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: Allegro
https://packages.ecosyste.ms/registries/pypi.org/packages/Allegro
A python backend integration framework
21 versions
Latest release: almost 7 years ago
91 downloads last month
Papers Mentioning Allegro 53
10.1371/journal.pcbi.1003731
iRegulon: From a Gene List to a Gene Regulatory Network Using Large Motif and Track CollectionsCited by: 654
Author(s): Rekin’s Janky, Annelien Verfaillie, Hana Imrichová, Bram Van de Sande, Laura Standaert, Valerie Christiaens, Gert Hulselmans, Koen Herten, Marina Naval-Sánchez, Delphine Potier, Dmitry Svetlichnyy, Zeynep Kalender Atak, Mark Fiers, Jean‐Christophe Marine, Stein Aerts
Software Mentions: 6
Published: almost 10 years ago
10.1186/1471-2105-10-121
SNP HiTLink: a high-throughput linkage analysis system employing dense SNP dataCited by: 29
Author(s): Yoko Fukuda, Yukiko Nakahara, Hidetoshi Date, Yūji Takahashi, Jun Goto, Akinori Miyashita, Ryozo Kuwano, Hiroki Adachi, Eiji Nakamura, Shoji Tsuji
Software Mentions: 6
Published: about 15 years ago
10.1371/journal.pone.0126321
Leveraging the Power of High Performance Computing for Next Generation Sequencing Data Analysis: Tricks and Twists from a High Throughput Exome WorkflowCited by: 36
Author(s): Amit Kawalia, Susanne Motameny, Stephan Wonczak, Holger Thiele, Lech Nieroda, Kamel Jabbari, Stefan Borowski, Vishal Sinha, Wilfried Gunia, Ulrich Lang, Viktor Achter, Peter Nürnberg
Software Mentions: 5
Published: about 9 years ago
10.1186/s12859-019-2615-x
ModelExplorer - software for visual inspection and inconsistency correction of genome-scale metabolic reconstructionsCited by: 10
Author(s): Nikolay Martyushenko, Eivind Almaas
Software Mentions: 5
Published: over 5 years ago
10.1371/journal.pone.0063526
Dosage Transmission Disequilibrium Test (dTDT) for Linkage and Association DetectionCited by: 1
Author(s): Zhehao Zhang, Jen Chyong Wang, William B. Howells, Peng-Cheng Lin, Arpana Agrawal, Howard J. Edenberg, Jay A. Tischfield, Marc A. Schuckit, Laura J. Bierut, Alison M. Goate, John P. Rice
Software Mentions: 3
Published: about 11 years ago
10.3389/fgene.2019.00800
Missense Pathogenic variants in KIF4A Affect Dental Morphogenesis Resulting in X-linked Taurodontism, Microdontia and Dens-InvaginatusCited by: 7
Author(s): Lord Jephthah Joojo Gowans, Sophia Cameron-Christie, Rebecca L. Slayton, Tamara Busch, Miguel Romero-Bustillos, Steven Eliason, Mason Sweat, Nara Sobreira, Wenjie Yu, Piranit Nik Kantaputra, Elizabeth Wohler, Wasiu Lanre Adeyemo, Salil A. Lachke, Deepti Anand, Colleen A. Campbell, Bernadette Drummond, David Markie, Wendy-Ann Jansen van Vuuren, Ludwig Jansen van Vuuren, Paul S. Casamassimo, Ronald L. Ettinger, Arwa I. Owais, I. van Staden, Brad A. Amendt, Adebowale Adeyemo, Jeffrey C. Murray, Stephen Robertson, Azeez Butali
Software Mentions: 3
Published: over 4 years ago
10.3389/fgene.2016.00024
Analysis of Genomic Sequence Motifs for Deciphering Transcription Factor Binding and Transcriptional Regulation in Eukaryotic CellsCited by: 98
Author(s): Valentina Boeva
Software Mentions: 3
Published: over 8 years ago
