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23 citation(s) found for "Xiao, Yan".

Charting Unique Signatures of Somatic Hypermutation Amongst Chronic Lymphocytic Leukemia Patients Expressing IGHV4-34 Clonotypic B Cell Receptors
Xochelli, Aliki , Kavakiotis, Ioannis , Kienle, Dirk, Davis, Zadie , Yan, Xiao‐Jie , Boudjogra, Myriam, Chatzouli, Maria, Pedersen, Lone Bredo , Facco, Monica , Moreno, Denis, Chu, Charles C. , Catherwood, Mark , Montillo, Marco , Geisler, Christian H., Pospı́šilová, Šárka , Lefranc, Marie‐Paule , Oscier, David , Jelinek, Diane F., Belessi, Chrysoula, Davi, Frédéric , Darzentas, Nikos , Sutton, Lesley‐Ann, Hadzidimitriou, Anastasia , Agathangelidis, Andreas , Shanafelt, Tait D. , Plevová, Karla , Veronese, Silvio , Giudicelli, Véronique , Panagiotidis, Panagiotis T. , Vlahavas, Ioannis P. , Anagnostopoulos, Αchilles , Maglaveras, Nicos , Trentin, Livio , Langerak, Anton W. , Chiorazzi, Nicholas , Stilgenbauer, Stephan , Ghia, Paolo , Rosenquist, Richard , Chouvarda, Ioanna , Σταματόπουλος, Κώστας

Blood | October 10, 2019 | Volume: 124 | Issue: 21 | Pages: 1969-1969

10.1182/blood.v124.21.1969.1969 Get It

Abstract The human IGHV4-34 gene encodes antibodies which are intrinsically autoreactive when the VH domain is unmutated. Therefore, B cells expressing IGHV4-34 B-cell receptor immunoglobulins (BcR IG) are normally under close scrutiny in order to avoid unwanted autoreactivity, especially against DNA. The IGHV4-34 gene is frequently utilized in chronic lymphocytic leukemia (CLL), where, typically, it shows a high load of somatic hypermutation (SHM). We have previously reported distinctive SHM patterns amongst IGHV4-34 CLL, especially for subsets with stereotyped BcR IG. However, although a large number of cases (~2000) was previously studied, since even the largest subsets account for only ~3% of CLL, meaningful conclusions could not be reached for smaller subsets. Here we revisit this issue in a series of 16,528 CLL cases and focus on IGHV4-34 expressing subsets: #4 (IGHV4-34/IGHD5-18/IGHJ6 | 156 cases, 0.9%); #11 (IGHV4-34/IGHD3-10/IGHJ4 | 16 cases, 0.1%); #16 (IGHV4-34/IGHD2-15/IGHJ6 | 41 cases, 0.25%); #29 (IGHV4-34/IGHD: unassignable/IGHJ3 | 39 cases, 0.24%); and #201 (IGHV4-34/IGHD: unassignable/IGHJ3 | 43 cases 0.26%). Focusing on codons 27-104 within the VH domain (from CDR1-IMGT to FR3-IMGT), we calculated the sequence distance between subsets and the corresponding IGHV4-34 germline sequence based on a pairwise qualitative and quantitative comparison of the respective amino acid composition. The minimum distance calculated, and hence the greatest identity, was observed between subsets #4 and #16, both concerning IgG-switched cases (IgG-CLL), which is notable given the overall rarity of IgG-CLL. In contrast, the maximum distance, implying the least identity, was between subsets #16 and #201, the latter concerning IgM/D-CLL. Extreme variations between subsets were noted in codons spanning the entire VH domain. This result is consistent with our finding of a subset-biased distribution of mutations over the VH domain. More specifically, while subsets #11, #16, #29 and #201 had a lower frequency of mutations within VH CDR1 compared to VH CDR2, the exact opposite was seen in subset #4, with 40% of mutations in VH CDR1 versus 27% in VH CDR2. In addition, subsets #4, #11, #16 and #29 had a similar distribution of mutations in VH FR2 and VH FR3, in contrast to subset #201 that showed a preference for VH FR3 over VH FR2. Consequently, we noted that certain positions were targeted in a subset-specific manner e.g. codon 28 in VH CDR1 was heavily targeted in subsets #4 (68.6%) and #16 (87.8%), with most cases carrying an acidic amino acid (AA) introduced by SHM, glycine to glutamic acid, G>E: 51.3% for subset #4 and 78% for subset #16. The high prevalence of acidic AA introduced by SHM in these subsets is notable considering the electropositive nature of their VH CDR3 (especially of subset #4), strongly recalling edited anti-DNA antibodies. Interestingly, the G>E change was identified at a much lower frequency in other IGHV4-34 subsets: 18.75% for subset #11; 2.6% for subset #29; 7% for subset #201, all of which carried electronegative VH CDR3. Further, we noted that certain positions were heavily targeted in all subsets e.g. 56-86% targeting for SHM at codon 92 in VH FR3 where serine is encoded by the agc triplet, the ”hottest of hotspots”. This result could be viewed as sequence- rather than subset-dependent and linked to the molecular features of this codon, which is supported by the low targeting of codon 93 (0-6%), also encoding serine by the tct triplet. Other positions were targeted in all subsets but at vastly different frequencies e.g. codon 64 was targeted in 37.8% in subset #4 rising to 100% in subset #29. Finally, positions heavily targeted by SHM in certain subsets were unmutated in other subsets e.g. codon 36 in VH CDR1 remained unmutated in subset #16, in contrast 76.9% of subset #29 were mutated at this position resulting in an AA change. In conclusion, we document different spectra of SHM and AA changes between stereotyped IGHV4-34 CLL subsets. The finding of subset-biased, recurrent AA changes at certain codons indicates that the respective progenitor cells may have responded in a specific manner to the selecting antigen(s), despite expressing the same IGHV gene, indicating a functional purpose for these modifications. This is exemplified by the molecular characteristics of the recurrent AA changes in subset #4, thereby offering interesting pathogenetic hints. Disclosures No relevant conflicts of interest to declare.
Human Factors in the Wild: SOLUTIONS for Mitigating the Negative Impact of Interruptions in Healthcare (Discussion Panel)
Xiao, Yan , Rivera, A. Joy, Probst, C. Adam, Blocker, Renaldo C., Wolf, Laurie , Kellogg, Kathryn M.

