Items where Author is "Ho, Joshua W K"

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Number of items: 38.

Article

Giannoulatou, Eleni and Ho, Joshua W K and Hadinata, Clinton and Ip, Eddie K K and Valencia, Alfonso (2020) dv-trio: a family-based variant calling pipeline using DeepVariant. Bioinformatics. ISSN 1367-4803

Farbehi, Nona and Patrick, Ralph and Dorison, Aude and Xaymardan, Munira and Janbandhu, Vaibhao and Wystub-Lis, Katharina and Ho, Joshua W K and Nordon, Robert E and Harvey, Richard P (2019) Single-cell expression profiling reveals dynamic flux of cardiac stromal, vascular and immune cells in health and injury. eLife, 8 (epub). ISSN 2050-084X

Djordjevic, Djordje and Cawood, Beni K. and Rispin, Sabrina K. and Shah, Anushi and Yim, Leo H. H. and Hayward, Christopher S and Ho, Joshua W K (2019) CardiacProfileR: an R package for extraction and visualisation of heart rate profiles from wearable fitness trackers. Biophysical Reviews, ePub. ISSN 1867-2450 (Not OA)

Wang, Qing and Wang, Kaicen and Wu, Wenrui and Giannoulatou, Eleni and Ho, Joshua W K and Li, Lanjuan (2019) Host and microbiome multi-omics integration: applications and methodologies. Biophysical Reviews. ISSN 1867-2450 (Not OA)

Humphreys, David T and Fossat, Nicolas and Demuth, Madeleine and Tam, Patrick P L and Ho, Joshua W K (2019) Ularcirc: visualization and enhanced analysis of circular RNAs via back and canonical forward splicing. Nucleic Acids Research. ISSN 0305-1048

Kabir, Md Humayun and Patrick, Ralph and Ho, Joshua W K and O’Connor, Michael D (2018) Identification of active signaling pathways by integrating gene expression and protein interaction data. BMC Systems Biology, 12 (S9). pp.77-87. ISSN 1752-0509 (Gold OA)

Alankarage, Dimuthu and Ip, Eddie and Szot, Justin O and Munro, Jacob and Blue, Gillian M and Harrison, Katrina and Cuny, Hartmut and Enriquez, Annabelle and Troup, Michael and Humphreys, David T and Wilson, Meredith and Harvey, Richard P and Sholler, Gary F and Graham, Robert M and Ho, Joshua W K and Kirk, Edwin P and Pachter, Nicholas and Chapman, Gavin and Winlaw, David S and Giannoulatou, Eleni and Dunwoodie, Sally L (2018) Identification of clinically actionable variants from genome sequencing of families with congenital heart disease. Genetics in Medicine, ePub. ISSN 1098-3600 (Not OA)

Lipskind, Shane and Lindsey, Jennifer S and Gerami-Naini, Behzad and Eaton, Jennifer L and O’Connell, Daniel and Kiezun, Adam and Ho, Joshua W K and Ng, Nicholas and Parasar, Parveen and Ng, Michelle and Nickerson, Michael and Demirci, Utkan and Maas, Richard and Anchan, Raymond M (2018) An Embryonic and Induced Pluripotent Stem Cell Model for Ovarian Granulosa Cell Development and Steroidogenesis. Reproductive Sciences, 25 (5). pp.712-726. ISSN 1933-7191 (Not OA)

Szot, Justin O and Cuny, Hartmut and Blue, Gillian M and Humphreys, David T and Ip, Eddie and Harrison, Katrina and Sholler, Gary F and Giannoulatou, Eleni and Leo, Paul J and Duncan, Emma L and Sparrow, Duncan B and Ho, Joshua W K and Graham, Robert M and Pachter, Nicholas S and Chapman, Gavin and Winlaw, David S and Dunwoodie, Sally L (2018) A Screening Approach to Identify Clinically Actionable Variants Causing Congenital Heart Disease in Exome Data. Circulation: Genomic and Precision Medicine, 11 (3). pp. e001978. ISSN (Not OA)

Nie, Shuai and Wang, Xin and Sivakumaran, Priyadharshini and Chong, Mark M. W. and Liu, Xin and Karnezis, Tara and Bandara, Nadeeka and Takov, Kaloyan and Nowell, Cameron J. and Wilcox, Stephen and Shambrook, Mitch and Hill, Andrew F. and Harris, Nicole C. and Newcomb, Andrew E. and Strappe, Padraig and Shayan, Ramin and Hernández, Damián and Clarke, Jordan and Hanssen, Eric and Davidson, Sean M. and Dusting, Gregory J and Pébay, Alice and Ho, Joshua W K and Williamson, Nicholas and Lim, Shiang Y (2018) Biologically active constituents of the secretome of human W8B2+ cardiac stem cells. Scientific Reports, 8 (1). p. 1579. ISSN 2045-2322 (PMC OA)

