22 Matching Annotations
  1. Jun 2024
  2. May 2024
    1. I wouldn't focus too much on "posted only after human review" - it's worth noting that's that's worth nothing. We literally just saw a case of obviously riduculous AI images in a scientific paper breezing through peer review with noone caring, so quality will necessarily go down because Brandolini's law combined with AI is the death sentence for communities like SE and I doubt they'll employ people to review content from the money they'll make
  3. Mar 2024
  4. Feb 2022
    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      IRB: This study was approved by the Institutional Review Board of the Emory University School of Medicine.

      Consent: IRB of Emory University School of Medicine gave ethical approval for this work I confirm that all necessary patient/participant consent has been obtained and the appropriate institutional forms have been archived, and that any patient/participant/sample identifiers included were not known to anyone (e.g., hospital staff, patients or participants themselves) outside the research group so cannot be used to identify individuals.

      Inclusion and Exclusion Criteria

      not detected.

      Attrition

      The first case was identified in September of 2006 , 13 cases were detected in 2007 , and 16 cases in 2008 across these two hospitals ( total of 30 with 120 matched controls) .

      Sex as a biological variable

      Mean Median 60 62 ( range from 27 to 90 ) Sex Female Male 25 ( 52 ) 23 ( 48 ) Site of isolation Urine

      Subject Demographics

      Age: not detected. Weight: not detected.

      Randomization

      Controls, patients without CRKP were randomly selected from a computerized list of inpatients who matched the case age (+/- 5 years), sex, and facility and whose admission date was within 48 hours of the date of the initial, positive culture.

      Blinding

      not detected.

      Power Analysis

      not detected.

      Replication

      not required.

      Data Information

      Availability: The comparison of clinical characteristics between cases and controls was made using Chi-Square (or It is made available under a CC-BY-NC-ND 4.0 International license .

      Identifiers: medRxiv preprint doi: https:// doi.org/10.1101/2022.02.08.22269570; this version posted February 9 , 2022 . https://doi.org/10.1101/2022.02.08.22269570

    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      IRB: The ethics committee approval of the research protocol was made by the Ankara City Hospital Consent: Informed consent was obtained from the patients to participate in the study.

      Inclusion and Exclusion Criteria

      not detected.

      Attrition

      Two publications are evaluating the association with Netrin-1 in bleomycin-induced lung fibrosis in mice and SSc lung cell culture in humans.

      Sex as a biological variable

      A total of 56 SSc patients (mean age: 48.08±13.59) consisting of 53 females and 3 males, who were followed up in the rheumatology department of Ankara city hospital, diagnosed according to the 2013 ACR (American College of Rheumatology)/EULAR (European League Against Rheumatism) SSc classification criteria were included in the study.

      Subject Demographics

      Age: For the control group, 58 healthy volunteers (mean age: 48.01±11.59 years) consisting of 54 females and 4 males were included in the study.

      Randomization

      not detected.

      Blinding

      not detected.

      Power Analysis

      not detected.

      Replication

      not required.

      Data Information

      Availability: It is made available under a CC-BY-NC-ND 4.0 International license .

      Identifiers: preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in medRxiv preprint doi: https:// doi.org/10.1101/2022.02.05.22270510; this version posted February 10, 2022. https://doi.org/10.1101/2022.02.05.22270510

    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      IRB: I confirm all relevant ethical guidelines have been followed, and any necessary IRB and/or ethics committee approvals have been obtained.

      Field Sample Permit: The research has been conducted using the UK Biobank Resource and has been approved by the UK Biobank under Application no. 36226.

      Consent: I confirm that all necessary patient/participant consent has been obtained and the appropriate institutional forms have been archived, and that any patient/participant/sample identifiers included were not known to anyone (e.g., hospital staff, patients or participants themselves) outside the research group so cannot be used to identify individuals.

      Inclusion and Exclusion Criteria

      Similarly , individuals where a large proportion of SNPs could not be measured were excluded.

      Attrition

      not detected.

      Sex as a biological variable

      not detected.

      Subject Demographics

      Age: not detected.

      Weight: not detected.