10.1371/journal.pone.0126873
Novel Loci for Non-Syndromic Coarctation of the Aorta in Sporadic and Familial CasesCited by: 12
Author(s): Julia Moosmann, Steffen Uebe, Sven Dittrich, André Rüffer, Arif B. Ekici, Okan Toka
Software Mentions: 3
Published: about 9 years ago
10.1371/journal.pgen.1003728
The Enhancer Landscape during Early Neocortical Development Reveals Patterns of Dense Regulation and Co-optionCited by: 33
Author(s): Aaron M. Wenger, Shoa L. Clarke, James H. Notwell, Tisha Chung, Geetu Tuteja, Harendra Guturu, Bruce T. Schaar, Gill Bejerano
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0061521
Stratified Whole Genome Linkage Analysis of Chiari Type I Malformation Implicates Known Klippel-Feil Syndrome Genes as Putative Disease CandidatesCited by: 39
Author(s): Christina A. Markunas, Karen Soldano, Kaitlyn Dunlap, Heidi Cope, Edgar Asiimwe, Jeffrey M. Stajich, David S. Enterline, Gerald A. Grant, Herbert E. Fuchs, Simon G. Gregory, Allison E. Ashley-Koch
Software Mentions: 2
Published: about 11 years ago
10.1186/gb-2010-11-10-r108
Rapid haplotype inference for nuclear familiesCited by: 23
Author(s): Amy L. Williams, David E. Housman, Martin Rinard, David K. Gifford
Software Mentions: 2
Published: over 13 years ago
10.7717/peerj-cs.499
A dual model node based optimization algorithm for simultaneous escape routing in PCBsCited by: 1
Author(s): Asad Ali, Naveed Anjum, Muhammad Zeeshan
Software Mentions: 2
Published: about 3 years ago
10.1186/1471-2350-10-122
Further analysis of previously implicated linkage regions for Alzheimer's disease in affected relative pairsCited by: 5
Author(s): Elin Blom, Vilmantas Giedraitis, Sampath Arepalli, Marian L. Hamshere, Omanma Adighibe, Alison M. Goate, Julie Williams, Lars Lannfelt, John Hardy, Fabienne Wavrant‐De Vrièze, Anna Glaser
Software Mentions: 1
Published: over 14 years ago
10.1186/1471-2350-6-1
Genome-wide and Ordered-Subset linkage analyses provide support for autism loci on 17q and 19p with evidence of phenotypic and interlocus genetic correlatesCited by: 127
Author(s): Jacob L. McCauley, Chun-Chun Li, Lan Jiang, Lana M. Olson, Genea Crockett, Kimberly Gainer, Susan E. Folstein, Jonathan L. Haines, James S. Sutcliffe
Software Mentions: 1
Published: over 19 years ago
10.1186/1471-2350-12-91
A comprehensive introduction to the genetic basis of non-syndromic hearing loss in the Saudi Arabian populationCited by: 19
Author(s): Faiqa Imtiaz, Khalid Taibah, Khushnooda Ramzan, Ghada Bin-Khamis, Shelley Kennedy, Bashayer Al-Mubarak, Daniah Trabzuni, Rabab Allam, Abeer Al-Mostafa, Sameera Sogaty, Abdulmoneem H Al-Shaikh, Saeed S Bamukhayyar, Brian F. Meyer, Mohammed Al‐Owain
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2350-12-15
Enhanced genetic maps from family-based disease studies: population-specific comparisonsCited by: 6
Author(s): Chunsheng He, Daniel E. Weeks, Steven Buyske, Gonçalo R. Abecasis, William C. Stewart, Tara C. Matise
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2350-6-17
The Familial Intracranial Aneurysm (FIA) study protocolCited by: 60
