    ISSN 2297-055X
    ISSN 2297-055X
    DOI 10.3389/fcvm.2023.1295467
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  6. Article ; Online: Assessing the accuracy of systolic aortic pressure estimation from a brachial cuff alone: a comparison with radial tonometry.

    Chemla, D / Agnoletti, D / Attal, P / Millasseau, S / Blacher, J / Jozwiak, M

    American journal of hypertension

    2024  

    Abstract: Background: A novel method for estimating central systolic aortic pressure (cSAP) has emerged, relying solely on peripheral mean (MBP) and diastolic (DBP) blood pressures. We aimed to assess the accuracy of this Direct Central Blood Pressure estimation ... ...

    Abstract Background: A novel method for estimating central systolic aortic pressure (cSAP) has emerged, relying solely on peripheral mean (MBP) and diastolic (DBP) blood pressures. We aimed to assess the accuracy of this Direct Central Blood Pressure estimation using cuff alone (DCBPcuff=MBP²/DBP) in comparison to the use of generalized transfer function to derive cSAP from radial tonometry (cSAPtono).
    Methods: This retrospective analysis involved International Database of Central Arterial properties for Risk Stratification (IDCARS) data (Aparicio et al., Am J Hypertens 2022). The dataset encompassed 10,930 subjects from 13 longitudinal cohort studies worldwide (54.8%women; median age 46.0 years; office hypertension: 40.1%; treated: 61.0%), documenting cSAPtono via SphygmoCor calibrated against brachial systolic BP (SBP) and DBP. Our analysis focused on aggregate group data from 12/13 studies (89%patients) where full BP dataset was available. A 35% form factor was used to estimate MBP = (DBP+(0.35×(SBP-DBP)), from which DCBPcuff was derived. The predefined acceptable error for cSAPtono estimation was set at ≤5mmHg.
    Results: The cSAPtono values ranged 103.8-127.0 mmHg (n=12). The error between DCBPcuff and cSAPtono was 0.2 ± 1.4 mmHg, with no influence of the mean. Errors ranged from -1.8 to 2.9 mmHg across studies. No significant difference in errors was observed between BP measurements obtained via oscillometry (n=9) vs auscultation (n=3) (p=0.50).
    Conclusions: Using published aggregate group data and a 35% form factor, DCBPcuff demonstrated remarkable accuracy in estimating cSAPtono, regardless of the BP measurement technique. However, given that individual BP values were unavailable, further documentation is required to establish DCBPcuff's precision.
    Language English
    Publishing date 2024-03-22
    Publishing country United States
    Document type Journal Article
    ZDB-ID 639383-4
    ISSN 1941-7225 ; 1879-1905 ; 0895-7061
    ISSN (online) 1941-7225 ; 1879-1905
    ISSN 0895-7061
    DOI 10.1093/ajh/hpae039
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    Zs.A 2329: Show issues Location:
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  7. Article ; Online: Meta-analysis of pulse pressure variation (PPV) and stroke volume variation (SVV) studies: a few rotten apples can spoil the whole barrel.

    Michard, Frederic / Chemla, Denis / Teboul, Jean-Louis

    Critical care (London, England)

    2023  Volume 27, Issue 1, Page(s) 482

    MeSH term(s) Humans ; Blood Pressure ; Stroke Volume ; Malus ; Operating Rooms ; Reproducibility of Results ; Hemodynamics
    Language English
    Publishing date 2023-12-07
    Publishing country England
    Document type Letter ; Comment
    ZDB-ID 2041406-7
    ISSN 1466-609X ; 1364-8535
    ISSN (online) 1466-609X
    ISSN 1364-8535
    DOI 10.1186/s13054-023-04765-3
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    Zs.A 5517: Show issues Location:
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  8. Article ; Online: A systematic review of invasive, high-fidelity pressure studies documenting the amplification of blood pressure from the aorta to the brachial and radial arteries.

    Chemla, Denis / Millasseau, Sandrine

    Journal of clinical monitoring and computing

    2020  Volume 35, Issue 6, Page(s) 1245–1252

    Abstract: It is commonly accepted that systolic blood pressure (SBP) is significantly higher in the brachial/radial artery than in the aorta while mean (MBP) and diastolic (DBP) pressures remain unchanged. This may have implications for outcome studies and for non- ...

