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  • 1
    In: Science, American Association for the Advancement of Science (AAAS), Vol. 330, No. 6012 ( 2010-12-24), p. 1775-1787
    Abstract: We systematically generated large-scale data sets to improve genome annotation for the nematode Caenorhabditis elegans , a key model organism. These data sets include transcriptome profiling across a developmental time course, genome-wide identification of transcription factor–binding sites, and maps of chromatin organization. From this, we created more complete and accurate gene models, including alternative splice forms and candidate noncoding RNAs. We constructed hierarchical networks of transcription factor–binding and microRNA interactions and discovered chromosomal locations bound by an unusually large number of transcription factors. Different patterns of chromatin composition and histone modification were revealed between chromosome arms and centers, with similarly prominent differences between autosomes and the X chromosome. Integrating data types, we built statistical models relating chromatin, transcription factor binding, and gene expression. Overall, our analyses ascribed putative functions to most of the conserved genome.
    Type of Medium: Online Resource
    ISSN: 0036-8075 , 1095-9203
    RVK:
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    Language: English
    Publisher: American Association for the Advancement of Science (AAAS)
    Publication Date: 2010
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  • 2
    In: Foot & Ankle Orthopaedics, SAGE Publications, Vol. 5, No. 4 ( 2020-10-01), p. 2473011420S0013-
    Abstract: Ankle Arthritis Introduction/Purpose: One of the proposed benefits of total ankle replacement (TAR), when compared to ankle fusion is the restoration of the functional range of motion (ROM) of the ankle. Preservation of ankle motion may improve quality of life as evidenced by patient-reported outcome measures (PROMs). However, some studies have shown a lack of improvement of ankle range of motion after the postoperative recovery period, despite satisfactory motion being observed intra-operatively. The objective of this study was to radiographically compare intraoperative and pre-operative ankle range of motion. Methods: This single-center retrospective study compared 56 patients with an average age of 62.27 years who underwent primary TAR with one of four different implants between March and December 2019. 48% of patients had post-traumatic arthritis secondary to an ankle fracture, 50% had post-traumatic arthritis secondary to instability. Seventy-two percent of patients had an associated Achilles lengthening, 16% had an associated lateral ligament reconstruction procedure. Standardized weight-bearing maximum dorsiflexion and plantarflexion sagittal radiographs were obtained pre-operatively. In order to record intraoperative fluoroscopic imaging, the primary surgeon passively placed the ankle into maximum dorsiflexion and plantarflexion. Intraoperatively, the neutral lateral position of the ankle was determined after the replacement when the talus was in perfect lateral view. All angular measurements were made using the PACS system (Picture Archiving and Communication System). The change in range of motion was analyzed using a paired t-test with a significance level of 0.05. Results: The intraoperative range of motion increased significantly for all measures when compared to the pre-operative range of motion. The average pre-operative global arc of motion significantly increased from 20.21 degrees to 38.49 degrees intra- operatively (p=2.45x10-18, t(55)=2.00). The average pre-operative plantar flexion significantly increased from 12.80 degrees to 25.50 degrees intra-operatively (p=2.56x10-15, t(55)=2.00). The average pre-operative dorsiflexion significantly increased from 7.28 degrees to 13.35 degrees intra-operatively (p=4.68x10-6 t(55)=2.00). Patients who had an Achilles lengthening had an average increase in the global arc of motion of 18.78 degrees; patients who did not have an Achilles lengthening had an average increase of 17.02 degrees (p=0.562, t(31)=2.04). Overall, 93% of patients increased their range of motion after their total ankle replacement. Conclusion: This study demonstrates notable improvement in ankle range of motion intraoperatively following total ankle replacement, especially in plantarflexion. Total Ankle Replacement provides an improvement in the functional range of motion of the ankle intraoperatively, suggesting that the loss of motion observed in previous studies may occur during the postoperative period. The present study may help inform and adjust the postoperative rehabilitation protocol after total ankle replacement in order to avoid losing the amplitude of motion gained during the operation.
