cran: SAM | Projects | Ecosyste.ms: Papers

10.1038/s41598-017-02239-5

Efficient and unbiased metagenomic recovery of RNA virus genomes from human plasma samples
Cited by: 29
Author(s): Carmen F. Manso, David F. Bibby, Jean L. Mbisa
Software Mentions: 1
Published: about 9 years ago

10.1186/1755-8794-4-77

Gene expression profiles of breast biopsies from healthy women identify a group with claudin-low features
Cited by: 38
Author(s): Vilde Drageset Haakensen, Ole Christian Lingjærde, Torben Lüders, Margit Riis, Aleix Prat, Melissa A. Troester, Marit Muri Holmen, Jan Ole Frantzen, Linda Romundstad, Dina Navjord, Ida K. Bukholm, Tom B⊘rge Johannesen, Charles M. Perou, Giske Ursin, Vessela N. Kristensen, Anne‐Lise Børresen‐Dale, Åslaug Helland
Software Mentions: 1
Published: almost 15 years ago

10.1186/1755-8794-2-36

MLL rearrangements in pediatric acute lymphoblastic and myeloblastic leukemias: MLL specific and lineage specific signatures
Cited by: 40
Author(s): Andrea Zangrando, Marta Campo Dell’Orto, Geertruy te Kronnie, Giuseppe Basso
Software Mentions: 1
Published: about 17 years ago

10.1186/1755-8794-1-53

A global transcriptional view of apoptosis in human T-cell activation
Cited by: 24
Author(s): Min Wang, Dirk Windgassen, Eleftherios T. Papoutsakis
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2105-13-S7-S9

Comparison of data-merging methods with SVM attribute selection and classification in breast cancer gene expression
Cited by: 38
Author(s): Vitoantonio Bevilacqua, Paolo Pannarale, Mirko Abbrescia, Claudia Cava, Angelo Paradiso, Stefania Tommasi
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2105-9-142

Ranking analysis of F-statistics for microarray data
Cited by: 10
Author(s): Yuan De Tan, Myriam Fornage, Hongyan Xu
Software Mentions: 1
Published: over 18 years ago

10.1186/1471-2482-14-18

Use of human fibrin glue (Ti sseel) versus sta ples for mesh fixation in laparoscopic transabdominal preperitoneal hernioplasty (TISTA): a randomized controlled trial (NCT01641718)
Cited by: 2
Author(s): Sascha Müller, René Warschkow, Ulrich Beutner, Cornelia Lüthi, Kristjan Ukegjini, Bruno M. Schmied, Ignazio Tarantino
Software Mentions: 1
Published: over 12 years ago

10.1186/s12893-016-0126-5

Emergency radiological examination of the externally stabilized pelvis – there is a catch to it: lessons learned from two cases with symphyseal disruption despite initial inconspicuous computed tomography
Cited by: 3
Author(s): Jörg Bayer, Thorsten Hammer, Dirk Maier, Norbert P. Südkamp, Oliver Hauschild
Software Mentions: 1
Published: over 10 years ago

10.1186/1752-0509-5-2

Models of sequestration and receptor cross-talk for explaining multiple mutants in plant stem cell regulation
Cited by: 7
Author(s): Patrik Sahlin, Pontus Melke, Henrik Jönsson
Software Mentions: 1
Published: over 15 years ago

10.1186/1752-0509-5-52

A computational framework for gene regulatory network inference that combines multiple methods and datasets
Cited by: 33
Author(s): R. Gupta, Anna Stincone, Philipp Antczak, Sarah M. Durant, Roy Bicknell, Andréas Bikfalvi, Francesco Falciani
Software Mentions: 1
Published: over 15 years ago

10.1186/1752-0509-3-20

Using cell fate attractors to uncover transcriptional regulation of HL60 neutrophil differentiation
Cited by: 32
Author(s): Albert C. Huang, Limei Hu, Stuart Kauffman, Wei Zhang, Ilya Shmulevich
Software Mentions: 1
Published: over 17 years ago

10.1038/s41598-017-04679-5

Disentangling environmental and spatial effects on phylogenetic structure of angiosperm tree communities in China
Cited by: 7
Author(s): Hong Qian, Shengbin Chen, Jin Long Zhang
Software Mentions: 1
Published: about 9 years ago

10.1186/1752-0509-6-112

Detecting microRNAs of high influence on protein functional interaction networks: a prostate cancer case study
Cited by: 13
Author(s): Mohammed Alshalalfa, Gary D. Bader, Anna Goldenberg, Quaid Morris, Reda Alhajj
Software Mentions: 1
Published: over 14 years ago

10.1186/s12920-016-0214-5

Reproducible detection of disease-associated markers from gene expression data
Cited by: 2
Author(s): Katsuhiro Omae, Osamu Komori, Shinto Eguchi
Software Mentions: 1
Published: about 10 years ago

10.1186/s12918-015-0215-6

Mathematical analysis of the regulation of competing methyltransferases
Cited by: 21
Author(s): Michael C. Reed, Mary V. Gamble, Megan N. Hall, H. Frederik Nijhout
Software Mentions: 1
Published: almost 11 years ago