    Abstract It is commonly accepted that systolic blood pressure (SBP) is significantly higher in the brachial/radial artery than in the aorta while mean (MBP) and diastolic (DBP) pressures remain unchanged. This may have implications for outcome studies and for non-invasive devices calibration. We performed a systematic review of invasive high-fidelity pressure studies documenting BP in the aorta and brachial/radial artery. We selected articles published prior to July 2015. Pressure amplification (Amp = peripheral minus central pressure) was calculated (weighted mean). The six studies retained (n = 294, 76.5% male, mean age 63.5 years) mainly involved patients with suspected coronary artery disease (CAD). In two studies at the aortic/brachial level (n = 64), MBP and DBP were unchanged (MPAmp = 0.1 mmHg, DPAmp = -1.3 mmHg), while SBP increased (SPAmp = 4.2 mmHg; relative amplification = 3.1%). In four studies in which MBP was not documented (n = 230), brachial DBP remained unchanged and SBP increased (SPAmp = 6.6 mmHg; 4.9%). One of these four studies also reported radial SBP and DBP, not MBP (n = 12). Few high-fidelity pressure studies were found, and they have been performed mainly in elderly male patients with suspected CAD. Counter to expectations, the mean amplification of SBP from the aorta to brachial artery was < 5%. Further studies on SPAmp phenotypes (positive, null, negative) are advocated. Non-invasive device calibration assumptions were confirmed, namely unchanged MBP and DBP from the aorta to the brachial artery. Data did not allow for firm conclusions on the amount of BP changes from the aorta to the radial artery, and from the aorta to the brachial/radial arteries in other populations.
    MeSH term(s) Aged ; Aorta ; Blood Pressure ; Blood Pressure Determination ; Brachial Artery ; Female ; Humans ; Male ; Middle Aged ; Radial Artery
    Language English
    Publishing date 2020-10-09
    Publishing country Netherlands
    Document type Journal Article ; Systematic Review
    ZDB-ID 1418733-4
    ISSN 1573-2614 ; 1387-1307 ; 0748-1977
    ISSN (online) 1573-2614
    ISSN 1387-1307 ; 0748-1977
    DOI 10.1007/s10877-020-00599-4
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    Zs.A 2054: Show issues Location:
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  9. Article ; Online: Brachial mean arterial pressure: extremely high accuracy, good precision and pressure dependence of currently used formulas.

    Chemla, Denis / Millasseau, Sandrine

    Journal of hypertension

    2020  Volume 39, Issue 1, Page(s) 196

    MeSH term(s) Arterial Pressure ; Blood Pressure Determination ; Brachial Artery/diagnostic imaging ; Humans
    Language English
    Publishing date 2020-12-04
    Publishing country England
    Document type Journal Article ; Comment
    ZDB-ID 605532-1
    ISSN 1473-5598 ; 0263-6352 ; 0952-1178
    ISSN (online) 1473-5598
    ISSN 0263-6352 ; 0952-1178
    DOI 10.1097/HJH.0000000000002680
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    Zs.MO 614: Show issues

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  10. Article: A knowledge base for D. melanogaster gene interactions involved in pattern formation.

    Euzenat, J / Chemla, C / Jacq, B

    Proceedings. International Conference on Intelligent Systems for Molecular Biology

    1997  Volume 5, Page(s) 108–119

    Abstract: The understanding of pattern formation in Drosophila requires the handling of the many genetic and molecular interactions which occur between developmental genes. For that purpose, a knowledge base (KNIFE) has been developed in order to structure and ... ...

    Abstract The understanding of pattern formation in Drosophila requires the handling of the many genetic and molecular interactions which occur between developmental genes. For that purpose, a knowledge base (KNIFE) has been developed in order to structure and manipulate the interaction data. KNIFE contains data about interactions published in the literature and gathered from various databases. These data are structured in an object knowledge representation system into various interrelated entities. KNIFE can be browsed through a WWW interface in order to select, classify and examine the objects and their references in other bases. It also provides specialised biological tools such as interaction network manipulation and diagnosis of missing interactions.
    MeSH term(s) Animals ; Artificial Intelligence ; Classification ; Computer Communication Networks ; Computer Graphics ; Databases, Factual ; Drosophila melanogaster/embryology ; Drosophila melanogaster/genetics ; Female ; Gene Expression Regulation, Developmental ; Genes, Insect ; Insect Proteins/genetics ; Male ; Phenotype
    Chemical Substances Insect Proteins
    Language English
    Publishing date 1997
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 1553-0833
    ISSN 1553-0833
    Database MEDical Literature Analysis and Retrieval System OnLINE

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