Author(s): Joseph P. Broderick, Laura Sauerbeck, Tatiana Foroud, John Huston, Nathan Pankratz, Irene Meissner, Robert D. Brown
Software Mentions: 1
Published: about 19 years ago
10.1186/s12883-021-02087-x
SPG9A with the new occurrence of an ALDH18A1 mutation in a CMT1A family with PMP22 duplication: case reportCited by: 2
Author(s): Kishin Koh, Ryusuke Takaki, Hiroyuki Ishiura, Shoji Tsuji, Yoshihisa Takiyama
Software Mentions: 1
Published: over 3 years ago
10.1186/1746-6148-2-14
Molecular characterization and exclusion of porcine GUSBas a candidate gene for congenital hernia inguinalis/scrotalisCited by: 7
Author(s): Julia Beck, Kirsten Bornemann-Kolatzki, C. Knorr, Helge Taeubert, Bertram Brenig
Software Mentions: 1
Published: about 18 years ago
10.1186/s13041-015-0180-4
A mutation in the low voltage-gated calcium channel CACNA1G alters the physiological properties of the channel, causing spinocerebellar ataxiaCited by: 75
Author(s): Hiroyuki Morino, Yukiko Matsuda, Keiko Muguruma, Ryosuke Miyamoto, Ryosuke Ohsawa, Toshiyuki Ohtake, Reiko Otobe, Masahiko Watanabe, Hírofumi Makino, Kouichi Hashimoto, Hideshi Kawakami
Software Mentions: 1
Published: over 8 years ago
10.1002/mgg3.227
Founder mutation in<i>KCNJ10</i>in Pakistani patients with EAST syndromeCited by: 11
Author(s): Ola Abdelhadi, Daniela Iancu, Mehmet Tekman, Horia Stanescu, Detlef Böckenhauer, Robert Kleta
Software Mentions: 1
Published: almost 8 years ago
10.3390/pharmacy6040126
Multidisciplinary Collaboration between a Community Pharmacy and a Travel Clinic in a Swiss University Primary Care and Public Health CentreCited by: 2
Author(s): Jérôme Berger, Marie-José Barbalat, Vanessa Pavón Clément, Blaise Genton, Olivier Bugnon
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pbio.0050242
Variants in a Novel Epidermal Collagen Gene (COL29A1) Are Associated with Atopic DermatitisCited by: 174
Author(s): Cilla Söderhäll, Ingo Marenholz, Tamara Kerscher, Franz Rüschendorf, Jorge Esparza-Gordillo, Margitta Worm, Christoph Grüber, Gabriele Mayr, Mario Albrecht, Klaus Rohde, Herbert Schulz, Ulrich Wahn, Norbert Hübner, Youngae Lee
Software Mentions: 1
Published: over 16 years ago
10.1371/journal.pgen.1006022
BOD1 Is Required for Cognitive Function in Humans and DrosophilaCited by: 19
Author(s): Sahar Esmaeeli-Nieh, Michaela Fencková, Iain M. Porter, Mohammad Mahdi Motazacker, Bonnie Nijhof, Anna Castells-Nobau, Zoltán Asztalos, Robert Weißmann, Farkhondeh Behjati, Andreas Tzschach, Ute Felbor, Harry Scherthan, Seyed Morteza Sayfati, Hans‐Hilger Ropers, Kimia Kahrizi, Hossein Najmabadi, Jason R. Swedlow, Annette Schenck, Andreas W. Kuß
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pgen.1002114
Loss of the BMP Antagonist, SMOC-1, Causes Ophthalmo-Acromelic (Waardenburg Anophthalmia) Syndrome in Humans and MiceCited by: 78