10.1186/1752-0509-3-11

A Drosophila systems model of pentylenetetrazole induced locomotor plasticity responsive to antiepileptic drugs
Cited by: 26
Author(s): Farhan Mohammad, Priyanka Singh, Abhay Sharma
Software Mentions: 1
Published: over 17 years ago

10.1038/s41598-017-06601-5

Isokinetic angle-specific moments and ratios characterizing hamstring and quadriceps strength in anterior cruciate ligament deficient knees
Cited by: 18
Author(s): Hongshi Huang, Jianqiao Guo, Jie Yang, Yanfang Jiang, Yuanyuan Yu, Steffen Müller, Gexue Ren, Yingfang Ao
Software Mentions: 1
Published: about 9 years ago

10.1186/1752-0509-7-S4-S1

A novel approach to minimize false discovery rate in genome-wide data analysis
Cited by: 2
Author(s): Yuanzhe Bei, Pengyu Hong
Software Mentions: 1
Published: over 13 years ago

10.1186/1752-0509-6-68

Identifying MicroRNA-mRNA regulatory network in colorectal cancer by a combination of expression profile and bioinformatics analysis
Cited by: 116
Author(s): Jihong Fu, Wentao Tang, Peng Du, Guanghui Wang, Wei Chen, Jingming Li, Yunxiang Zhu, Jun Gao, Long Cui
Software Mentions: 1
Published: about 14 years ago

10.1186/1752-0509-6-152

Clarifying off-target effects for torcetrapib using network pharmacology and reverse docking approach
Cited by: 32
Author(s): Shengjun Fan, Qiang Geng, Zhenyu Pan, Xin Li, Lu Tie, Yan Pan, Xuejun Li
Software Mentions: 1
Published: almost 14 years ago

10.1186/1471-2105-9-49

A dynamic Bayesian network approach to protein secondary structure prediction
Cited by: 62
Author(s): Xin‐Qiu Yao, Huaiqiu Zhu, Zhen‐Su She
Software Mentions: 1
Published: over 18 years ago

10.7554/eLife.23493

Mating and male pheromone kill Caenorhabditis males through distinct mechanisms
Cited by: 54
Author(s): Cheng Shi, Alexi Runnels, Coleen T. Murphy
Software Mentions: 1
Published: over 9 years ago

10.1186/1752-0509-4-177

Individual vs. combinatorial effect of elevated CO2 conditions and salinity stress on Arabidopsis thaliana liquid cultures: Comparing the early molecular response using time-series transcriptomic and metabolomic analyses
Cited by: 52
Author(s): Harin Kanani, Bhaskar Dutta, Maria I. Klapa
Software Mentions: 1
Published: almost 16 years ago

10.1186/1752-0509-5-158

Prioritizing cancer-related genes with aberrant methylation based on a weighted protein-protein interaction network
Cited by: 22
Author(s): Liu Hui, Jianzhong Su, Junhua Li, Hongbo Liu, Jie Lv, Boyan Li, Hong Qiao, Yan Zhang
Software Mentions: 1
Published: almost 15 years ago

10.1155/2020/3469840

Transcriptome Investigation and In Vitro Verification of Curcumin-Induced HO-1 as a Feature of Ferroptosis in Breast Cancer Cells
Cited by: 62
Author(s): Ruihua Li, Jing Zhang, Yongfeng Zhou, Qi Gao, Rui Wang, Yurong Fu, Lianwen Zheng, Hao Yu
Software Mentions: 1
Published: almost 6 years ago

10.1186/1752-0509-7-120

Transcription factors and genetic circuits orchestrating the complex, multilayered response of Clostridium acetobutylicum to butanol and butyrate stress
Cited by: 65
Author(s): Qinghua Wang, Keerthi P. Venkataramanan, Hongzhan Huang, Eleftherios T. Papoutsakis, Cathy H. Wu
Software Mentions: 1
Published: almost 13 years ago

10.1186/1755-8794-3-37

The NRF2-mediated oxidative stress response pathway is associated with tumor cell resistance to arsenic trioxide across the NCI-60 panel
Cited by: 42
Author(s): Qian Liu, Hao Zhang, Lisa Smeester, Fei Zou, Matthew J. Kesic, Ilona Jaspers, Jingbo Pi, Rebecca C. Fry
Software Mentions: 1
Published: about 16 years ago

10.1186/1752-0509-4-51

Identifying mRNA targets of microRNA dysregulated in cancer: with application to clear cell Renal Cell Carcinoma
Cited by: 229
Author(s): Huiqing Liu, A. Rose Brannon, Anupama Reddy, Gabriela Alexe, Michael Seiler, Alexandra Arreola, Jay Oza, Ming Yao, David Juan, Louis S. Liou, Shridar Ganesan, Arnold J. Levine, W. Kimryn Rathmell, Gyan Bhanot
Software Mentions: 1
Published: over 16 years ago

10.1186/1752-0509-5-99

Integrative network analysis reveals active microRNAs and their functions in gastric cancer
Cited by: 79
Author(s): Chien Wei Tseng, Lin Chen, Chiung Nien Chen, Hsuan‐Cheng Huang, Hsueh‐Fen Juan
Software Mentions: 1
Published: about 15 years ago