    Type of Medium: Online Resource
    ISSN: 2473-0114 , 2473-0114
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2020
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  • 3
    In: Foot & Ankle International, SAGE Publications, Vol. 42, No. 11 ( 2021-11), p. 1454-1462
    Abstract: The Lapidus procedure and scarf osteotomy are indicated for the operative treatment of hallux valgus; however, no prior studies have compared outcomes between the procedures. The aim of this study was to compare clinical and radiographic outcomes between patients with symptomatic hallux valgus treated with the modified Lapidus procedure versus scarf osteotomy. Methods: This retrospective cohort study included patients treated by 1 of 7 fellowship-trained foot and ankle surgeons. Inclusion criteria were age older than 18 years, primary modified Lapidus procedure or scarf osteotomy for hallux valgus, minimum 1-year postoperative Patient-Reported Outcomes Measurement Information System (PROMIS) scores, and minimum 3-month postoperative radiographs. Revision cases were excluded. Clinical outcomes were assessed using 6 PROMIS domains. Pre- and postoperative radiographic parameters were measured on anteroposterior (AP) and lateral weightbearing radiographs. Statistical analysis utilized targeted minimum-loss estimation (TMLE) to control for confounders. Results: A total of 136 patients (73 Lapidus, 63 scarf) with an average of 17.8 months of follow-up were included in this study. There was significant improvement in PROMIS physical function scores in the modified Lapidus (mean change, 5.25; P 〈 .01) and scarf osteotomy (mean change, 5.50; P 〈 .01) cohorts, with no significant differences between the 2 groups ( P = .85). After controlling for bunion severity, the probability of having a normal postoperative intermetatarsal angle (IMA; 〈 9 degrees) was 25% lower ( P = .04) with the scarf osteotomy compared with the Lapidus procedure. Conclusion: Although the modified Lapidus procedure led to a higher probability of achieving a normal IMA, both procedures yielded similar improvements in 1-year patient-reported outcome measures. Level of Evidence: Level III, retrospective cohort.
    Type of Medium: Online Resource
    ISSN: 1071-1007 , 1944-7876
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2021
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  • 4
    Online Resource
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    SAGE Publications ; 2020
    In:  Foot & Ankle Orthopaedics Vol. 5, No. 4 ( 2020-10-01), p. 2473011420S0003-
    In: Foot & Ankle Orthopaedics, SAGE Publications, Vol. 5, No. 4 ( 2020-10-01), p. 2473011420S0003-
    Abstract: Bunion; Other Introduction/Purpose: In hallux valgus (HV), first metatarsal pronation is increasingly recognized as an important aspect of the deformity. Weightbearing CT (WBCT) scans have allowed investigators to quantify pronation of the first metatarsal. Yamaguchi et al. (J Orthop Sci 2015) proposed that pronation of the first metatarsal can be estimated by looking at the shape of the lateral aspect of the first metatarsal head on weightbearing AP radiographs of the foot, which would provide surgeons with a simple and readily available guide for evaluation of pronation. The purpose of this study was to compare pronation determined from the shape of the lateral head of the first metatarsal on AP weightbearing radiographs in HV patients with pronation calculated from WBCT scans. Methods: Patients were included in this study if they had preoperative (n=22 patients) or 5-month postoperative (n=22 patients) WBCT scans and corresponding weightbearing AP radiographs of the affected foot. Pronation on weightbearing AP radiographs was grouped into four groups 0–9°, 10–19°, 20–30°, and 〉 30° as described by Wagner and Wagner (Foot Ankle Clin 2018) by two independent observers. Pronation of the first metatarsal on WBCT scans was measured using a technique developed by Campbell et al. (Foot Ankle Int 2018), which calculates pronation of the first metatarsal in reference to the second metatarsal using a 3D CAD model, and using the alpha angle as described by Kim et al. (Foot Ankle Int 2015) and was categorized into the same four groups described for the radiographs. Weighted kappa coefficients (k) were used to determine interobserver reliability and agreement between pronation groups on