Proceedings of the Human Factors and Ergonomics Society Annual Meeting | September 28, 2017 | Volume: 61 | Issue: 1 | Pages: 630-634

10.1177/1541931213601642 Get It

This discussion panel will focus on solutions for mitigating the negative impact of interruptions in healthcare. Five human factors practitioners who work within healthcare systems will present solutions of mitigating the negative impact of interruptions on safety and quality with the acknowledgement that interruptions in and of themselves should not be viewed as purely negative (i.e. some interruptions are not only necessary but beneficial to patient care). Additionally, one panelist will focus on the difficulties in bridging the gap between research and practice in this arena. The session will lead to an interactive discussion about how human factors methods can be adapted and applied to identify and develop realistic, impactful solutions that improve safety by eliminating the negative impact of interruptions in applied healthcare settings.
Chronic Lymphocytic Leukemia with Mutated IGHV4-34 Receptors: Shared and Distinct Immunogenetic Features and Clinical Outcomes
Xochelli, Aliki , Kavakiotis, Ioannis , Agathangelidis, Andreas , Sutton, Lesley-Ann, Minga, Eva, Ntoufa, Stavroula , Tausch, Eugen , Yan, Xiao‐Jie , Plevová, Karla , Boudjogra, Myriam, Rossi, Davide , Davis, Zadie , Navarro, Alba , Sandberg, Yorick , Vojdeman, Fie Juhl , Scarfò, Lydia , Stavroyianni, Niki, Sudarikov, Andrey , Τζένου, Τατιάνα , Karan-Djurašević, Teodora , Catherwood, Mark , Kienle, Dirk, Chatzouli, Maria, Facco, Monica , Bahlo, Jasmin, Pott, Christiane , Pedersen, Lone Bredo , Mansouri, Larry, Smedby, Karin E. , Chu, Charles C. , Giudicelli, Véronique , Lefranc, Marie‐Paule , Juliusson, Gunnar , Anagnostopoulos, Αchilles , Antić, Darko , Trentin, Livio , Montillo, Marco , Niemann, Carsten Utoft , Pospı́šilová, Šárka , Hallek, Michael , Maglaveras, Nikos, Oscier, David , Gaïdano, Gianluca , Jelinek, Diane F., Chouvarda, Ioanna , Darzentas, Nikos , Belessi, Chrysoula, Davi, Frédéric , Hadzidimitriou, Anastasia , Rosenquist, Richard , Ghia, Paolo , Σταματόπουλος, Κώστας , Maglaveras, Nicos , Baliakas, Panagiotis , Sutton, Lesley‐Ann, Shanafelt, Tait D. , Veronese, Silvio , Panagiotidis, Panagiotis T. , Vlahavas, Ioannis P. , Döhner, Hartmut , Langerak, Anton W. , Campo, Elı́as , Chiorazzi, Nicholas , Stilgenbauer, Stephan , Gaidano, Gianluca , Ghia, Paolo , Rosenquist, Richard