Wang, Xin and Lin, Peijie and Ho, Joshua W K (2018) Discovery of cell-type specific DNA motif grammar in cis-regulatory elements using random Forest. BMC Genomics, 19 (S1). pp.153-160. ISSN 1471-2164 (OA)

Palade, Joanna and Djordjevic, Djordje and Hutchins, Elizabeth D and George, Rajani M and Cornelius, John A and Rawls, Alan and Ho, Joshua W K and Kusumi, Kenro and Wilson-Rawls, Jeanne (2018) Identification of satellite cells from anole lizard skeletal muscle and demonstration of expanded musculoskeletal potential. Developmental Biology, 433 (2). pp.344-356. ISSN 00121606 (Not OA)

Murphy, Patricia and Kabir, Md Humayun and Srivastava, Tarini and Mason, Michele E. and Dewi, Chitra U. and Lim, Seakcheng and Yang, Andrian and Djordjevic, Djordje and Killingsworth, Murray C and Ho, Joshua W K and Harman, David G and O'Connor, Michael D (2018) Light-focusing human micro-lenses generated from pluripotent stem cells model lens development and drug-induced cataract in vitro. Development, 145 (1). pp.1-12. ISSN 0950-1991 (OA)

Kakrana, Atul and Yang, Andrian and Anand, Deepti and Djordjevic, Djordje and Ramachandruni, Deepti and Singh, Abhyudai and Huang, Hongzhan and Ho, Joshua W K and Lachke, Salil A (2018) iSyTE 2.0: a database for expression-based gene discovery in the eye. Nucleic Acids Research, 46. pp. D875-D885. ISSN 0305-1048 (OA)

Eaton, Sally A and Aiken, Alastair and Young, Paul E and Ho, Joshua W K and Cropley, Jennifer E and Suter, Catherine M (2018) Maternal obesity heritably perturbs offspring metabolism for three generations without serial programming. International Journal of Obesity, 42. pp.911-914. ISSN 0307-0565 (PP OA)

Rizzetto, Simone and Eltahla, Auda A. and Lin, Peijie and Bull, Rowena and Lloyd, Andrew R and Ho, Joshua W K and Venturi, Vanessa and Luciani, Fabio (2017) Impact of sequencing depth and read length on single cell RNA sequencing data of T cells. Scientific Reports, 7 (1). ISSN 2045-2322 (OA)

Shi, Hongjun and Enriquez, Annabelle and Rapadas, Melissa and Martin, Ella M M A and Wang, Roni and Moreau, Julie and Lim, Chai K and Szot, Justin O and Ip, Eddie and Hughes, James N and Sugimoto, Kotaro and Humphreys, David T and McInerney-Leo, Aideen M and Leo, Paul J and Maghzal, Ghassan J and Halliday, Jake and Smith, Janine and Colley, Alison and Mark, Paul R and Collins, Felicity and Sillence, David O and Winlaw, David S and Ho, Joshua W K and Guillemin, Gilles J and Brown, Matthew A and Kikuchi, Kazu and Thomas, Paul Q and Stocker, Roland and Giannoulatou, Eleni and Chapman, Gavin and Duncan, Emma L and Sparrow, Duncan B and Dunwoodie, Sally L (2017) NAD Deficiency, Congenital Malformations, and Niacin Supplementation. The New England Journal of Medicine, 377 (6). pp.544-552. ISSN 1533-4406 (OA)

Ho, Joshua W K and Grant, Guy H (2017) Modelling, inference and big data in biophysics. Biophysical Reviews, 9 (4). pp.297-298. ISSN 1867-2450 (N/A)

Yang, Andrian and Troup, Michael and Ho, Joshua W K (2017) Scalability and Validation of Big Data Bioinformatics Software. Computational and Structural Biotechnology Journal, 15. pp.379-386. ISSN 2001-0370 (PMC OA)

Yang, Pengyi and Oldfield, Andrew and Kim, Taiyun and Yang, Andrian and Yee Hwa Yang, Jean and Ho, Joshua W K (2017) Integrative analysis identifies co-dependent gene expression regulation of BRG1 and CHD7 at distal regulatory sites in embryonic stem cells. Bioinformatics, 33 (13). pp.1916-1920. ISSN 1367-4811 (PP OA)