      Randomization

      Mendelian randomization ( MR ) is a robust and accessible tool to examine the causal relationship between an exposure variable and an outcome from GWAS summary statistics. [ 19 ] We employed two-sample summary data Mendelian randomization to further validate causal effects of neutrophil cell count genes on the outcome of critical illness due to COVID-19

      Blinding

      not detected.

      Power Analysis

      not detected.

      Replication

      not required.

      Data Information

      Identifiers: medRxiv preprint doi: https:// doi.org/10.1101/2021.05.18.21256584; this version posted February 14 , 2022 . https://doi.org/10.1101/2021.05.18.21256584

      Identifiers: Manhattan plot of neutrophil cell count showing that we reproduce the reported CDK6 signal ( rs445 ) on chromosome 7 . rs445

    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      IRB: 234 Ethical clearance was obtained from the regional Ethical Review Board of Amhara

      Consent: The general aim and purpose of the study was described to each 239 eligible patient and all voluntary participants gave verbal informed consent prior to 240 enrolment.

      Inclusion and Exclusion Criteria

      Those 135 patients who were critically ill and unable to respond and those not voluntary to 136 participate were excluded.

      Attrition

      Those 135 patients who were critically ill and unable to respond and those not voluntary to 136 participate were excluded .

      Sex as a biological variable

      Sex Male Female Age group 18-24 25-44 ≥45

      Subject Demographics

      Age: 130 All adult patients ( aged ≥18 years ) who were using clinical laboratory services at 131 public health facilities of east Amhara , northeast Ethiopia were source population.

      Randomization

      132 Study population and eligibility criteria 133 Adult patients who received general laboratory services at the randomly selected 134 government health facilities during the study period were study population .

      Blinding

      not detected.

      Power Analysis

      not detected.

      Replication

      not required.

      Data Information

      Availability: It is made available under a CC-BY-NC-ND 4.0 International license .

      Identifiers: preprint doi: https:// doi.org/10.1101/2022.01.25.22269238; this version posted January 25 , 2022 . https://doi.org/10.1101/2022.01.25.22269238

  5. Jan 2022
    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      Field Sample Permit: Our findings indicate a paucity of 217 research focusing on field trials and implementation studies related to CHIKV RDTs .

      IRB: I confirm all relevant ethical guidelines have been followed, and any necessary IRB and/or ethics committee approvals have been obtained.

      Consent: I confirm that all necessary patient/participant consent has been obtained and the appropriate institutional forms have been archived, and that any patient/participant/sample identifiers included were not known to anyone (e.g., hospital staff, patients or participants themselves) outside the research group so cannot be used to identify individuals.

      Inclusion and Exclusion Criteria

      98 Articles were excluded if (i) the studies were reviews, case reports, or opinion articles; (ii) 99 the studies evaluated the performance of reverse transcription loop-mediated isothermal 100 amplification (RT-LAMP) assays; (iii) the studies were related to an outbreak investigation 101 without the evaluation of the accuracy of CHIKV RDTs; (iv) the studies used an inappropriate 102 study population (asymptomatic individuals); (v) the studies described inappropriate It is made available under a CC-BY-NC-ND 4.0 International license.

      Attrition

      Based on the tile and the abstract , 96 were excluded , with 89 full-text 158 articles retrieved and assessed for eligibility .

      Sex as a biological variable

      not detected.

      Subject Demographics

      Age: not detected. Weight: not detected.

      Randomization

      Similarly , there was a high risk of bias in 210 the patient selection domain because only three studies enrolled a consecutive or random 211 sample of eligible patients with suspicion of CHIKV infection to reduce the bias in the 212 diagnostic accuracy of the index test .

      Blinding

      not detected.

      Power Analysis

      not detected.

      Replication

      not required.

      Data Information

      Availability: The 90 Prisma-ScR checklist is available in the Supplementary material.

      Identifiers: medRxiv preprint doi: https:// doi.org/10.1101/2022.01.28.22270018; this version posted January 30 , 2022 . https://doi.org/10.1101/2022.01.28.22270018

    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      IRB: Institutional Review Board and all participants gave their signed informed consent.

      Consent: Institutional Review Board and all participants gave their signed informed consent.