Author(s): Joe Rainger, Ellen van Beusekom, Jacqueline Ramsay, Lisa McKie, Lihadh Al‐Gazali, R Pallotta, Anita Saponari, Peter Branney, Malcolm Fisher, Harris Morrison, Louise S. Bicknell, Philippe Gautier, Paul Perry, Kishan Sokhi, David Sexton, Tanya Bardakjian, Adele Schneider, Nursel Elcioğlu, Ferda Özkınay, Rainer Koenig, André Mégarbané, C. Nur Semerci, Ayesha Khan, Saemah Nuzhat Zafar, Raoul C. M. Hennekam, Sérgio B. Sousa, Leonor Ramos, Livia Garavelli, Andrea Superti Furga, Anita Wischmeijer, Ian J. Jackson, Gabriele Gillessen‐Kaesbach, Han G. Brunner, Dagmar Wieczorek, Hans van Bokhoven, David R. FitzPatrick
Software Mentions: 1
Published: almost 13 years ago
10.1371/journal.pone.0035439
HTR1A a Novel Type 1 Diabetes Susceptibility Gene on Chromosome 5p13-q13Cited by: 18
Author(s): Samina Asad, Pernilla Nikamo, Alexandra Gyllenberg, Hedvig Bennet, Ola Hansson, Nils Wierup, Annelie Carlsson, Gun Forsander, Sten-Anders Ivarsson, Helena Larsson, Åke Lernmark, Bengt Lindblad, Johnny Ludvigsson, Claude Marcus, Kjersti S. Rönningen, J. Nerup, Flemming Pociot, Holger Luthman, Malin Fex, Ingrid Kockum
Software Mentions: 1
Published: about 12 years ago
10.1371/journal.pone.0062615
Evaluating Power and Type 1 Error in Large Pedigree Analyses of Binary TraitsCited by: 8
Author(s): Anna Cummings, Eric Torstenson, Mary F. Davis, Laura D’Aoust, William K. Scott, Margaret A. Pericak‐Vance, William S. Bush, Jonathan L. Haines
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0034746
A Genome-Wide Study Replicates Linkage of 3p22-24 to Extreme Longevity in Humans and Identifies Possible Additional LociCited by: 19
Author(s): Richard A. Kerber, Elizabeth O’Brien, Kenneth M. Boucher, Ken R. Smith, Richard M. Cawthon
Software Mentions: 1
Published: about 12 years ago
10.1371/journal.pone.0005687
SNP Haplotype Mapping in a Small ALS FamilyCited by: 5
Author(s): Katherine Andrea Dick Krueger, Shoji Tsuji, Yoko Fukuda, Yūji Takahashi, Jun Goto, Jun Mitsui, Hiroyuki Ishiura, Joline Dalton, Michael B. Miller, John W. Day, Laura P.W. Ranum
Software Mentions: 1
Published: about 15 years ago
10.1371/journal.pone.0076831
New Findings in a Global Approach to Dissect the Whole Phenotype of PLA2G6 Gene MutationsCited by: 39
Author(s): Mustafa A. Salih, Emeline Mundwiller, Arif O. Khan, Abdulmajeed AlDrees, Salah A. Elmalik, Hamdy H. Hassan, Mohammed Al‐Owain, Hisham Alkhalidi, István Katona, Mohammad M. Kabiraj, Roman Chrast, Amal Y. Kentab, Hamad Alzaidan, Richard J. Rodenburg, Thomas M. Bosley, Joachim Weis, M. Kœnig, Giovanni Stevanin, Hamid Azzedine
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0098289
Mutation in KERA Identified by Linkage Analysis and Targeted Resequencing in a Pedigree with Premature AtherosclerosisCited by: 6
Author(s): Stephanie Maiwald, Suthesh Sivapalaratnam, Mahdi M. Motazacker, Julian C. van Capelleveen, Ilze Bot, Saskia C.A. de Jager, Miranda Van Eck, Jennifer Jolley, Johan Kuiper, Jonathan Stephens, Cornelius A. Albers, C. Ruben Vosmeer, Heleen Kruize, Daan P. Geerke, Allard C. van der Wal, Chris M. van der Loos, John J.P. Kastelein, Mieke D. Trip, Willem H. Ouwehand, Geesje M. Dallinga‐Thie, G. Kees Hovingh
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pone.0044573
Susceptibility towards Enterotoxigenic Escherichia coli F4ac Diarrhea Is Governed by the MUC13 Gene in PigsCited by: 49