Szot, Peter S and Yang, Andrian and Wang, Xin and Parsania, Chirag and Röhm, Uwe and Wong, Koon Ho and Ho, Joshua W K (2017) PBrowse: a web-based platform for real-time collaborative exploration of genomic data. Nucleic Acids Research, 45 (9). pp. e67. ISSN 1362-4962 (OA)

Lin, Peijie and Troup, Michael and Ho, Joshua W K (2017) CIDR: Ultrafast and accurate clustering through imputation for single-cell RNA-seq data. Genome Biology, 18 (1). p. 59. ISSN 1474-760X (Gold OA)

Yang, Andrian and Troup, Michael and Lin, Peijie and Ho, Joshua W K (2017) Falco: a quick and flexible single-cell RNA-seq processing framework on the cloud. Bioinformatics, 33 (5). pp.767-769. ISSN 1367-4811 (PP OA)

Djordjevic, Djordje and Kusumi, Kenro and Ho, Joshua W K (2016) XGSA: A statistical method for cross-species gene set analysis. Bioinformatics, 32 (17). pp. i620-i628. ISSN 1367-4811 (OA)

Cropley, Jennifer E and Eaton, Sally A and Aiken, Alastair and Young, Paul E and Giannoulatou, Eleni and Ho, Joshua W K and Buckland, Michael E and Keam, Simon P and Hutvagner, Gyorgy and Humphreys, David T and Langley, Katherine G and Henstridge, Darren C and Martin, David I K and Febbraio, Mark A and Suter, Catherine M (2016) Male-lineage transmission of an acquired metabolic phenotype induced by grand-paternal obesity. Molecular Metabolism, 5 (8). pp.699-708. ISSN 2212-8778 (OA)

Troup, Michael and Yang, Andrian and Kamali, Amir Hossein and Giannoulatou, Eleni and Chen, Tsong Yueh and Ho, Joshua W K (2016) A cloud-based framework for applying metamorphic testing to a bioinformatics pipeline. Proceedings of the First International Workshop on Metamorphic Testing (PP OA). pp.33-36.

Wang, X and McCormick, H and Djordjevic, Djordje and Giannoulatou, Eleni and Suter, Catherine M and Ho, Joshua W K (2016) Epigenomic analysis of chromatin organization and DNA methylation. Computational Biology and Bioinformatics: Gene Regulation, BOOK. ISSN 9781498724975 - CAT# K25752 (Book chapter - OA not required)

Giannoulatou, Eleni and Kamali, Amir Hossein and Yang, Andrian and Chen, Tsong Yueh and Ho, Joshua W K (2016) Quality assurance in genome-scale bioinformatics analyses (Book Chapter). Computational Biology & Bioinformatics: Gene Regulation, BOOK. ISSN 9781498724975 - CAT# K25752 (Book Chapter)

Al-Zyoud, Walid A and Hynson, Robert M G and Ganuelas, Lorraine A and Coster, Adelle C F and Duff, Anthony P and Baker, Matthew A B and Stewart, Alastair G and Giannoulatou, Eleni and Ho, Joshua W K and Gaus, Katharina and Liu, Dali and Lee, Lawrence K and Böcking, Till (2016) Binding of transcription factor GabR to DNA requires recognition of DNA shape at a location distinct from its cognate binding site. Nucleic Acids Research, 44 (3). pp.1411-20. ISSN 1362-4962 (PMC OA)

Zhang, Ying and Fan, Jieqing and Ho, Joshua W K and Hu, Tommy and Kneeland, Stephen C and Fan, Xueping and Xi, Qiongchao and Sellarole, Michael A and de Vries, Wilhelmine N and Lu, Weining and Lachke, Salil A and Lang, Richard A and John, Simon W M and Maas, Richard L (2016) Crim1 regulates integrin signaling in murine lens development. Development, 143. pp.356-366. ISSN 1477-9129 (OA)

Kamali, Amir Hossein and Giannoulatou, Eleni and Chen, Tsong Yueh and Charleston, Michael A. and McEwan, Alistair L. and Ho, Joshua W K (2015) How to test bioinformatics software? Biophysical Reviews, 7 (3). pp.343-352. ISSN 1867-2450 (PP OA)