radiographs and WBCT scans. Intraclass correlation coefficients were used to determine reliability of the alpha angle measurements on WBCT scans. After dividing patients into plain radiograph pronation groups, differences in mean WBCT pronation of the first metatarsal was compared using Kruskal-Wallis tests. Results: Agreement between the two observers for preoperative and postoperative pronation on radiographs was moderate (k=.529,P 〈 .001) and fair (k=.382,P=0.001), respectively. Intraclass correlation coefficients for preoperative and postoperative alpha angles were good (ICCs 〉 0.80, P 〈 .001). Pronation of the first metatarsal on radiographs agreed with pronation on WBCT scans using a CAD method in 7 of 22 cases preoperatively (31.8%) and 8 of 22 cases postoperatively (36.4%). However, statistically, this was represented no agreement by more than chance between preoperative or postoperative pronation on WBCT scans and radiographs (k=.041, P=.774 and k=.059, P=.595, respectively) (Figures 1A-B). Similarly, pronation of the first metatarsal on radiographs did not agree with pronation on WBCT scans using the alpha angle measure either preoperatively or postoperatively (k=.070, P=.474 and k=.063, P=.364, respectively). Preoperatively, in the plain radiograph pronation groups of 10-19° (n=9), 20- 29° (n=11), and 〉 30° (n=2), mean pronation calculated from WBCT scans using a 3D CAD method was 21.1°, 25.2°,and 20.9°, respectively (P=.752), and mean pronation calculated using the alpha angle was 13.2°, 15.8°, and 22.3°, respectively (P=.308). Postoperatively, in the plain radiograph pronation groups of 0-9° (n=9), 10-19° (n=6), and 20-29° (n=7), mean pronation calculated from WBCT scans using a 3D CAD method was 22.3°, 22.5°, and 21.0°, respectively (P=.976), and mean pronation calculated using the alpha angle was 3.1°, 5.7°, and 6.4°, respectively (P=.252). Conclusion:: Pronation of the first metatarsal measured on weightbearing AP radiographs using the lateral first metatarsal head had only fair to moderate interobserver agreement and did not statistically significantly agree with pronation measured on WBCT scans using either a 3D CAD model or the alpha angle. Additionally, mean pronation on WBCT scans did not significantly differ by any magnitude between the plain radiograph pronation groups, which indicates that there was no association between pronation measured on WBCT scans and plain radiographs. These results suggest that surgeons should use caution when trying to derive first metatarsal pronation from AP weightbearing radiographs for surgical planning purposes.
    Type of Medium: Online Resource
    ISSN: 2473-0114 , 2473-0114
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2020
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  • 5
    In: Journal of Biological Chemistry, Elsevier BV, Vol. 295, No. 9 ( 2020-02), p. 2787-2803
    Type of Medium: Online Resource
    ISSN: 0021-9258
    Language: English
    Publisher: Elsevier BV
    Publication Date: 2020
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  • 6
    In: Foot & Ankle Orthopaedics, SAGE Publications, Vol. 5, No. 4 ( 2020-10-01), p. 2473011420S0040-
    Abstract: Bunion; Midfoot/Forefoot Introduction/Purpose: Lapidus procedure and Scarf osteotomy are indicated for treatment of mild to moderate hallux valgus. Advantages of modified Lapidus procedure include ability to address severe deformity, first tarsometatarsal arthritis, and first ray hypermobility. Advantages of Scarf osteotomy include greater correction of the distal metatarsal articular angle (DMAA) and greater fixation stability than other techniques. Both procedures have shown good radiographic and clinical outcomes; however, no prior studies have compared these outcomes between the procedures. The aim of this study was to compare clinical and radiographic outcomes between patients with hallux valgus treated with the modified Lapidus procedure or Scarf osteotomy. Methods: This retrospective cohort study included patients treated by one of seven fellowship-trained foot and ankle surgeons were identified. Inclusion criteria were age greater than 18 years, primary modified Lapidus procedure or Scarf osteotomy for hallux valgus, minimum 1-year postoperative PROMIS scores, and minimum 3-month postoperative radiographs. Revision cases were excluded. Clinical outcomes were