      Inclusion and Exclusion Criteria

      83 years; 34 males; 57 righthanded , see Table 1 ) met the inclusion criteria: All patients were older than 18 years , presented with first-ever ischemic ( 83 % ) or haemorrhagic ( 17 % ) stroke and behavioural deficits as assessed by a neurological examination.

      Attrition

      Patients who had a history of neurological or psychiatric presentations ( e.g. transient ischemic attack) , multifocal or bilateral strokes , or had MRI contraindications ( e.g. claustrophobia , ferromagnetic objects ) were excluded from the analysis ( n = 131 patients , see the enrollment flowchart in the supplementary materials from Corbetta et al. 2015).

      Sex as a biological variable

      Handedness ( % right-handed ) 91.94 Sex ( % female ) 45.16 Abbreviations: SD = standard deviation It is made available under a CC-BY-NC 4.0 International license.

      Subject Demographics

      Age: 83 years; 34 males; 57 righthanded , see Table 1 ) met the inclusion criteria: All patients were older than 18 years , presented with first-ever ischemic ( 83 % ) or haemorrhagic ( 17 % ) stroke and behavioural deficits as assessed by a neurological examinatio .

      Randomization

      The task instructions require patients to place and remove the nine pegs one at a time and in random order as quickly as possible ( Mathiowetz et al. 1985; Oxford Grice et al. 2003).

      Blinding

      Two boardcertified neurologists ( Drs Corbetta and Carter ) reviewed all segmentations blinded to the individual behavioural data .

      Power Analysis

      We believe that adding other factors ( e.g. demographic , clinical , socioeconomic variables ) that likely interact with the recovery of patients can help us increase the model’s predictive power.

      Replication

      not required.

      Cell Line Authentication

      Authentication: However , most of the studies fall into one of the pitfalls that were described above ( i.e. overfitting , generalisability , and diaschisis ) as the models are not validated in an independent dataset.

      Code Information

      Identifiers: This procedure is available as supplementary code with the manuscript ( see https://github.com/lidulyan/Hierarchical-Linear- Regression-R- ).

      https://github.com/lidulyan/Hierarchical-Linear- Regression-R-

      Data Information

      Availability: Handedness ( % right-handed ) 91.94 Sex ( % female ) 45.16 Abbreviations: SD = standard deviation It is made available under a CC-BY-NC 4.0 International license .

      Identifiers: preprint doi: https:// doi.org/10.1101/2021.12.01.21267129; this version posted December 2 , 2021.

      https://doi.org/10.1101/2021.12.01.21267129

    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      Field Sample Permit: Collection of data for detecting cellular spatiotemporal condition supporting circularization For this purpose, online database and web server were used by taking specific queries like , RBP-types or lncRNAs to search out their special location inside cellular spaces

      Inclusion and Exclusion Criteria

      not required.

      Attrition

      not required.

      Sex as a biological variable

      not required.

      Subject Demographics

      Age: not required.

      Weight: not required.

      Randomization

      To reduce computational complexity in dealing with very large database where number of data is greater than 1000 , sample datasets were used through random selection of data from the original database .

      Blinding

      not detected.

      Power Analysis

      not detected.

      Replication

      not required.

      Data Information

      Identifiers: We analyzed the spread of this biomolecular entity outside and inside the sub- cellular space along with assimilating other reported pieces of information (e.g., about RBP molecules involved in circularization of such bioRxiv preprint doi: https:// doi.org/10.1101/2021.10.26.465935; this version posted October 26, 2021. https://doi.org/10.1101/2021.10.26.465935

    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      Field Sample Permit: Seeds of sorghum (Sorghum bicolor) were obtained from the seed collection unit of the Office of the Agricultural Development Programme, Benin City, Edo State, Nigeria. Ferruginous (or iron elevated) soil used in this present study was obtained from around the Life Sciences Faculty environment and pooled to obtain composite sample.

      Inclusion and Exclusion Criteria

      not required.

      Attrition

      not required.

      Sex as a biological variable

      not required.

      Subject Demographics

      Age: not required.

      Weight: not required.

      Randomization

      In order to confirm ferrugenicity, samples were collected from random areas and iron content was first confirmed in the area before more samples were collected and pooled.

