Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: star
https://packages.ecosyste.ms/registries/pypi.org/packages/star
import star
3 versions
Latest release: over 11 years ago
2 dependent packages
136 downloads last month
Papers Mentioning star 39
10.1099/mgen.0.000492
Quantitative analysis of the splice variants expressed by the major hepatitis B virus genotypesCited by: 13
Author(s): Chun Shen Lim, Vitina Sozzi, Margaret Littlejohn, Lilly Yuen, Nadia Warner, Brigid Betz‐Stablein, Fabio Luciani, Peter Revill, Chris M. Brown
Software Mentions: 13
Published: almost 4 years ago
10.1099/mgen.0.000445
Transcriptome-wide expression profiling of Sporothrix schenckii yeast and mycelial forms and the establishment of the Sporothrix Genome DataBaseCited by: 12
Author(s): Domenico Giosa, Maria Rosa Felice, Letterio Giuffrè, Riccardo Aiese Cigliano, Andreu Paytuví-Gallart, Carla Lo Passo, Cinzia Barresi, Enrico D’Alessandro, Huaiqiu Huang, Giuseppe Criseo, Héctor M. Mora-Montes, Sybren de Hoog, Orazio Romeo
Software Mentions: 7
Published: about 4 years ago
10.1002/1873-3468.14180
Genome‐scale metabolic modelling of SARS‐CoV‐2 in cancer cells reveals an increased shift to glycolytic energy productionCited by: 13
Author(s): Elisabeth Yaneske, Guido Zampieri, Loris Bertoldi, Giuseppe Benvenuto, Claudio Angione
Software Mentions: 7
Published: about 3 years ago
10.1002/1878-0261.13014
imPlatelet classifier: image‐converted RNA biomarker profiles enable blood‐based cancer diagnosticsCited by: 10
Author(s): Krzysztof Pastuszak, Anna Supernat, Myron G. Best, Sjors G J G In ‘t Veld, Sylwia Łapińska‐Szumczyk, Anna Łojkowska, Robert Różański, Anna Żaczek, Jacek Jassem, Thomas Würdinger, Tomasz Stokowy
Software Mentions: 6
Published: over 3 years ago
10.1038/s41598-021-89938-2
Improved methods for RNAseq-based alternative splicing analysisCited by: 20
Author(s): Rebecca F. Halperin, Apurva M. Hegde, Jessica D. Lang, Elizabeth A. Raupach, Christophe Legendre, Winnie S. Liang, Patricia LoRusso, Aleksandar Sekulić, Jeffrey A. Sosman, Jeffrey M. Trent, Sampathkumar Rangasamy, Patrick Pirrotte, Nicholas J. Schork
Software Mentions: 6
Published: over 3 years ago
10.1111/mec.14123
Adaptive sequence evolution is driven by biotic stress in a pair of orchid species (<i>Dactylorhiza</i>) with distinct ecological optimaCited by: 22
Author(s): Francisco Balao, Emiliano Trucchi, Thomas M. Wolfe, Bao Hai Hao, María Teresa Cáceres Lorenzo, Juliane Baar, Laura Sedman, Carolin Kosiol, Fabian Amman, Mark W. Chase, Mikael Hedrén, Ovidiu Paun
Software Mentions: 6
Published: over 7 years ago
10.1002/1878-0261.12528
Estrogen therapy induces an unfolded protein response to drive cell death in <scp>ER</scp> + breast cancerCited by: 15
Author(s): Sarah R. Hosford, Kevin Shee, Jason D. Wells, Nicole A. Traphagen, Jennifer Fields, Riley A. Hampsch, Arminja N. Kettenbach, Eugene Demidenko, Todd W. Miller
Software Mentions: 6
Published: over 5 years ago
10.1186/s13015-016-0068-6
Bitpacking techniques for indexing genomes: II. Enhanced suffix arraysCited by: 2
Author(s): Thomas D. Wu
Software Mentions: 6
Published: over 8 years ago
10.1002/1878-0261.12655
Transcriptome profiling of Ewing sarcomas – treatment resistance pathways and IGF‐dependencyCited by: 6
Author(s): Yi Chen, Asle Charles Hesla, Yingbo Lin, Mehran Ghaderi, Mingzhi Liu, Yang Chen, Yifan Zhang, Panagiotis Tsagozis, Olle Larsson, Felix Haglund
Software Mentions: 5
Published: over 4 years ago
10.1111/1755-0998.12939
Finding Nemo’s Genes: A chromosome‐scale reference assembly of the genome of the orange clownfish <i>Amphiprion percula</i>Cited by: 42