Clinical Cancer Research | May 23, 2017 | Volume: 23 | Issue: 17 | Pages: 5292-5301

10.1158/1078-0432.ccr-16-3100 | PMID 28536306 Get It

Abstract Purpose: We sought to investigate whether B cell receptor immunoglobulin (BcR IG) stereotypy is associated with particular clinicobiological features among chronic lymphocytic leukemia (CLL) patients expressing mutated BcR IG (M-CLL) encoded by the IGHV4-34 gene, and also ascertain whether these associations could refine prognostication. Experimental Design: In a series of 19,907 CLL cases with available immunogenetic information, we identified 339 IGHV4-34–expressing cases assigned to one of the four largest stereotyped M-CLL subsets, namely subsets #4, #16, #29 and #201, and investigated in detail their clinicobiological characteristics and disease outcomes. Results: We identified shared and subset-specific patterns of somatic hypermutation (SHM) among patients assigned to these subsets. The greatest similarity was observed between subsets #4 and #16, both including IgG-switched cases (IgG-CLL). In contrast, the least similarity was detected between subsets #16 and #201, the latter concerning IgM/D-expressing CLL. Significant differences between subsets also involved disease stage at diagnosis and the presence of specific genomic aberrations. IgG subsets #4 and #16 emerged as particularly indolent with a significantly (P < 0.05) longer time-to-first-treatment (TTFT; median TTFT: not yet reached) compared with the IgM/D subsets #29 and #201 (median TTFT: 11 and 12 years, respectively). Conclusions: Our findings support the notion that BcR IG stereotypy further refines prognostication in CLL, superseding the immunogenetic distinction based solely on SHM load. In addition, the observed distinct genetic aberration landscapes and clinical heterogeneity suggest that not all M-CLL cases are equal, prompting further research into the underlying biological background with the ultimate aim of tailored patient management. Clin Cancer Res; 23(17); 5292–301. ©2017 AACR.
Disruption ofpdgfraalters endocardial and myocardial fusion during zebrafish cardiac assembly
El‐Rass, Suzan , Eisa-Beygi, Shahram, Khong, Edbert, Brand‐Arzamendi, Koroboshka, Mauro, Antonio , Clark, Karl J. , Ekker, Stephen C. , Wen, Xiao‐Yan , Wen, Xiao-Yan , Zhang, Haibo , Ekker, Stephen C , Clark, Karl J

Biology Open | February 7, 2017 | Volume: No volume available | Issue: No issue available | Pages: No page available