assessed using six PROMIS domains: Pain Interference, Pain Intensity, Physical Function, Global Mental Health, Global Physical Health, and Depression. Pre- and postoperative radiographic parameters were measured on AP (HVA, IMA, DMAA, tibial sesamoid position), and lateral (talo-1st-metatarsal angle (Meary’s), Horton index, Seiberg index, sagittal IMA) x-rays. Statistical analysis utilized targeted maximum likelihood estimation controls for confounding of bunion severity by including covariates for baseline HVA and IMA. Statistics were also analyzed in a restricted cohort of mild to moderate severity bunions (HVA 〈 40 and IMA 〈 16; n=57 each). Complications including repeat surgeries, recurrence of deformity, and malunion/nonunion were recorded. Results: 136 patients (73 Lapidus, 63 Scarf) with average 17.8 month follow-up constituted our study. Both groups demonstrated significant improvement in Global Physical Health, Global Mental Health, and Physical Function, with patients in the Lapidus group showing a significantly greater improvement of 3.6 points (p=0.01) compared to Scarf. After controlling for bunion severity, the probability of having normal postoperative IMA ( 〈 10 ) was 17% lower (p 〈 0.001) with Scarf compared to Lapidus. This finding was consistent in the restricted cohort of mild to moderate severity bunions. Lapidus group demonstrated significantly greater correction in Meary’s angle, Seiberg index, and sagittal IMA. Complications in the Lapidus group included one nonunion, three symptomatic implants, two hallux varus. The Scarf group had one reoperative cheilectomy and one second metatarsal stress fracture. Conclusion: This is the first study to compare both radiographic and patient-reported outcomes between Lapidus procedure and Scarf osteotomy for correction of hallux valgus deformity. While both procedures yielded improvements in outcomes, results suggest that the probability of having a normal postoperative IMA is greater with Lapidus procedure, even when adjusted for severity of deformity. In addition, greater correction reflected in sagittal measurements may further support the role of rotational correction in the Lapidus procedure. [Table: see text]
    Type of Medium: Online Resource
    ISSN: 2473-0114 , 2473-0114
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2020
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  • 7
    In: Foot & Ankle Orthopaedics, SAGE Publications, Vol. 6, No. 4 ( 2021-10), p. 247301142110600-
    Abstract: There is no current consensus on whether to use an open or minimally invasive (MIS) approach for Achilles tendon repair after acute rupture. We hypothesized that patients in both open and MIS groups would have improved patient-reported outcome scores using the PROMIS system postoperatively, but that there would be minimal differences in these scores and complication rates between operative techniques. Methods: A total of 185 patients who underwent surgery for an acute, unilateral Achilles tendon rupture between January 2016 and June 2019, with minimum 1-year follow-up were included in the cohort studied. The minimally invasive group was defined by use of a commercially available minimally invasive device through a smaller surgical incision (n=118). The open repair group did not use the device, and suture repair was performed through larger surgical incisions (n=67). Postoperative protocols were similar between groups. Preoperative and postoperative PROMIS scores were collected prospectively through our institution’s registry. Demographics and complications were recorded. Results: PROMIS scores overall improved in both study groups after operative repair. No significant differences in postoperative PROMIS scores were observed between the open and MIS repair groups. There were also no significant differences in complication rates between groups. Overall, 19.5% of patients in the MIS group had at least 1 postoperative complication (8.5% deep vein thrombosis [DVT], 3.3% rerupture, 1.7% sural nerve injury, 2.5% infection), compared to 16.4% in the open group (9.0% DVT, 1.5% rerupture, 1.5% sural nerve injury, 0% infection). Conclusion: Patients undergoing either minimally invasive or open Achilles tendon repair after acute rupture have similar PROMIS outcomes and complication types and incidences. Level of Evidence: Level III, retrospective cohort study.