      Blinding

      not detected.

      Power Analysis

      not detected.

      Replication

      The experiment was laid out incompletely randomized design in a factorial arrangement and replicated three times per treatment.

      Number: The experiment was laid out incompletely randomized design in a factorial arrangement and replicated three times per treatment .

      Data Information

      Availability: It is made available under aCC-BY 4.0 International license.

      Identifiers: preprint doi: https:// doi.org/10.1101/2021.11.22.469542; this version posted November 22 , 2021 .

      https://doi.org/10.1101/2021.11.22.469542

    1. SciScore rigor report

      Sciscore is an AI platform that assesses the rigor of the methods used in the manuscript. SciScore assists expert referees by finding and presenting information scattered throughout a manuscript in a simple format.


      Not required = Field is not applicable to this study

      Not detected = Field is applicable to this study, but not included.


      Ethics

      IRB: Samples and data collections were conducted according to the guidelines of the Declaration of Helsinki , and approved by the Ethics Committee Sciences et Santé Animale n°115 ( protocol code COVIFEL approved on 1 September 2020 , registered under SSA_2020_010 ) .

      Euthanasia Agents: Cells were then incubated for 72 h at 37 °C with 5 % of CO2 .

      Field Sample Permit: These experiments were approved by the Anses/ENVA/UPEC ethic committee and the French Ministry of Research ( Apafis n°24818-2020032710416319 ) .

      Consent: All sera from the first cohort , and whole blood samples from the second cohort , were obtained from the Toulouse hospital , where all patients give , by default , their consent for any biological material left over to be used for research purposes after all the clinical tests requested by doctors have been duly completed.

      Inclusion and Exclusion Criteria

      not detected.

      Attrition

      One additional conclusion that can be drawn from the comparison of the results of the RBD-ELISA with those of the Jurkat-S&R-flow test is that, whilst the two methods show similar sensitivities, the ELISA signals tend to saturate very rapidly, and are thus much less dynamic that those obtained by flow cytometry.

      Sex as a biological variable

      Of note, we did not notice an increased frequency of allo-reactivity in samples from women compared to men, which suggests that allo-reactivity after pregnancy is not a major cause in the origin of those allo-reactions.

      Subject Demographics

      Age: Experiments on virally-infected hamsters Eight week-old female Syrian golden hamsters ( Mesocricetus auratus , strain RjHan:AURA ) from Janviers’s breeding Center ( Le Genest , St Isle , France ) were housed in an animal-biosafety level 3 ( A-BSL3) , with ad libidum access to water and food.

      Randomization

      The results of the second cohort, which comprised a few Covid patients, but also a large proportion of blood samples randomly picked among those from patients hospitalized for conditions unrelated to Covid-19, yielded a much less clear picture than the first one.

      Blinding

      On the other hand, the situation was much less clear-cut for the cohort comprising blood samples picked more or less randomly and blindly among those available as left-overs from the hematology department and was, therefore, more akin to a ‘real’ population.

      Power Analysis

      not detected.

      Replication

      not required.

      Cell Line Authentication

      Contamination: The Jurkat-S and Jurkat-R cell lines were both checked for the absence of mycoplasma contamination using the HEK blue hTLR2 kit ( Invivogen , Toulouse , France ).

      Authentication: For the same reason , the blood samples for the experiment shown on Figure 3A were collected by one of the authors by simple finger-pricking.

  6. Sep 2021
    1. Side note: When I flagged yours as a dupe during review, the review system slapped me in the face and seriously accused me of not paying attention, a ridiculous claim by itself since locating a (potential) dupe requires quite a lot of attention.
  7. Jul 2021
  8. Apr 2021
  9. Jun 2020
  10. May 2020
  11. Apr 2020
    1. that can be partially automated but still require human oversight and occasional intervention
    2. but then have a tool that will show you each of the change sites one at a time and ask you either to accept the change, reject the change, or manually intervene using your editor of choice.
  12. Mar 2017
    1. Great overview and commentary. However, I would have liked some more insight into the ethical ramifications and potential destructiveness of an ASI-system as demonstrated in the movie.