Author(s): Jun Ren, Xueming Yan, Huashui Ai, Zhiyan Zhang, Xiang Huang, Jing Ouyang, Ming Yang, Huaigu Yang, Pengfei Han, Weihong Zeng, Yijie Chen, Yuanmei Guo, Shijun Xiao, Nengshui Ding, Lusheng Huang
Software Mentions: 1
Published: over 11 years ago
10.4061/2011/368915
A Novel ESRRB Deletion Is a Rare Cause of Autosomal Recessive Nonsyndromic Hearing Impairment among Pakistani FamiliesCited by: 5
Author(s): Kwanghyuk Lee, Saadullah Khan, Muhammad Ansar, Regie Lyn P. Santos‐Cortez, Wasim Ahmad
Software Mentions: 1
Published: over 12 years ago
10.1007/s00426-019-01261-8
Electrophysiological examination of response-related interference while dual-tasking: is it motoric or attentional?Cited by: 2
Author(s): Kyung Hun Jung, T. A. Martin, Eric Ruthruff
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-017-01577-8
A deep intronic CLRN1 (USH3A) founder mutation generates an aberrant exon and underlies severe Usher syndrome on the Arabian PeninsulaCited by: 35
Author(s): Arif O. Khan, Elvir Becirovic, Christian Betz, Christine Neuhaus, Janine Altmüller, Lisa Maria Riedmayr, Susanne Motameny, Gudrun Nürnberg, Peter Nürnberg, Hanno J. Bolz
Software Mentions: 1
Published: about 7 years ago
10.1038/s41598-017-07487-z
Cell Dispersal Influences Tumor Heterogeneity and Introduces a Bias in NGS Data InterpretationCited by: 8
Author(s): Lőrinc Sándor Pongor, Hajnalka Harami-Papp, Előd Méhes, András Czirók, Balázs Győrffy
Software Mentions: 1
Published: almost 7 years ago
10.3390/s140101787
Control Framework for Dexterous Manipulation Using Dynamic Visual Servoing and Tactile Sensors’ FeedbackCited by: 43
Author(s): Carlos A. Jara, Jorge Pomares, Francisco A. Candelas, Fernando Torres
Software Mentions: 1
Published: over 10 years ago
10.1155/2021/6634846
Design and Implementation of a Heating Treatment System for Vitiligo Skin Disease Based on Medical UltrasoundCited by: 2
Author(s): Juanjuan Gao, Fei Tian, Chong Lyu, Xianhua Qiao
Software Mentions: 1
Published: about 3 years ago
10.1017/S1041610217002708
Person-centered care in Norwegian nursing homes and its relation to organizational factors and staff characteristics: a cross-sectional surveyCited by: 44
Author(s): Irene Mari Røen, Øyvind Kirkevold, Ingelin Testad, Geir Selbæk, Knut Engedal, Sverre Bergh
Software Mentions: 1
Published: over 6 years ago
10.1007/s13280-015-0732-y
Nuclear power in the 21st century: Challenges and possibilitiesCited by: 47
Author(s): Ákos Horváth, Elisabeth Rachlew
Software Mentions: 1
Published: over 8 years ago
10.7554/eLife.07519
Centriolar satellites assemble centrosomal microcephaly proteins to recruit CDK2 and promote centriole duplicationCited by: 112
Author(s): Andrew Kodani, Timothy W. Yu, Jeffrey R. Johnson, Divya Jayaraman, Lihadh Al‐Gazali, László Sztriha, Jennifer N. Partlow, Hanjun Kim, Alexis Leigh Krup, Alexander Dammermann, Nevan J. Krogan, Christopher A. Walsh, Jeremy F. Reiter
Software Mentions: 1
Published: almost 9 years ago
10.1002/ana.21923
Developmental and degenerative features in a complicated spastic paraplegiaCited by: 30