Sohn, Kyung-Ah and Ho, Joshua W K and Djordjevic, Djordje and Jeong, Hyun-Hwan and Park, Peter J and Kim, Ju Han (2015) hiHMM: Bayesian non-parametric joint inference of chromatin state maps. Bioinformatics, 31 (13). pp.2066-74. ISSN 1367-4811 (OA)

Anchan, Raymond and Gerami-Naini, Behzad and Lindsey, Jennifer S and Ho, Joshua W K and Kiezun, Adam and Lipskind, Shane and Ng, Nicholas and LiCausi, Joseph A and Kim, Chloe S and Brezina, Paul and Tuschl, Thomas and Maas, Richard and Kearns, William G and Williams, Zev (2015) Efficient differentiation of steroidogenic and germ-like cells from epigenetically-related iPSCs derived from ovarian granulosa cells. PloS One, 10 (3). pp. e0119275. ISSN 1932-6203 (Gold OA)

Djordjevic, Djordje and Deshpande, Vinita and Szczesnik, Tomasz and Yang, Andrian and Humphreys, David T and Giannoulatou, Eleni and Ho, Joshua W K (2015) Decoding the complex genetic causes of heart diseases using systems biology. Biophys Rev, 7. pp.141-159. ISSN (PP OA)

Blue, Gillian M and Kirk, Edwin P and Giannoulatou, Eleni and Dunwoodie, Sally L and Ho, Joshua W K and Hilton, Desiree C K and White, Susan M and Sholler, Gary F and Harvey, Richard P and Winlaw, David S (2014) Targeted next-generation sequencing identifies pathogenic variants in familial congenital heart disease. Journal of the American College of Cardiology, 64 (23). pp.2498-506. ISSN 1558-3597 (OA)

Ho, Joshua W K and Jung, Youngsook L and Liu, Tao and Alver, Burak H and Lee, Soohyun and Ikegami, Kohta and Sohn, Kyung-Ah and Minoda, Aki and Tolstorukov, Michael Y and Appert, Alex and Parker, Stephen C J and Gu, Tingting and Kundaje, Anshul and Riddle, Nicole C and Bishop, Eric and Egelhofer, Thea A and Hu, Sheng'en Shawn and Alekseyenko, Artyom A and Rechtsteiner, Andreas and Asker, Dalal and Belsky, Jason A and Bowman, Sarah K and Chen, Q Brent and Chen, Ron A-J and Day, Daniel S and Dong, Yan and Dose, Andrea C and Duan, Xikun and Epstein, Charles B and Ercan, Sevinc and Feingold, Elise A and Ferrari, Francesco and Garrigues, Jacob M and Gehlenborg, Nils and Good, Peter J and Haseley, Psalm and He, Daniel and Herrmann, Moritz and Hoffman, Michael M and Jeffers, Tess E and Kharchenko, Peter V and Kolasinska-Zwierz, Paulina and Kotwaliwale, Chitra V and Kumar, Nischay and Langley, Sasha A and Larschan, Erica N and Latorre, Isabel and Libbrecht, Maxwell W and Lin, Xueqiu and Park, Richard and Pazin, Michael J and Pham, Hoang N and Plachetka, Annette and Qin, Bo and Schwartz, Yuri B and Shoresh, Noam and Stempor, Przemyslaw and Vielle, Anne and Wang, Chengyang and Whittle, Christina M and Xue, Huiling and Kingston, Robert E and Kim, Ju Han and Bernstein, Bradley E and Dernburg, Abby F and Pirrotta, Vincenzo and Kuroda, Mitzi I and Noble, William S and Tullius, Thomas D and Kellis, Manolis and MacAlpine, David M and Strome, Susan and Elgin, Sarah C R and Liu, Xiaole Shirley and Lieb, Jason D and Ahringer, Julie and Karpen, Gary H and Park, Peter J (2014) Comparative analysis of metazoan chromatin organization. Nature, 512 (7515). pp.449-52. ISSN 1476-4687 (OA)

Djordjevic, Djordje and Yang, Andrian and Zadoorian, Armella and Rungrugeecharoen, Kevin and Ho, Joshua W K (2014) How difficult is inference of mammalian causal gene regulatory networks? PloS One, 9 (11). pp. e111661. ISSN 1932-6203 (OA)

Giannoulatou, Eleni and Park, Shin-Ho and Humphreys, David T and Ho, Joshua W K (2014) Verification and validation of bioinformatics software without a gold standard: a case study of BWA and Bowtie. BMC Bioinformatics, 15 Sup. pp. S15. ISSN 1471-2105 (PMC OA)

This list was generated on Sun Mar 3 06:59:17 2024 AEDT.