Author(s): Robert Lehmann, Damien J. Lightfoot, Celia Schunter, Craig Michell, Hajime Ohyanagi, Katsuhiko Mineta, Sylvain Forêt, Michael L. Berumen, David J. Miller, Manuel Aranda, Takashi Gojobori, Philip L. Munday, Timothy Ravasi
Software Mentions: 5
Published: about 6 years ago
10.4049/jimmunol.1900940
<i>Malat1</i> Suppresses Immunity to Infection through Promoting Expression of Maf and IL-10 in Th CellsCited by: 45
Author(s): James P. Hewitson, Katie A West, Kylie R. James, Gulab Fatima Rani, Nidhi Sharma Dey, Audrey Romano, Najmeeyah Brown, Sarah A. Teichmann, Paul M. Kaye, Dimitrios Lagos
Software Mentions: 4
Published: over 4 years ago
10.1371/journal.pone.0132450
Construction, De-Novo Assembly and Analysis of Transcriptome for Identification of Reproduction-Related Genes and Pathways from Rohu, Labeo rohita (Hamilton)Cited by: 11
Author(s): Dinesh Kumar Sahu, Soumya Prasad Panda, Prem Kumar Meher, Paramananda Das, P. Routray, Jitendra Kumar Sundaray, P. Jayasankar, Samiran Nandi
Software Mentions: 4
Published: over 9 years ago
10.1111/mec.15216
Sex‐specific changes in the aphid DNA methylation landscapeCited by: 32
Author(s): Thomas C. Mathers, Sam T. Mugford, Lawrence Percival‐Alwyn, Yazhou Chen, Gemy Kaithakottil, David Swarbreck, Saskia A. Hogenhout, Cock van Oosterhout
Software Mentions: 4
Published: about 5 years ago
10.1099/mgen.0.000319
Landscape of gene expression variation of natural isolates of Cryptococcus neoformans in response to biologically relevant stressesCited by: 22
Author(s): Yu Chen, Chen Yuan, Christopher A. Desjardins, Jennifer L. Tenor, Dena L. Toffaletti, Charles Giamberardino, Anastasia P. Litvintseva, John R. Perfect, Christina A. Cuomo
Software Mentions: 4
Published: almost 5 years ago
10.1111/tpj.12963
Chromatin state analysis of the barley epigenome reveals a higher‐order structure defined by H3K27me1 and H3K27me3 abundanceCited by: 44
Author(s): Katie Baker, Taniya Dhillon, Isabelle Colas, Nicola Cook, Iain Milne, Linda Milne, Micha Bayer, Andrew J. Flavell
Software Mentions: 4
Published: about 9 years ago
10.1186/s12885-017-3237-1
Comparison of triple-negative breast cancer molecular subtyping using RNA from matched fresh-frozen versus formalin-fixed paraffin-embedded tissueCited by: 26
Author(s): Bojana Jovanović, Quanhu Sheng, Robert S. Seitz, Kasey Lawrence, Stephan W. Morris, Lance R. Thomas, David R. Hout, Brock L. Schweitzer, Yan Guo, Jennifer A. Pietenpol, Brian D. Lehmann
Software Mentions: 3
Published: over 7 years ago
10.1002/1878-0261.12828
TGFBI modulates tumour hypoxia and promotes breast cancer metastasisCited by: 30
Author(s): Flavia Fico, Albert Santamaria-Martínez
Software Mentions: 3
Published: about 4 years ago
10.1002/1878-0261.12680
Cell type‐specific transcriptomics of esophageal adenocarcinoma as a scalable alternative for single cell transcriptomicsCited by: 8
Author(s): Maxwell Kramer, Patrick Sven Plum, Oscar Velázquez Camacho, Kat Folz-Donahue, Martin Thelen, Isabel Garcia-Marquez, Christina B. Wölwer, Sören Büsker, Jana Wittig, Marek Franitza, Janine Altmüller, Heike Löser, Hans Schlößer, Reinhard Büttner, Wolfgang Schröder, Christiane Bruns, Hakan Alakus, Alexander Quaas, Seung‐Hun Chon, Axel M. Hillmer
Software Mentions: 3
Published: over 4 years ago
10.15252/emmm.201809266
Apelin inhibition prevents resistance and metastasis associated with anti‐angiogenic therapyCited by: 65
