39 Works

Feasibility and preliminary efficacy for morning bright light therapy to improve sleep and plasma biomarkers in US Veterans with TBI. A prospective, open-label, single-arm trial

Jonathan Elliott, Alisha McBride, Nadir Balba, Stanley Thomas, Cassandra Pattinson, Benjamin Morasco, Andrea Wilkerson, Jessica Gill & Miranda Lim
Mild traumatic brain injury (TBI) is associated with persistent sleep-wake dysfunction, including insomnia and circadian rhythm disruption, which can exacerbate functional outcomes including mood, pain, and quality of life. Present therapies to treat sleep-wake disturbances in those with TBI (e.g., cognitive behavioral therapy for insomnia) are limited by marginal efficacy, poor patient acceptability, and/or high patient/provider burden. Thus, this study aimed to assess the feasibility and preliminary efficacy of morning bright light therapy, to improve...

Additional file 1 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 1: Summary of the NORMAN-SLE datasets (CSV format) as of 4 May 2022 [81].

Research on infrared dim and small target detection algorithm based on local contrast and gradient

Weihong Lin, Leihong Zhang, Zimin Shen, Dawei Zhang, Jian Chen, Jie Zhou, Wei Peng & Fengshou Wu
The rapid development of infrared technology makes it widely applicable in such fields as military, medical, testing and communications.This paper proposes an algorithm based on local contrast and gradient (LCG). Specifically, the algorithm uses the difference of gaussian and threshold segmentation to preprocess to obtain the position of possible target points. Then, local contrast processing is conducted for the possible target points. Finally, the global is processed using an improved directional gradient. According to the...

Research on infrared dim and small target detection algorithm based on local contrast and gradient

Weihong Lin, Leihong Zhang, Zimin Shen, Dawei Zhang, Jian Chen, Jie Zhou, Wei Peng & Fengshou Wu
The rapid development of infrared technology makes it widely applicable in such fields as military, medical, testing and communications.This paper proposes an algorithm based on local contrast and gradient (LCG). Specifically, the algorithm uses the difference of gaussian and threshold segmentation to preprocess to obtain the position of possible target points. Then, local contrast processing is conducted for the possible target points. Finally, the global is processed using an improved directional gradient. According to the...

Additional file 8 of Genome-wide profiling of retroviral DNA integration and its effect on clinical pre-infusion CAR T-cell products

Lipei Shao, Rongye Shi, Yingdong Zhao, Hui Liu, Alexander Lu, Jinxia Ma, Yihua Cai, Tatyana Fuksenko, Alejandra Pelayo, Nirali N. Shah, James N. Kochenderfer, Scott M. Norberg, Christian Hinrichs, Steven L. Highfill, Robert P Somerville, Sandhya R. Panch, Ping Jin & David F. Stroncek
Additional file 8: Table S3. Differential alternative splicing transcripts with viral integration.

Additional file 9 of Genome-wide profiling of retroviral DNA integration and its effect on clinical pre-infusion CAR T-cell products

Lipei Shao, Rongye Shi, Yingdong Zhao, Hui Liu, Alexander Lu, Jinxia Ma, Yihua Cai, Tatyana Fuksenko, Alejandra Pelayo, Nirali N. Shah, James N. Kochenderfer, Scott M. Norberg, Christian Hinrichs, Steven L. Highfill, Robert P Somerville, Sandhya R. Panch, Ping Jin & David F. Stroncek
Additional file 9: Table S4. Differential integration sites at gene locus based on clinical outcomes.

Autoantibody discovery across monogenic, acquired, and COVID19-associated autoimmunity with scalable PhIP-Seq

Sara Vazquez, Sabrina Mann, Aaron Bodansky, Andrew Kung, Zoe Quandt, Elise Ferré, Nils Landegren, Daniel Eriksson, Paul Bastard, Shen-Ying Zhang, Jamin Liu, Anthea Mitchell, Caleigh Mandel-Brehm, Brenda Miao, Gavin Sowa, Kelsey Zorn, Alice Chan, Chisato Shimizu, Adriana Tremoulet, Kara Lynch, Michael Wilson, Olle Kämpe, Kerry Dobbs, Ottavia Delmonte, Luigi Notarangelo … & Joseph DeRisi
Phage Immunoprecipitation-Sequencing (PhIP-Seq) allows for unbiased, proteome-wide autoantibody discovery across a variety of disease settings, with identification of disease-specific autoantigens providing new insight into previously poorly understood forms of immune dysregulation. Despite several successful implementations of PhIP-Seq for autoantigen discovery, including our previous work (Vazquez et al. 2020), current protocols are inherently difficult to scale to accommodate large cohorts of cases and importantly, healthy controls. Here, we develop and validate a high throughput extension of...

Additional file 4 of Different color regulation mechanism in willow barks determined using integrated metabolomics and transcriptomics analyses

Jie Zhou, Jiahui Guo, Qingsheng Chen, Baosong Wang, Xudong He, Qiang Zhuge & Pu Wang
Additional file 4: Table S8. The differential expressed genes identified inwillow barks.

Additional file 10 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang, Xin-zhuan Su, Jian Li, Jia-jian Shi & Li-hua Xie
Additional file 10: Table S1. The subsets of genes and immune cell types identified from the ImmPort database.

Additional file 11 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang, Xin-zhuan Su, Jian Li, Jia-jian Shi & Li-hua Xie
Additional file 11: Table S2. The upregulated genes in malaria-infected relative to noninfected individuals in the discovery datasets.