10.1038/s41598-017-09211-3

Histone/protein deacetylase 11 targeting promotes Foxp3+ Treg function
Cited by: 57
Author(s): Jianbing Huang, Liqing Wang, Satinder Dahiya, Ulf H. Beier, Rongxiang Han, Arabinda Samanta, Joel Bergman, Eduardo M. Sotomayor, Edward Seto, Alan P. Kozikowski, Wayne W. Hancock
Software Mentions: 1
Published: about 9 years ago

10.1186/1752-0509-7-S2-S10

HSA: A Heuristic Splice Alignment Tool
Cited by: 7
Author(s): Jingde Bu, Xuebin Chi, Zhong Jin
Software Mentions: 1
Published: almost 13 years ago

10.1038/s41598-017-09274-2

Different elevational patterns of rodent species richness between the southern and northern slopes of a mountain
Cited by: 24
Author(s): Ling Shuai, Chun Lei Ren, Wen Bo Yan, Yan Song, Zhi Zeng
Software Mentions: 1
Published: about 9 years ago

10.1186/1752-0509-8-S2-S8

A diVIsive Shuffling Approach (VIStA) for gene expression analysis to identify subtypes in Chronic Obstructive Pulmonary Disease
Cited by: 23
Author(s): Jörg Menche, Amitabh Sharma, Michael H. Cho, Ruth Mayer, Stephen I. Rennard, Bartolomé R. Celli, Bruce E. Miller, Nick Locantore, Ruth Tal‐Singer, Soumitra Ghosh, Chris Larminie, Glyn Bradley, John Riley, Àlvar Agustí, Edwin K. Silverman, Albert‐László Barabási
Software Mentions: 1
Published: over 12 years ago

10.1186/s12920-021-00981-4

The identification of novel gene mutations for degenerative lumbar spinal stenosis using whole-exome sequencing in a Chinese cohort
Cited by: 2
Author(s): Xin Jiang, Chen Dong
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-017-09905-8

Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
Cited by: 9
Author(s): Hui Song, Qingping Zhang, Pei Tian, Nan Zhang
Software Mentions: 1
Published: about 9 years ago

10.1186/s12920-016-0195-4

Integrated analysis of omics data using microRNA-target mRNA network and PPI network reveals regulation of Gnai1 function in the spinal cord of Ews/Ewsr1 KO mice
Cited by: 5
Author(s): Chai Jin Lee, Hongryul Ahn, Sean Bong Lee, Jong Yeon Shin, Woong-Yang Park, Jong‐Il Kim, Jung‐Hee Lee, Hoon Ryu, Sun Kim
Software Mentions: 1
Published: about 10 years ago

10.1186/1755-8794-1-13

The gene expression profiles of primary and metastatic melanoma yields a transition point of tumor progression and metastasis
Cited by: 425
Author(s): Adam I. Riker, Steven A. Enkemann, Øystein Fodstad, Suhu Liu, Shengxiang Ren, Christopher G. Morris, Yaguang Xi, Paul Howell, Brandon J. Metge, Rajeev S. Samant, Lalita A. Shevde, Wenbin Li, Steven Eschrich, Adil Daud, Jingfang Ju, Jaime Matta
Software Mentions: 1
Published: over 18 years ago

10.1186/s12917-016-0904-4

A frameshift mutation in MOCOS is associated with familial renal syndrome (xanthinuria) in Tyrolean Grey cattle
Cited by: 12
Author(s): Leonardo Murgiano, Vidhya Jagannathan, Christian Piffer, Inmaculada Diez-Prieto, Marilena Bolcato, Arcangelo Gentile, Cord Drögemüller
Software Mentions: 1
Published: almost 10 years ago

10.1186/1746-6148-6-49

Ovine serum biomarkers of early and late phase scrapie
Cited by: 14
Author(s): Isabelle Batxelli-Molina, Nicolas Salvetat, Olivier Andréoletti, Luc Guerrier, Guillaume Vicat, Franck Molina, Chantal Mourton-Gilles
Software Mentions: 1
Published: over 16 years ago

10.1186/1746-6148-8-205

Transcriptomic markers meet the real world: finding diagnostic signatures of corticosteroid treatment in commercial beef samples
Cited by: 10
Author(s): Sara Pegolo, Guglielmo Gallina, Clara Montesissa, Francesca Capolongo, Serena Ferraresso, Caterina Pellizzari, Lisa Poppi, Massimo Castagnaro, Luca Bargelloni
Software Mentions: 1
Published: almost 14 years ago

10.1186/1746-6148-8-65

Evaluating observer agreement of scoring systems for foot integrity and footrot lesions in sheep
Cited by: 23
Author(s): Alessandro Foddai, Laura Green, Sarah Mason, Jasmeet Kaler
Software Mentions: 1
Published: over 14 years ago

10.1136/bmjgh-2020-002613

Long-term outcomes for children with disability and severe acute malnutrition in Malawi
Cited by: 8
Author(s): Natasha Lelijveld, Nora Groce, Seema Patel, Theresa Nnensa, Emmanuel Chimwezi, Melissa Gladstone, Macpherson Mallewa, Jonathan C. K. Wells, Andrew Seal, Marko Kerac
Software Mentions: 1
Published: almost 6 years ago