10.1242/bio.021212 | PMID 28167492 Get It

Cardiac development in vertebrates is a finely tuned process regulated by a set of conserved signaling pathways. Perturbations of these processes are often associated with congenital cardiac malformations. Platelet-derived growth factor receptor α (PDGFRα) is a highly conserved tyrosine kinase receptor, which is essential for development and organogenesis. Disruption of Pdgfrα function in murine models are embryonic lethal due to severe cardiovascular defects, suggesting a role in cardiac development, thus necessitating the use of alternative models to explore its precise function. In this study, we generated a zebrafish pdgfra mutant line by gene trapping, in which the Pdgfra protein is truncated and fused with mRFP (Pdgfra-mRFP). Our results demonstrate that pdgfra mutants have defects in cardiac morphology as a result of abnormal fusion of myocardial precursors. Expression analysis of the developing heart at later stages suggested that Pdgfra-mRFP is expressed in the endocardium. Further examination of the endocardium in pdgfra mutants revealed defective endocardial migration to the midline, where cardiac fusion eventually occurs. Together, our data suggests that pdgfra is required for proper medial migration of both endocardial and myocardial precursors, an essential step required for cardiac assembly and development.
Not all IGHV3-21 chronic lymphocytic leukemias are equal: prognostic considerations
Agathangelidis, Andreas , Hadzidimitriou, Anastasia , Sutton, Lesley-Ann, Minga, Eva, Scarfò, Lydia , Davis, Zadie , Yan, Xiao‐Jie , Plevová, Karla , Sandberg, Yorick , Vojdeman, Fie Juhl , Boudjogra, Myriam, Τζένου, Τατιάνα , Chatzouli, Maria, Chu, Charles C. , Veronese, Silvio , Gardiner, Anne, Mansouri, Larry, Smedby, Karin E. , Pedersen, Lone Bredo , Moreno, Denis, Lom, Kirsten van, Giudicelli, Véronique , Francová, Hana Skuhrová, Nguyen‐Khac, Florence , Juliusson, Gunnar , Anagnostopoulos, Αchilles , Lefranc, Marie‐Paule , Facco, Monica , Trentin, Livio , Catherwood, Mark , Montillo, Marco , Geisler, Christian H., Pospı́šilová, Šárka , Oscier, David , Jelinek, Diane F., Darzentas, Nikos , Belessi, Chrysoula, Davi, Frédéric , Ghia, Paolo , Rosenquist, Richard , Σταματόπουλος, Κώστας , Baliakas, Panagiotis , Tsanousa, Athina , Shanafelt, Tait D. , Panagiotidis, Panagiotis T. , Angelis, Lefteris , Langerak, Anton W. , Chiorazzi, Nicholas , Ghia, Paolo , Rosenquist, Richard

Blood | January 29, 2015 | Volume: 125 | Issue: 5 | Pages: 856-859

10.1182/blood-2014-09-600874 | PMID 25634617 Get It

Key Points CLL stereotyped subset #2 (IGHV3-21/IGLV3-21) is uniformly aggressive independently of somatic hypermutation status. The prognosis for non–subset #2/IGHV3-21 CLL resembles that of the remaining CLL cases with similar somatic hypermutation status.
Team Consistency and Occurrences of Prolonged Operative Time, Prolonged Hospital Stay, and Hospital Readmission: A Retrospective Analysis
Xiao, Yan , Mabrey, Jay D., Kennerly, Donald A., Jones, Alan Wayne , Zhang, Beilei , Bennett, Monica , Mears, Simon C.

World Journal of Surgery | December 3, 2014 | Volume: 39 | Issue: 4 | Pages: 890-896

10.1007/s00268-014-2866-7 | PMID 25472890 Get It

AbstractBackgroundHuman factors research has suggested benefits of consistent teams yet no surgical team consistency measures have been established for teamwork improvement initiatives.MethodsRetrospective analysis was conducted of teams performing consecutive elective procedures of unilateral primary total knee and hip replacement between June 2008 and May 2010 at a large tertiary medical center. Surgeons who performed fewer than 50 cases of the procedures during the study period were excluded. A team was defined as consistent when its nurse and surgical technologist members were both among the three most frequent working with the surgeon during the study period. Odds ratios for prolonged operative time (in the longest quartile), prolonged hospital stay (longer than median), and 30‐day all‐cause readmissions were adjusted for patient characteristics (sex, age, comorbidity, American Society of Anesthesiology status), surgery characteristics (procedures, time of day), and surgeons.ResultsInconsistent teams performed 61 % of the 1,923 cases with eight surgeons, each of which worked with a median of 43.5 (range, 28–58) nurses and 29 (range, 13–47) technologists. Inconsistent teams were associated with higher likelihood of prolonged operative time [odds ratio 1.52, 95 % confidence interval (CI) 1.20–1.91], higher likelihood of prolonged hospital stay (odds ratio 1.51, 95 % CI 1.23–1.86), and more readmissions (adjusted odds ratio 1.42, 95 % CI 1.07–1.89).ConclusionsTeam consistency was an independent predictor of prolonged operative time, prolonged hospital stay, and 30‐day hospital readmission in elective, primary, unilateral total knee, and hip replacement procedures, after adjusting for patient and surgery characteristics and surgeons.
Building High Performance Surgical Teams
Xiao, Yan , Blocker, Renaldo C., Hallbeck, M. Susan , Parker, Sarah