    Type of Medium: Online Resource
    ISSN: 2473-0114 , 2473-0114
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2021
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  • 8
    In: Foot & Ankle Orthopaedics, SAGE Publications, Vol. 7, No. 1 ( 2022-01), p. 2473011421S0019-
    Abstract: Ankle Arthritis Introduction/Purpose: One of the proposed benefits of total ankle replacement, when compared to ankle fusion is the preservation of range of motion (ROM) of the ankle. Preservation of ankle motion may improve quality of life as evidenced by patient-reported outcome measures (PROMs). However, despite improving dorsiflexion intraoperatively during TAR, studies have not demonstrated large improvements in dorsiflexion (DF) at final followup after TAR. The objective of this study was to radiographically evaluate and quantify preoperative, intraoperative ankle dorsiflexion and plantarflexion (PF), compare it to post- operative ankle ROM, and determine the effect of Achilles lengthening (TAL) on preserving dorsiflexion motion that is gained during surgery. Methods: This prospective study compared 111 patients with an average age of 62.3 years who underwent primary total ankle replacement with one of four different implants between March and December 2019. A total of 71 patients (64%) had an associated TAL based on the surgeon's decision. Intraoperative fluoroscopy was utilized by the primary surgeon to document the maximal dorsiflexion and plantar flexion at the end of the case. This was completed after the TAL on a perfect lateral. Standardized weight bearing at maximum ROM positions lateral radiographs were obtained twelve months postoperatively. The change in range of motion was analyzed using a paired t-test with a significance level of 0.05. Results: The cohort's preoperative range was 22.0° (8.1°DF, 14°PF) and was increased to 38.5° intraoperatively (12.7°DF, 25.8°PF) as described in Table 1. Postoperative ROM is 24.9° (11.7°DF, 13.2°PF) which means that 65% of the intraoperative ROM is preserved. Preoperative and intraoperative range of motion was not different between the group that had a TAL compared to no TAL. At the year postoperatively, the dorsiflexion was similar between both groups. The group who did not have a TAL went from 12.8 intraoperatively to 12.2° postoperatively whereas the group who had a TAL went from 12.2° to 11.3° which was statistically equivalent. Conclusion: This study is the first to assess how much ankle range of motion is retained after TAR. Overall, we observed that 65% of dorsiflexion was retained after TAR. TAL as a concomitant procedure did not effect the proportion of dorsiflexion motion that was retained. Additional studies are needed to determine how to best optimize and increase ROM after TAR.
    Type of Medium: Online Resource
    ISSN: 2473-0114 , 2473-0114
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2022
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  • 9
    In: Foot & Ankle International, SAGE Publications, Vol. 42, No. 8 ( 2021-08), p. 1049-1059
    Abstract: There is no consensus in the foot and ankle literature regarding how to measure pronation of the first metatarsal in patients with hallux valgus. The primary purpose of this study was to compare 2 previously published methods for measuring pronation of the first metatarsal and a novel 3-dimensional measurement of pronation to determine if different measurements of pronation are associated with each other. Methods: Thirty patients who underwent a modified Lapidus procedure for their hallux valgus deformity were included in this study. Pronation of the first metatarsal was measured on weightbearing computed tomography (WBCT) scans using the α angle with reference to the floor, a 3-dimensional computer-aided design (3D CAD) calculation with reference to the second metatarsal, and a novel method, called the triplanar angle of pronation (TAP), that included references to both the floor (floor TAP) and base of the second metatarsal (second TAP). Pearson’s correlation coefficients were used to determine if the 3 calculated angles of pronation correlated to each other. Results: Preoperative and postoperative α angle and 3D CAD had no correlation with each other ( r = 0.094, P = .626 and r = 0.076, P = .694, respectively). Preoperative and postoperative second TAP and 3D CAD also had no correlation ( r = 0.095, P = .624 and r = 0.320, P = .09, respectively). However, preoperative and postoperative floor TAP and α angle were found to have moderate correlations ( r = 0.595, P = .001 and r = 0.501, P = .005, respectively). Conclusion: The calculation of first metatarsal pronation is affected by the reference and technique used, and further work is needed to establish a consistent measurement for the foot and ankle community. Level of Evidence: Level III, retrospective cohort study.
    Type of Medium: Online Resource
    ISSN: 1071-1007 , 1944-7876
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2021
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  • 10
    In: PLoS ONE, Public Library of Science (PLoS), Vol. 8, No. 8 ( 2013-8-14), p. e72564-
    Type of Medium: Online Resource
    ISSN: 1932-6203
    Language: English
    Publisher: Public Library of Science (PLoS)
    Publication Date: 2013
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