10.1186/1755-8794-1-54

The distinctive gastric fluid proteome in gastric cancer reveals a multi-biomarker diagnostic profile
Cited by: 35
Author(s): Oi Lian Kon, Tai‐Tung Yip, Meng Fatt Ho, Weng Hoong Chan, Wai Keong Wong, Soo-Yong Tan, Wai Har Ng, Siok Yuen Kam, Alvin Kh Eng, Patrick A. Ho, Rosa Viner, Hock Soo Ong, M. Priyanthi Kumarasinghe
Software Mentions: 1
Published: almost 18 years ago

10.1186/s13568-017-0396-z

Medium-chain-length polyhydroxyalkanoates synthesis by Pseudomonas putida KT2440 relA/spoT mutant: bioprocess characterization and transcriptome analysis
Cited by: 22
Author(s): Justyna Możejko-Ciesielska, Dorota M. Dabrowska, Agnieszka Szalewska-Pałasz, Sławomir Ciesielski
Software Mentions: 1
Published: over 9 years ago

10.1186/bcr2913

Reversal of endocrine resistance in breast cancer: interrelationships among 14-3-3ζ, FOXM1, and a gene signature associated with mitosis
Cited by: 72
Author(s): Anna Bergamaschi, Barbara L. Christensen, Benita S. Katzenellenbogen
Software Mentions: 1
Published: over 15 years ago

10.1038/s41598-017-10361-7

High predictive values of RBC membrane-based diagnostics by biophotonics in an integrated approach for Autism Spectrum Disorders
Cited by: 26
Author(s): Giorgia Giacometti, Carla Ferreri, Anna Sansone, Chryssostomos Chatgilialoglu, Carla Marzetti, Ellas Spyratou, Alexandros G. Georgakilas, Marina Marini, Provvidenza Maria Abruzzo, Alessandra Bolotta, Alessandro Ghezzo, Renato Minguzzi, Annio Posar, Paola Visconti
Software Mentions: 1
Published: about 9 years ago

10.1186/bcr3152

Gene expression in extratumoral microenvironment predicts clinical outcome in breast cancer patients
Cited by: 76
Author(s): Erick Román-Pérez, Patricia Casbas-Hernández, Jason R. Pirone, Jessica Rein, Lisa A. Carey, Ronald A. Lubet, Sendurai A. Mani, Keith D. Amos, Melissa A. Troester
Software Mentions: 1
Published: over 14 years ago

10.1186/bcr1506

The effect of the stromal component of breast tumours on prediction of clinical outcome using gene expression microarray analysis
Cited by: 66
Author(s): Susan Cleator, Trevor J. Powles, Tim Dexter, Laura Fulford, Alan Mackay, Ian Smith, Haukur Valgeirsson, Alan Ashworth, Mitch Dowsett
Software Mentions: 1
Published: over 20 years ago

10.1186/1755-8794-6-S1-S11

A novel method for finding non-small cell lung cancer diagnosis biomarkers
Cited by: 15
Author(s): Quôc-Nam Trân
Software Mentions: 1
Published: over 13 years ago

10.1186/1755-8794-3-2

Gene profiling of the erythro- and megakaryoblastic leukaemias induced by the Graffi murine retrovirus
Cited by: 4
Author(s): Véronique Voisin, Philippe Legault, Diana Paulina Salazar Ospina, Yaacov Ben‐David, Éric Rassart
Software Mentions: 1
Published: over 16 years ago

10.1186/1755-8794-6-S2-S4

Curation-free biomodules mechanisms in prostate cancer predict recurrent disease
Cited by: 8
Author(s): James L. Chen, Alexander O. Hsu, Xinan Yang, Jiànróng Lǐ, Younghee Lee, Gurunadh Parinandi, Haiquan Li, Yves A. Lussier
Software Mentions: 1
Published: over 13 years ago

10.1186/1755-8794-3-58

Comparative gene expression profiling analysis of urothelial carcinoma of the renal pelvis and bladder
Cited by: 51
Author(s): Zhongfa Zhang, Kyle A. Furge, Ximing J. Yang, Bin Tean Teh, Donna E. Hansel
Software Mentions: 1
Published: almost 16 years ago

10.7554/eLife.00822

A component of the mir-17-92 polycistronic oncomir promotes oncogene-dependent apoptosis
Cited by: 72
Author(s): Virginie Olive, Erich Sabio, Margaux J Bennett, Caitlin S De Jong, Anne Biton, James C. McGann, Samantha K. Greaney, Nicole M. Sodir, Alicia Y. Zhou, Asha Balakrishnan, Mona Foth, Micah A. Luftig, Andrei Goga, Terence P. Speed, Zhenyu Xuan, Gérard I. Evan, Ying Wan, Alex C. Minella, Lin He
Software Mentions: 1
Published: almost 13 years ago

10.7554/eLife.19092

Long non-coding RNA produced by RNA polymerase V determines boundaries of heterochromatin
Cited by: 73
Author(s): Gudrun Böhmdorfer, Shriya Sethuraman, M. Jordan Rowley, Michał Krzysztoń, M. Hafiz Rothi, Lilia Bouzit, Andrzej Wierzbicki
Software Mentions: 1
Published: almost 10 years ago