Author(s): M. Chiara Manzini, Anna Rajab, Thomas M. Maynard, Ganeshwaran H. Mochida, Wen‐Hann Tan, Ramzi Nasir, Rosamund Hill, Danielle Gleason, Muna Al Saffar, Jennifer N. Partlow, Brenda J. Barry, Mike Vernon, Anthony‐Samuel LaMantia, Christopher A. Walsh
Software Mentions: 1
Published: about 14 years ago
10.1186/ar1812
Cited by: 57Author(s): Philippe Dieudé, Sophie Garnier, Laëtitia Michou, Élisabeth Petit-Teixeira, Elodie Glikmans, Céline Pierlot, Sandra Lasbleiz, Thomas Bardin, Bernard Prum, François Cornélis
Software Mentions: 1
Published: over 19 years ago
10.1186/1471-2105-10-115
Most parsimonious haplotype allele sharing determinationCited by: 20
Author(s): Zhipeng Cai, Hadi Sabaa, Yining Wang, Randy Goebel, Zhiquan Wang, Jiaofen Xu, Paul Stothard, Guohui Lin
Software Mentions: 1
Published: about 15 years ago
10.1186/1471-2105-13-146
Identifying mutation regions for closely related individuals without a known pedigreeCited by: 3
Author(s): Wenjuan Cui, Lusheng Wang
Software Mentions: 1
Published: almost 12 years ago
10.1186/1471-2407-7-6
A procedure for the detection of linkage with high density SNP arrays in a large pedigree with colorectal cancerCited by: 6
Author(s): Anneke Middeldorp, Shantie Jagmohan–Changur, Quinta Helmer, Heleen M. van der Klift, Carli M.J. Tops, Hans F. A. Vasen, Peter Devilee, Hans Morreau, Jeanine J. Houwing-Duistermaat, Juul T. Wijnen, Tom van Wezel
Software Mentions: 1
Published: over 17 years ago
10.1186/1471-2156-6-7
Cited by: 24Author(s): Igor Leykin, Ke Hao, Junsheng Cheng, Nicole C. Meyer, Martin R. Pollak, Richard J.H. Smith, Wing Hung Wong, Carsten Rosenow, Cheng Li
Software Mentions: 1
Published: over 19 years ago
10.1186/1471-2164-15-S2-P6
Linkage analysis coupled with exome sequencing identified defects in gene ‘X’ causing premature ovarian insufficiencyCited by: 0
Author(s): Sulman Basit
Software Mentions: 1
Published: about 10 years ago
10.1186/1471-2350-9-6
Complex aetiology of an apparently Mendelian form of Mental RetardationCited by: 4
Author(s): Ana Beleza-Meireles, Ingrid Kockum, Qiuping Yuan, Simone Picelli, Lennart Wetterberg, Karl‐Henrik Gustavson, Martin Schalling
Software Mentions: 1
Published: over 16 years ago
10.1186/1471-2350-11-171
A wide spectrum of clinical and brain MRI findings in patients with SLC19A3mutationsCited by: 90
Author(s): Kenichiro Yamada, Kiyokuni Miura, Kenju Hara, Michitaka Suzuki, Kazuyoshi Nakanishi, Toshiyuki Kumagai, Naoko Ishihara, Yasukazu Yamada, Ryozo Kuwano, Shoji Tsuji, Nobuaki Wakamatsu
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2350-15-10
Adult phenotype and further phenotypic variability in SRD5A3-CDGCited by: 26
Author(s): Bülent Kara, Özgecan Ayhan, Gülden Gökçay, Nurdan Başboğaoğlu, Aslıhan Tolun
Software Mentions: 1
Published: over 10 years ago
10.1186/1471-2350-13-18
An autosomal recessive leucoencephalopathy with ischemic stroke, dysmorphic syndrome and retinitis pigmentosa maps to chromosome 17q24.2-25.3Cited by: 1
Author(s): Ahmed Bouhouche, Ali Benomar, Leïla Errguig, L. Lachhab, Naïma Bouslam, Jehanne Aasfara, Sanaa Sefiani, Layachi Chabraoui, Elmostafa El Fahime, A. El Quessar, M. Jiddane, M. Yahyaoui
Software Mentions: 1
Published: about 12 years ago