Author(s): Iris Uribesalgo, David Hoffmann, Yin Zhang, Anoop Kavirayani, Jelena Lazović, Judit Berta, Maria Novatchkova, Tsung-Pin Pai, Reiner Wimmer, Viktória László, Daniel Schramek, Rezaul Karim, Luigi Tortola, Sumit Deswal, Linda Haas, Johannes Zuber, Miklós Szűcs, Keiji Kuba, Balázs Döme, Yihai Cao, Bernhard J. Haubner, Josef Penninger
Software Mentions: 3
Published: over 5 years ago
10.1111/imb.12631
Transcriptional changes in the aphid species <i>Myzus cerasi</i> under different host and environmental conditionsCited by: 10
Author(s): Peter Thorpe, Carmen Escudero-Martinez, Sebastian Eves‐van den Akker, Jorunn I. B. Bos
Software Mentions: 2
Published: almost 5 years ago
10.3389/fphys.2020.580618
Regulation of Metabolism by an Ensemble of Different Ion Channel Types: Excitation-Secretion Coupling Mechanisms of Adipokinetic Hormone Producing Cells in DrosophilaCited by: 7
Author(s): Rebecca Perry, Cecil J. Saunders, Jonathan M. Nelson, Michael J. Rizzo, Jason T. Braco, Erik C. Johnson
Software Mentions: 2
Published: about 4 years ago
10.1038/s42003-021-02262-3
Central amygdala circuitry modulates nociceptive processing through differential hierarchical interaction with affective network dynamicsCited by: 8
Author(s): Isabel Wank, Pinelopi Pliota, Sylvia Badurek, Klaus Kraitsy, Joanna Kaczanowska, Johannes Griessner, Silke Kreitz, Andreas Heß, Wulf Haubensak
Software Mentions: 2
Published: over 3 years ago
10.1186/s13054-021-03481-0
Identification and characterization of neutrophil heterogeneity in sepsisCited by: 32
Author(s): Xinxin Qi, Yang Yu, Ran Sun, Jiamin Huang, Lu Liu, Yunxi Yang, Rui Tao, Bo Sun
Software Mentions: 2
Published: almost 4 years ago
10.3389/fimmu.2021.647873
A Systems Biology Approach Identifies B Cell Maturation Antigen (BCMA) as a Biomarker Reflecting Oral Vaccine Induced IgA Antibody Responses in HumansCited by: 4
Author(s): Lynda Mottram, Anna Lundgren, Ann‐Mari Svennerholm, Susannah Leach
Software Mentions: 2
Published: over 3 years ago
10.1002/ece3.6282
Genetic Diversity of the root‐knot nematode<i>Meloidogyne enterolobii</i>in Mulberry Based on the Mitochondrial COI GeneCited by: 5
Author(s): Hanjuan Shao, Pan Zhang, Chunping You, Chuanren Li, Feng Yan, Zhengde Xie
Software Mentions: 2
Published: over 4 years ago
10.1002/2211-5463.12803
Potential prognostic impact of EBV RNA‐seq reads in gastric cancer: a reanalysis of The Cancer Genome Atlas cohortCited by: 4
Author(s): Daichi Sadato, Mina Ogawa, Chizuko Hirama, Tsunekazu Hishima, Shinichiro Horiguchi, Yuka Harada, Tatsu Shimoyama, Masanari Itokawa, Kazuteru Ohashi, Keisuke Oboki
Software Mentions: 2
Published: almost 5 years ago
10.18632/oncotarget.18297
The peripheral immune status of granulocytic myeloid-derived suppressor cells correlates the survival in advanced gastric cancer patients receiving cisplatin-based chemotherapyCited by: 15
Author(s): Hirokazu Shoji, Kohei Tada, Shigehisa Kitano, Takashi Nishimura, Yasuhiro Shimada, Kengo Nagashima, Kazunori Aoki, Nobuyoshi Hiraoka, Yoshitaka Honma, Satoru Iwasa, Atsuo Takashima, Ken Kato, Narikazu Boku, Kazuo Honda, Tesshi Yamada, Yuji Heike, Tetsuya Hamaguchi
Software Mentions: 1
Published: over 7 years ago
10.1186/s12920-021-01022-w
RNA-seq analysis reveals significant transcriptome changes in huntingtin-null human neuroblastoma cellsCited by: 5
Author(s): Johanna Bensalel, Hongyuan Xu, Michael L. Lu, Enrico Capobianco, Jianning Wei
Software Mentions: 1
Published: over 3 years ago
10.1002/1878-0261.13068
VprBP directs epigenetic gene silencing through histone H2A phosphorylation in colon cancerCited by: 13