10.1186/bcr3035

A clinically relevant gene signature in triple negative and basal-like breast cancer
Cited by: 283
Author(s): Achim Rody, Thomas Karn, Cornelia Liedtke, Lajos Pusztai, Eugen Ruckhaeberle, Lars Hanker, R. Gaetje, Christine Solbach, A. Ahr, Dirk Metzler, Marcus Schmidt, Volkmar Müller, Uwe Holtrich, M. Kaufmann
Software Mentions: 1
Published: almost 15 years ago

10.1186/1755-8794-3-17

Predicting environmental chemical factors associated with disease-related gene expression data
Cited by: 24
Author(s): Chirag Patel, Atul J. Butte
Software Mentions: 1
Published: over 16 years ago

10.1186/s13058-021-01392-0

Molecular analyses of triple-negative breast cancer in the young and elderly
Cited by: 23
Author(s): Mattias Aine, Ceren Boyacı, Johan Hartman, Jari Häkkinen, Shamik Mitra, Ana Bosch Campos, Emma Niméus, Anna Ehinger, Johan Vallon‐Christersson, Åke Borg, Johan Staaf
Software Mentions: 1
Published: over 5 years ago

10.1186/s12920-015-0082-4

Effects of statin on circulating microRNAome and predicted function regulatory network in patients with unstable angina
Cited by: 18
Author(s): Jingjin Li, Hong Chen, Jingyi Ren, Junxian Song, Feng Zhang, Jing Zhang, Chongyou Lee, Sufang Li, Qiang Geng, Yin Cao, Ning Xu
Software Mentions: 1
Published: over 11 years ago

10.1186/bcr3344

Selective gene-expression profiling of migratory tumor cells in vivo predicts clinical outcome in breast cancer patients
Cited by: 124
Author(s): Antonia Patsialou, Yarong Wang, Juan Lin, Kathleen D. Whitney, Sumanta Goswami, Paraic A. Kenny, John S. Condeelis
Software Mentions: 1
Published: almost 14 years ago

10.1038/s41598-017-10800-5

Genetic variants in ERCC1 and XPC predict survival outcome of non-small cell lung cancer patients treated with platinum-based therapy
Cited by: 15
Author(s): Ruoxin Zhang, Ming Jia, Huijing Xue, Yuan Xu, Mengyun Wang, Meiling Zhu, Menghong Sun, Jianhua Chang, Qingyi Wei
Software Mentions: 1
Published: about 9 years ago

10.1186/1755-8794-4-41

Molecular conservation of estrogen-response associated with cell cycle regulation, hormonal carcinogenesis and cancer in zebrafish and human cancer cell lines
Cited by: 30
Author(s): Siew Hong Lam, Serene G. P. Lee, Chin Yo Lin, Jane S. Thomsen, Pan Fu, K. R. K. Murthy, Haixia Li, Kunde Ramamoorthy Govindarajan, Lin C H Nick, Guillaume Bourque, Zhiyuan Gong, Thomas Lufkin, Edison T. Liu, Sinnakaruppan Mathavan
Software Mentions: 1
Published: over 15 years ago

10.1186/bcr1771

Gene expression profiling and histopathological characterization of triple-negative/basal-like breast carcinomas
Cited by: 531
Author(s): Bas Kreike, Marieke van Kouwenhove, Hugo M. Horlings, Britta Weigelt, Hans Peterse, Harry Bartelink, Marc J. van de Vijver
Software Mentions: 1
Published: almost 19 years ago

10.1038/s41598-017-11555-9

LNGFR targets the Wnt/β-catenin pathway and promotes the osteogenic differentiation in rat ectomesenchymal stem cells
Cited by: 22
Author(s): Gang Li, Junyu Liu, Yingying Wang, Kun Yang, Manzhu Zhao, Yong Xiao, Xiang Wen, Luchuan Liu
Software Mentions: 1
Published: about 9 years ago

10.1186/bcr2142

The functional loss of the retinoblastoma tumour suppressor is a common event in basal-like and luminal B breast carcinomas
Cited by: 215
Author(s): Jason I. Herschkowitz, Xiaping He, Cheng Fan, Charles M. Perou
Software Mentions: 1
Published: about 18 years ago

10.1038/s41598-017-10615-4

Transcriptome analysis of developing lens reveals abundance of novel transcripts and extensive splicing alterations
Cited by: 25
Author(s): Rajneesh Srivastava, Güngör Budak, Soma Dash, Salil A. Lachke, Sarath Chandra Janga
Software Mentions: 1
Published: almost 9 years ago

10.1007/s10549-021-06193-9

Clinical and genomic assessment of PD-L1 SP142 expression in triple-negative breast cancer
Cited by: 12
Author(s): Sung Gwe Ahn, Seon‐Kyu Kim, Jonathan H. Shepherd, Yoon Jin, Soong June Bae, Chungyeul Kim, Jeong Eon Lee, Charles M. Perou
Software Mentions: 1
Published: over 5 years ago