Proceedings of the Human Factors and Ergonomics Society Annual Meeting | October 18, 2014 | Volume: 58 | Issue: 1 | Pages: 748-752

10.1177/1541931214581136 Get It

Surgical team members are typically defined by professional roles. In many surgical teams, membership changes as staffing decisions are subject to considerations other than keeping surgical teams consistent. These considerations may include staffing patterns on the day of surgery and at the time of a surgical case. Teamwork skill training and safety culture have been emphasized, although much is known about the contribution to team performance from team consistency. We review the literature on cognitive and psychosocial benefits of consistent surgical teams. Although empirical evidence base for consistent surgical teams is lacking, we believe that the theoretical justifications may lay the groundwork for future research on the impact of deliberate staffing decisions by organizations, to complement the current emphasis on individual teamwork knowledge, skills and attitude. We also outline some of barriers based on our experience in our respective healthcare organizations.
Abstract C41: Chc1L is a tumor suppressor involved in development of histiocyte-rich neoplasms
Spillane, David, Wang, Ding Yan, Wang, Youdong , Stewart, Keith, Newbigging, Susan, Shi, Chang-Xin , Gramolini, Anthony O. , Liu, Mingyao , Wen, Xiao‐Yan

Cancer Research | August 14, 2014 | Volume: 73 | Issue: 19_Supplement | Pages: C41-C41

10.1158/1538-7445.fbcr13-c41 Get It

Abstract Human chromosome 13q14 is one of the hotspots of chromosomal deletion in prostate cancer, multiple myeloma, and chronic lymphocytic leukemia. Chromosome Condensation 1-like (CHC1L) is an uncharacterized gene in this region. CHC1L is found within the smallest common region of loss of heterozygosity in prostate cancer, and its decreased expression is linked to pathogenesis and progression of both prostate cancer and multiple myeloma. In the present study, we describe the generation and characterization of Chc1L gene knockout mice. Knockout mice develop normally and display an exaggerated proliferative response to LPS stimulation of cultured bone marrow and spleen cells at ten weeks of age. At approximately two years of age, both homozygous and heterozygous mice have markedly increased incidence of tumorigenesis, 80% and 56% respectively, compared to wild-type mice, 26%. The tumors are distributed most commonly to the spleen, mesenteric lymph nodes, liver and small intestine. The morphologic and immunophenotypic features of the tumor cells are consistent with those of tissue histiocytes, and most Chc1L knockout and heterozygote mice succumb to either Histiocytic Sarcoma or Histiocyte-Associated Lymphoma. These data provide the first direct evidence that Chc1L is a tumor suppressor gene involved in suppression of histiocyte-rich neoplasms. Citation Format: David Spillane, Ding Yan Wang, Changxin Shi, Youdong Wang, Anthony Gramolini, Keith Stewart, Susan Newbigging, Mingyao Liu, Xiao-Yan Wen. Chc1L is a tumor suppressor involved in development of histiocyte-rich neoplasms. [abstract]. In: Proceedings of the Third AACR International Conference on Frontiers in Basic Cancer Research; Sep 18-22, 2013; National Harbor, MD. Philadelphia (PA): AACR; Cancer Res 2013;73(19 Suppl):Abstract nr C41.
Human Factors in the Wild
Abts, Natalie, Wolf, Laurie , Hallbeck, M. Susan , Taneva, Svetlena, Chagpar, Anjum, Probst, C. Adam, Xiao, Yan , Hallbeck, M Susan

Proceedings of the Human Factors and Ergonomics Society Annual Meeting | September 30, 2013 | Volume: 57 | Issue: 1 | Pages: 1057-1060

10.1177/1541931213571235 Get It

This session will focus on lessons learned when developing solutions for real world problems in healthcare. Human factors (HF) practitioners bring unique knowledge, methods, and perspectives to work with clinicians to address numerous defects in the worksystem but require problem-solving skills that focus on solutions. The HF contribution may be in the area of process improvement (e.g., prevention of patient falls), systems design (e.g., designing crashcart), or identification of design flaws so robust intervention may be deployed (e.g., glucose meters). Six human factors practitioners who work within healthcare systems will present real world challenges which were discovered by HF methods, or which have heavy HF implications, but where direct HF influence on design lead to the ultimate effective solution. The session will be designed to lead to a discussion about how HF methods were adapted to individual problems at hand and to focus on developing solutions.