Additional file 4 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 4: Summary of Zenodo citations plus DOIs per list (CSV format) as of 1 May 2022 [236].

Epigenome-wide association studies of occupational exposure to benzene and formaldehyde

Rachael V. Phillips, Linqing Wei, Andres Cardenas, Alan E. Hubbard, Cliona M. McHale, Roel Vermeulen, Hu Wei, Martyn T. Smith, Luoping Zhang, Qing Lan & Nathaniel Rothman
Sufficient evidence supports a relationship between certain myeloid neoplasms and exposure to benzene or formaldehyde. DNA methylation could underlie benzene- and formaldehyde-induced health outcomes, but data in exposed human populations are limited. We conducted two cross-sectional epigenome-wide association studies (EWAS), one in workers exposed to benzene and another in workers exposed to formaldehyde. Using HumanMethylation450 BeadChips, we investigated differences in blood cell DNA methylation among 50 benzene-exposed subjects and 48 controls, and among 31 formaldehyde-exposed...

Additional file 3 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 3: Summary of Zenodo view and download statistics, plus citations (CSV format) as of 28 April 2022 [235].

Additional file 4 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 4: Summary of Zenodo citations plus DOIs per list (CSV format) as of 1 May 2022 [236].

Additional file 1 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 1: Summary of the NORMAN-SLE datasets (CSV format) as of 4 May 2022 [81].

Additional file 5 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 5: Authorship contributions and acknowledgements mapped to NORMAN-SLE lists (XLSX format).

iCite Database Snapshot 2022-09

iCite, B. Ian Hutchins, George Santangelo & Ehsanul Haque
This is a database snapshot of the iCite web service (provided here as a single zipped CSV file, or compressed, tarred JSON files). In addition, citation links in the NIH Open Citation Collection are provided as a two-column CSV table in open_citation_collection.zip. iCite provides bibliometrics and metadata on publications indexed in PubMed, organized into three modules:
Influence: Delivers metrics of scientific influence, field-adjusted and benchmarked to NIH publications as the baseline.
Translation: Measures...

Additional file 9 of Genome-wide profiling of retroviral DNA integration and its effect on clinical pre-infusion CAR T-cell products

Lipei Shao, Rongye Shi, Yingdong Zhao, Hui Liu, Alexander Lu, Jinxia Ma, Yihua Cai, Tatyana Fuksenko, Alejandra Pelayo, Nirali N. Shah, James N. Kochenderfer, Scott M. Norberg, Christian Hinrichs, Steven L. Highfill, Robert P Somerville, Sandhya R. Panch, Ping Jin & David F. Stroncek
Additional file 9: Table S4. Differential integration sites at gene locus based on clinical outcomes.

Additional file 12 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang, Xin-zhuan Su, Jian Li, Jia-jian Shi & Li-hua Xie
Additional file 12: Table S3. The downregulated genes in malaria-infected relative to noninfected individuals in the discovery datasets.

Additional file 12 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang, Xin-zhuan Su, Jian Li, Jia-jian Shi & Li-hua Xie
Additional file 12: Table S3. The downregulated genes in malaria-infected relative to noninfected individuals in the discovery datasets.

Additional file 10 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang, Xin-zhuan Su, Jian Li, Jia-jian Shi & Li-hua Xie
Additional file 10: Table S1. The subsets of genes and immune cell types identified from the ImmPort database.

Additional file 11 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang, Xin-zhuan Su, Jian Li, Jia-jian Shi & Li-hua Xie
Additional file 11: Table S2. The upregulated genes in malaria-infected relative to noninfected individuals in the discovery datasets.

A telltale sign of irreversibility in transcriptional regulation

Robert Shelansky, Sara Abrahamsson, Michael Doody, Christopher R. Brown, Heta P. Patel, Tineke L. Lenstra, Daniel R. Larson & Hinrich Boeger
Transcription occurs in stochastic bursts, i.e., transcription events are temporally clustered. The clustering does not ensue from environmental fluctuations but springs from the intrinsically stochastic behavior of the regulatory process that controls transcription. Based on microscopic observations of transcription at a single gene copy of yeast, we show that the regulatory process is cyclic and irreversible, i.e., the process violates the detailed balance conditions for thermodynamic equilibrium. The theoretical significance of this finding is discussed.

iCite Database Snapshot 2022-09

iCite, B. Ian Hutchins, George Santangelo & Ehsanul Haque
This is a database snapshot of the iCite web service (provided here as a single zipped CSV file, or compressed, tarred JSON files). In addition, citation links in the NIH Open Citation Collection are provided as a two-column CSV table in open_citation_collection.zip. iCite provides bibliometrics and metadata on publications indexed in PubMed, organized into three modules:
Influence: Delivers metrics of scientific influence, field-adjusted and benchmarked to NIH publications as the baseline.
Translation: Measures...

Additional file 5 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 5: Authorship contributions and acknowledgements mapped to NORMAN-SLE lists (XLSX format).

Registration Year

  • 2022
    39

Resource Types

  • Dataset
    39

Affiliations

  • National Institutes of Health
    39
  • Southern Medical University
    15
  • Tianjin Medical University
    15
  • Chinese Academy of Sciences
    15
  • Guangzhou Medical University
    13
  • Huazhong University of Science and Technology
    11
  • Shanghai Jiao Tong University
    9
  • National Center for AIDS/STD Control and Prevention,China CDC
    9
  • Sichuan Agricultural University
    9
  • Tongji Hospital
    9