10.1186/1755-8794-2-51

Hepatic inflammation mediated by hepatitis C virus core protein is ameliorated by blocking complement activation
Cited by: 18
Author(s): Mau‐Song Chang, Chau‐Ting Yeh, Deng‐Yn Lin, Yu‐Pin Ho, Cheng–Lung Hsu, D. Montgomery Bissell
Software Mentions: 1
Published: about 17 years ago

10.1186/1755-8794-6-27

Small nucleolar RNAs as new biomarkers in chronic lymphocytic leukemia
Cited by: 70
Author(s): Domenica Ronchetti, Laura Mosca, Giovanna Cutrona, Giacomo Tuana, Massimo Gentile, Sonia Fabris, Luca Agnelli, Gabriella Ciceri, Serena Matis, Carlotta Massucco, Monica Colombo, Daniele Reverberi, Anna Grazia Recchia, Sabrina Bossio, Massimo Negrini, Pierfrancesco Tassone, Fortunato Morabito, Manlio Ferrarini, Antonino Neri
Software Mentions: 1
Published: about 13 years ago

10.1186/1755-8794-3-3

Association of adipocyte genes with ASP expression: a microarray analysis of subcutaneous and omental adipose tissue in morbidly obese subjects
Cited by: 55
Author(s): Robin MacLaren, Wei Cui, Huiling Lü, Serge Simard, Katherine Cianflone
Software Mentions: 1
Published: over 16 years ago

10.1093/bib/bbt045

The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability
Cited by: 6
Author(s): Jing‐Woei Li, Dan Bolser, Magnus Manske, Federico M. Giorgi, Nikolay Vyahhi, Björn Usadel, Bernardo Clavijo, Ting‐Fung Chan, Nathalie Wong, Daniel R. Zerbino, Maria Victoria Schneider
Software Mentions: 1
Published: about 13 years ago

10.1038/s41598-017-10428-5

Efficient feeder cells preparation system for large-scale preparation and application of induced pluripotent stem cells
Cited by: 9
Author(s): Pengdong Li, Qianqian Wang, Lixiang Zhan, Xia He, Guangfan Chi, Shuang Liu, Ziran Xu, Yuhan Xia, Shuzhi Teng, Lisha Li, Yulin Li
Software Mentions: 1
Published: almost 9 years ago

10.1089/crispr.2018.0009

Three-Component Repurposed Technology for Enhanced Expression: Highly Accumulable Transcriptional Activators via Branched Tag Arrays
Cited by: 27
Author(s): Atsushi Kunii, Yoshihiro Hara, Mitsumasa Takenaga, Naoko Hattori, Takuya Fukazawa, Toshikazu Ushijima, Takashi Yamamoto, Tetsushi Sakuma
Software Mentions: 1
Published: almost 8 years ago

10.1155/2021/9936932

Whole Exome Sequencing Identifies Two Novel Mutations in a Patient with UC Associated with PSC and SSA
Cited by: 2
Author(s): Dong Wu, Dan Chen, Wen Shi, Wei Liu, Weixun Zhou, Jiaming Qian
Software Mentions: 1
Published: about 5 years ago

10.1155/2017/2945282

Readability and Suitability of COPD Consumer Information
Cited by: 3
Author(s): Kathryn Fullmann, David Blackburn, Mark Fenton, Holly Mansell
Software Mentions: 1
Published: over 9 years ago

10.1016/j.ccr.2007.02.015

The Differentiation and Stress Response Factor XBP-1 Drives Multiple Myeloma Pathogenesis
Cited by: 354
Author(s): Daniel R. Carrasco, Kumar Sukhdeo, Marina Protopopova, Raktim Sinha, Miriam Enos, Daniel E. Carrasco, Zheng Ma, Mala Mani, Joel M. Henderson, Geraldine S. Pinkus, Nikhil C. Munshi, James W. Horner, Elena Ivanova, Alexei Protopopov, Kenneth C. Anderson, Giovanni Tonon, Ronald A. DePinho
Software Mentions: 1
Published: over 19 years ago

10.1186/1471-2105-9-S9-S10

The balance of reproducibility, sensitivity, and specificity of lists of differentially expressed genes in microarray studies
Cited by: 222
Author(s): Leming Shi, Wendell Jones, Roderick V. Jensen, Stephen Harris, Roger Perkins, Federico Goodsaid, Lei Guo, Lisa J. Croner, Cecilie Boysen, Hong Fang, Feng Qian, Shashi Amur, Wenjun Bao, Cátálin Bárbácioru, Vincent Bertholet, Xiaoxi Cao, Tzu Ming Chu, Patrick J. Collins, Xiao Hui Fan, Felix W. Frueh, James C. Fuscoe, Xu Guo, Jing Han, Damir Herman, Huixiao Hong, Ernest S. Kawasaki, Quan Zhen Li, Yuling Luo, Yunqing Ma, Nan Mei, Ron L. Peterson, Raj K. Puri, Richard Shippy, Zhenqiang Su, Yongming Sun, Hongmei Sun, Brett T. Thorn, Yaron Turpaz, Charles Wang, Sue Jane Wang, Janet A. Warrington, James C. Willey, Jie Wu, Qian Xie, Liang Zhang, Lu Zhang, Sheng Zhong, Russell D. Wolfinger, Weida Tong
Software Mentions: 1
Published: about 18 years ago