Author(s): Nikhil Baban Ghate, Sangnam Kim, Erin Spiller, Sung-Min Kim, Yonghwan Shin, Suhn Kyong Rhie, Goar Smbatyan, Heinz‐Josef Lenz, Shannon M. Mumenthaler, Woojin An
Software Mentions: 1
Published: over 3 years ago
10.1002/1878-0261.12479
The fusion landscape of hepatocellular carcinomaCited by: 9
Author(s): Chun Zhu, Liangcai Wu, Yanling Lv, Jian Guan, Xue Bai, Jianzhen Lin, Tingting Liu, Xiaobo Yang, Simon C. Robson, Xinting Sang, Chenghai Xue, Hong Zhao
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pgen.1009775
The endogenous mex-3 3´UTR is required for germline repression and contributes to optimal fecundity in C. elegansCited by: 4
Author(s): Mennatallah M. Y. Albarqi, Séan Ryder
Software Mentions: 1
Published: about 3 years ago
10.1371/journal.pone.0145920
MUC1 Vaccines, Comprised of Glycosylated or Non-Glycosylated Peptides or Tumor-Derived MUC1, Can Circumvent Immunoediting to Control Tumor Growth in MUC1 Transgenic MiceCited by: 29
Author(s): Vani Lakshminarayanan, Nitin T. Supekar, Jie Wei, Dustin McCurry, Amylou C. Dueck, Heidi E. Kosiorek, P.P. Trivedi, Judy Bradley, Cathy S. Madsen, Latha B. Pathangey, Dominique B. Hoelzinger, Margreet A. Wolfert, Geert‐Jan Boons, Peter A. Cohen, Sandra J. Gendler
Software Mentions: 1
Published: almost 9 years ago
10.3389/fimmu.2018.00591
Age-Related Changes in the Natural Killer Cell Response to Seasonal Influenza Vaccination Are Not Influenced by a Synbiotic: a Randomised Controlled TrialCited by: 28
Author(s): Agnieszka Przemska-Kosicka, Caroline E. Childs, Catherine Maidens, Honglin Dong, Susan Todd, Margot Gosney, Kieran Tuohy, Parveen Yaqoob
Software Mentions: 1
Published: over 6 years ago
10.3389/fimmu.2017.01419
Human CD141+ Dendritic Cell and CD1c+ Dendritic Cell Undergo Concordant Early Genetic Programming after Activation in Humanized Mice In VivoCited by: 40
Author(s): Yoshihito Minoda, Isaac Virshup, Ingrid Leal Rojas, Oscar Haigh, Yide Wong, John J. Miles, Christine A. Wells, Kristen J. Radford
Software Mentions: 1
Published: about 7 years ago
10.3389/fimmu.2017.01564
Fine-Tuning of Optimal TCR Signaling in Tumor-Redirected CD8 T Cells by Distinct TCR Affinity-Mediated MechanismsCited by: 36
Author(s): Danilo Presotto, Efe Erdes, Minh Ngoc Duong, Mathilde Allard, Pierre-Olivier Regamey, Manfredo Quadroni, Marie‐Agnès Doucey, Nathalie Rufer, Michaël Hebeisen
Software Mentions: 1
Published: about 7 years ago
10.1186/s12929-017-0387-z
The TLR3/TICAM-1 signal constitutively controls spontaneous polyposis through suppression of c-Myc in Apc Min/+ miceCited by: 2
Author(s): Junya Ono, Hiroaki Shime, Haruyuki Takaki, Ken Takashima, Kenji Funami, Sumito Yoshida, Yohei Takeda, Misako Matsumoto, Masanori Kasahara, Tsukasa Seya
Software Mentions: 1
Published: about 7 years ago
10.3390/s19112555
A Novel Autonomous Celestial Integrated Navigation for Deep Space Exploration Based on Angle and Stellar Spectra Shift Velocity MeasurementCited by: 11
Author(s): Xiao Chen, Zhiyong Sun, Zhang Wei, Jun Xu
Software Mentions: 1
Published: over 5 years ago
10.7554/eLife.26733
NFATc2 enhances tumor-initiating phenotypes through the NFATc2/SOX2/ALDH axis in lung adenocarcinomaCited by: 38
Author(s): Xu Zhi, Jing Liu, Si Qi Wang, Yun Zhu, Xu Gao, Vicky Pui‐Chi Tin, Jin Qin, Jun Wen Wang, Maria Pik Wong
Software Mentions: 1
Published: over 7 years ago
10.1111/acel.12739
Resilience to aging in the regeneration‐capable flatworm <i>Macrostomum lignano</i>Cited by: 20
Author(s): Stijn Mouton, Magda Grudniewska, Lisa Glazenburg, Victor Guryev, Eugène Berezikov
Software Mentions: 1
Published: over 6 years ago