10.1186/1475-2867-11-9

A 6-gene signature identifies four molecular subgroups of neuroblastoma
Cited by: 27
Author(s): Frida Abel, Daniel Dalevi, Maria Nethander, Rebecka Jörnsten, Katleen De Preter, Joëlle Vermeulen, Raymond L. Stallings, Per Kogner, John M. Maris, Staffan Nilsson
Software Mentions: 1
Published: over 15 years ago

10.1186/s12935-018-0547-6

Identification of four differentially methylated genes as prognostic signatures for stage I lung adenocarcinoma
Cited by: 15
Author(s): Weiming Luo, Zheng-Yu Wang, Zhang Xin
Software Mentions: 1
Published: over 8 years ago

10.1186/s12935-021-02127-z

Allele frequency deviation (AFD) as a new prognostic model to predict overall survival in lung adenocarcinoma (LUAD)
Cited by: 3
Author(s): Aisha Al-Dherasi, Yuwei Liao, Sultan Al-Mosaib, Rulin Hua, Yichen Wang, Ying Yu, Yu Zhang, Xuehong Zhang, Raeda Jalayta, Haithm Mousa, Abdullah Al-Danakh, Fawze Alnadari, Marwan Almoiliqy, Salem Baldi, Leming Shi, Dekang Lv, Chi Kong Li, Quentin Liu
Software Mentions: 1
Published: about 5 years ago

10.1002/cam4.1672

Molecular profiles of tumor contrast enhancement: A radiogenomic analysis in anaplastic gliomas
Cited by: 9
Author(s): Xing Liu, Yiming Li, Zimin Sun, Shaowu Li, Kai Wang, Xing Fan, Yuqing Liu, Lei Wang, Yinyan Wang, Tao Jiang
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-017-13981-1

Comprehensive analysis of correlations among codon usage bias, gene expression, and substitution rate in Arachis duranensis and Arachis ipaënsis orthologs
Cited by: 40
Author(s): Hui Song, Hongjuan Gao, Jing Liu, Pei Tian, Nan Zhang
Software Mentions: 1
Published: almost 9 years ago

10.7554/eLife.56611

Cohesion is established during DNA replication utilising chromosome associated cohesin rings as well as those loaded de novo onto nascent DNAs
Cited by: 31
Author(s): Manoj Srinivasan, Marco Fumasoni, Naomi J Petela, Andrew W. Murray, Kim Nasmyth
Software Mentions: 1
Published: over 6 years ago

10.1002/cam4.1537

A regulatory mutant on <i><scp>TRIM</scp>26</i> conferring the risk of nasopharyngeal carcinoma by inducing low immune response
Cited by: 12
Author(s): Xiaoming Lyu, Xiaowei Zhu, Manli Zhao, Xianbo Zuo, Zhong-Xi Huang, Xiao Liu, Tao Jiang, Xu Yang, Xin Li, Xiaobing Long, Jianguo Wang, Jinbang Li, Mingyu Han, Shuang Wang, Tengfei Liu, Bo Zhang, Tao Sun, Zhi Cheng, Mo-Chang Qiu, Lei Dong, Liduan Zheng, Longcheng Zhang, Jiahong Wang, Gan-Guan Wei, Kangde Yao, Qian Wang, Hou-Feng Zheng
Software Mentions: 1
Published: about 8 years ago

10.1186/s40170-018-0177-4

Metabolic characterization of isocitrate dehydrogenase (IDH) mutant and IDH wildtype gliomaspheres uncovers cell type-specific vulnerabilities
Cited by: 51
Author(s): Matthew C. Garrett, Jantzen Sperry, Daniel Braas, Yan Wang, Thuc Le, Jack Mottahedeh, Kirsten Ludwig, Ascia Eskin, Yue Qin, Rachelle Levy, Joshua J. Breunig, Frank Pajonk, Thomas G. Graeber, Caius G. Radu, Heather R. Christofk, Robert M. Prins, Albert Lai, Linda M. Liau, Giovanni Coppola, Harley I. Kornblum
Software Mentions: 1
Published: over 8 years ago

10.1186/1755-8794-3-24

Examining smoking-induced differential gene expression changes in buccal mucosa
Cited by: 22
Author(s): Doris M. Kupfer, Vicky L. White, Marita C Jenkins, Dennis Burian
Software Mentions: 1
Published: about 16 years ago

10.1186/s40170-016-0152-x

Metabolic clusters of breast cancer in relation to gene- and protein expression subtypes
Cited by: 56
Author(s): Tonje Husby Haukaas, Leslie R. Euceda, Guro F. Giskeødegård, Santosh Lamichhane, Marit Krohn, Sandra Jernström, Miriam Ragle Aure, Ole Christian Lingjærde, Ellen Schlichting, Øystein Garred, Eldri Undlien Due, Gordon B. Mills, Kristine Kleivi Sahlberg, Anne‐Lise Børresen‐Dale, Tone Frost Bathen
Software Mentions: 1
Published: about 10 years ago

10.1186/s13021-014-0009-y

A wood density and aboveground biomass variability assessment using pre-felling inventory data in Costa Rica
Cited by: 5
Author(s): Sienna Svob, J. Pablo Arroyo‐Mora, Margaret Kalácska
Software Mentions: 1
Published: almost 12 years ago

10.1155/2012/858562

Cardiac Responses during Picture Viewing in Young Male Patients with Schizophrenia
Cited by: 3
Author(s): Roelie Hempel, Julian F. Thayer, Christian Röder, H.G. van Steenis, Nico J.M. van Beveren, Joke H.M. Tulen
Software Mentions: 1
Published: almost 14 years ago

10.1186/1476-7120-6-3

Exercise-induced intra-ventricular gradients as a frequent potential cause of myocardial ischemia in cardiac syndrome X patients
Cited by: 14
Author(s): Carlos Cotrim, Ana G. Almeida, Manuel Carrageta
Software Mentions: 1
Published: over 18 years ago

10.1186/1476-7120-11-26

Clinical applications of exercise stress echocardiography in the treadmill with upright evaluation during and after exercise
Cited by: 14
Author(s): Carlos Cotrim, Isabel João, Paula Fazendas, Ana Rita Almeida, Luís Rocha Lopes, Bruno Stuart, Inês Cruz, Daniel Caldeira, María José Loureiro, Gonçalo Morgado, Hélder Pereira
Software Mentions: 1
Published: about 13 years ago

10.1186/1476-7120-5-6

A new technique for assessing arterial pressure wave forms and central pressure with tissue Doppler
Cited by: 14
Author(s): Brian Haluska, Leanne Jeffriess, P. Mottram, Stéphane Carlier, Thomas H. Marwick
Software Mentions: 1
Published: over 19 years ago

10.1186/1755-8794-4-74

Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway
Cited by: 32
Author(s): Jean Luc C. Mougeot, Zhen Li, Andrea E. Price, Fred A. Wright, Benjamin Rix Brooks
Software Mentions: 1
Published: almost 15 years ago

10.1038/leu.2013.367

Excess congenital non-synonymous variation in leukemia-associated genes in MLL− infant leukemia: a Children’s Oncology Group report
Cited by: 33
Author(s): Mark C. Valentine, Amy M. Linabery, Sara E. Chasnoff, Andrew Hughes, Cates Mallaney, Nicolás Fuster Sánchez, Joseph Giacalone, Nyla A. Heerema, Joanne M. Hilden, Logan G. Spector, Julie A. Ross, Todd E. Druley
Software Mentions: 1
Published: almost 13 years ago

10.3390/life11060539

Origin of Life on Mars: Suitability and Opportunities
Cited by: 14
Author(s): B. C. Clark, Vera M. Kolb, A. Steele, Christopher H. House, N. Lanza, P. J. Gasda, S. J. VanBommel, H. E. Newsom, Jesús Martínez‐Frías
Software Mentions: 1
Published: over 5 years ago

10.1186/1755-8794-3-27

Effect of methylene blue on the genomic response to reperfusion injury induced by cardiac arrest and cardiopulmonary resuscitation in porcine brain
Cited by: 24
Author(s): Cécile Martijn, Lars Wiklund
Software Mentions: 1
Published: about 16 years ago

10.3390/life8040056

Catalytic/Protective Properties of Martian Minerals and Implications for Possible Origin of Life on Mars
Cited by: 31
Author(s): Teresa Fornaro, A. Steele, J. R. Brucato
Software Mentions: 1
Published: almost 8 years ago

10.3390/life11080863

Enhanced Expression of Thaumatin-like Protein Gene (LeTLP1) Endows Resistance to Trichoderma atroviride in Lentinula edodes
Cited by: 6
Author(s): Xiaolong Ma, Xiaolin Fan, Jinjie Wang, Ruiping Xu, Lianlian Yan, Yan Zhou, Yuhua Gong, Yang Xiao
Software Mentions: 1
Published: about 5 years ago

10.1186/1755-8794-2-55

Anti-oncogenic and pro-differentiation effects of clorgyline, a monoamine oxidase A inhibitor, on high grade prostate cancer cells
Cited by: 29
Author(s): Hongjuan Zhao, V. Flamand, Donna M. Peehl
Software Mentions: 1
Published: about 17 years ago

10.1186/1755-8794-1-37

An integrative genomic approach reveals coordinated expression of intronic miR-335, miR-342, and miR-561 with deregulated host genes in multiple myeloma
Cited by: 112
Author(s): Domenica Ronchetti, Marta Lionetti, Laura Mosca, Luca Agnelli, Adrian Andronache, Sonia Fabris, Giorgio Lambertenghi Deliliers, Antonino Neri
Software Mentions: 1
Published: about 18 years ago

10.26508/lsa.201800228

Mitochondrial acetyl-CoA reversibly regulates locus-specific histone acetylation and gene expression
Cited by: 30
Author(s): Oswaldo A. Lozoya, Tianyuan Wang, Dagoberto Grenet, Taylor C. Wolfgang, Mack Sobhany, Douglas Ganini da Silva, Gonzalo Riadi, Navdeep S. Chandel, Richard P. Woychik, Janine H. Santos
Software Mentions: 1
Published: over 7 years ago

Projects: cran: SAM

Science Score: 85/100

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Papers Mentioning SAM 4,566