This paper presents the utilization of progressive alignment principle for positional adjustment of a set of genomic signals with different lengths. The new method of multiple alignment of signals based on dynamic time warping is tested for the purpose of evaluating the similarity of different length genes in phylogenetic studies. Two sets of phylogenetic markers were used to demonstrate the effectiveness of the evaluation of intraspecies and interspecies genetic variability. The part of the proposed method is modification of pairwise alignment of two signals by dynamic time warping with using correlation in a sliding window. The correlation based dynamic time warping allows more accurate alignment dependent on local homologies in sequences without the need of scoring matrix or evolutionary models, because mutual similarities of residues are included in the numerical code of signals.

• MeSH
• algoritmy MeSH
• bakteriální RNA genetika   MeSH
• druhová specificita MeSH
• fylogeneze MeSH
• genom bakteriální * MeSH
• genomika metody   MeSH
• počítačové zpracování signálu MeSH
• RNA ribozomální 18S genetika   MeSH
• sekvenční seřazení metody   MeSH
• výpočetní biologie metody   MeSH
• zvířata MeSH
• Check Tag
• zvířata MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH

Introduction. Different spine sagittal contours in classic and lumbar Scheuermann's disease are associated with various muscle imbalance. Material and methods. A randomized controlled trial of the efficacy of kinesiotherapy programs in patients with Scheuermann's kyphosis and lumbar Scheuermann's aged 16–26 years (mean age 20.6 ± 0.3 years) was performed. We evaluated the mobility of the spine and hip joints, the roentgenometric magnitude of thoracic kyphosis and lumbar lordosis, the parameters of EMG of the lumbar part of the muscles erector spinae using surface electrodes. Patients interviewed on the visual analogue scale (VAS), on the Oswestry Disability Questionnaire, version 2.0 (ODI), on the Pain and Anxiety Symptoms Scale (PASS) – 20. Results. After the treatment in groups with kinesiotherapy program was observed the increase of general spine mobility while bending forward, the increase of hip joint movements in sagittal plane and significant improvement VAS, ODI and PASS as compared with the control groups in the classic and atypical forms of the Scheuermann's disease, respectively. Discussion and Conclusion. We associate the efficiency of the kinesiotherapy program with applying a differential approach to prescribing the exercises according to the variation of sagittal spinal alignment.

• MeSH
• bederní obratle fyziologie   radiografie   MeSH
• cvičení MeSH
• dospělí MeSH
• elektromyografie MeSH
• hrudní obratle fyziologie   radiografie   MeSH
• kineziologie aplikovaná * metody   statistika a číselné údaje   MeSH
• kohortové studie MeSH
• kyčelní kloub fyziologie   MeSH
• lidé MeSH
• lumbalgie rehabilitace   MeSH
• měření bolesti MeSH
• mladiství MeSH
• mladý dospělý MeSH
• posturální rovnováha MeSH
• rozsah kloubních pohybů MeSH
• Scheuermannova nemoc * radiografie   rehabilitace   terapie   MeSH
• spokojenost pacientů MeSH
• statistika jako téma MeSH
• svalová hypertonie komplikace   rehabilitace   MeSH
• techniky fyzikální terapie * statistika a číselné údaje   MeSH
• výsledek terapie MeSH
• zádové svalstvo fyziologie   MeSH
• Check Tag
• dospělí MeSH
• lidé MeSH
• mladiství MeSH
• mladý dospělý MeSH
• Publikační typ
• hodnotící studie MeSH

OBJECTIVES: To evaluate the limits of stability (LOS) in persons with transtibial amputation (TTA), and to determine the effects of prosthetic alignment alterations on motor control strategies. DESIGN: Before-and-after trial. SETTING: A kinesiology laboratory at a university hospital. PARTICIPANTS: Male patients with TTA (n=10) and controls (n=17). INTERVENTIONS: Prosthetic alignment. MAIN OUTCOME MEASURES: For the LOS test, the maximum excursion, endpoint excursion, direction control, movement velocity, and reaction time with inclination in the forward direction, toward the amputated leg/right leg, and in the backward direction, and toward the nonamputated leg/left leg. Measurements were performed using the following 5 prosthetic alignments: the optimal alignment, with the prosthesis shorter by 1cm, with the prosthesis longer by 1cm, and with the prosthetic foot in 5° of extra plantar flexion and 5° of extra dorsiflexion. RESULTS: Compared with the control group, maximum excursion and direction control were lower (P<.05) in patients with TTA with backward body inclination for all tested prosthetic alignments. Direction control in backward inclination was reduced (P<.05) compared with other tested directions for all assessed prosthetic alignments. Differences between the tested alignments were not significant in any of the tested directions. CONCLUSIONS: Patients with TTA have decreased voluntary body inclination backward within the LOS for all tested prosthetic alignments. Compared with controls, changes in prosthetic foot settings by means of rotation in the sagittal plane had a larger impact on movement strategy in patients with TTA than did changes to the length of the prosthesis.

• MeSH
• amputace MeSH
• amputovaní rehabilitace   MeSH
• chůze (způsob) fyziologie   MeSH
• dospělí MeSH
• lidé středního věku MeSH
• lidé MeSH
• posturální rovnováha fyziologie   MeSH
• protézy - design MeSH
• senioři MeSH
• tibie chirurgie   MeSH
• umělé končetiny * MeSH
• Check Tag
• dospělí MeSH
• lidé středního věku MeSH
• lidé MeSH
• mužské pohlaví MeSH
• senioři MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH

• MeSH
• genetické markery analýza   MeSH
• molekulární biologie metody   MeSH
• sekvence nukleotidů MeSH
• software MeSH
• technika náhodné amplifikace polymorfní DNA MeSH
• Publikační typ
• kongresy MeSH

Úvod: Je dobře známo, že předozadní stabilita páteře je výsledkem interakce mezi páteří, pánví a kyčelním kloubem. Flekční kontraktura je častým nálezem u pacientů s artrózou kyčelního kloubu. Jen málo studií se zabývá vztahem mezi páteří, pánví a flekční kontrakturou v kyčli. Metody: Prospektivní studie byla provedena u 40 pacientů s flekční kontrakturou kyčelního kloubu. Thomasův test byl použit k identifikaci a měření flekční kontraktury kyčelního kloubu (před operací a 1 rok po operaci). Parametry – pelvic incidence (PI), pelvic tilt (PT), sacral slope (SS) a lumbar lordosis (LL) – byly analyzovány rentgenologicky na bočné projekci lumbosakrální páteře u stojícího pacienta před operací a jeden rok po uvolnění flekční kontraktury. Měření bylo provedeno dvěma na sobě nezávislými pracovníky. Výsledky: Průměrná hodnota flekční kontraktury kyčelního kloubu byla před operací 17° (rozsah od 5–30°) a po operaci 4° (rozsah od 0–10°), hodnota p = 0,018. Parametr PI se po operaci nezměnil (podle očekávání) s průměrnou hodnotou 57° (v rozmezí 37–72°). Kompenzační parametry (PT, SS) se změnily po operaci vždy až na jeden případ. Předoperační a pooperační průměrná hodnota pro PT byla 14° (rozsah 1–30°), respektive 18° (rozsah 3–32°) (p = 0,25). Pro SS byly hodnoty 43° (rozsah 26–56°) před operací a 39° (v rozmezí 23–54°) po operaci (p = 0,31). Parametr LL se měnil v průměru o méně než 1°. Závěr: Tato studie je jedna z prvních studií analyzujících flekční kontrakturu kyčelního kloubu jako příčinu dysbalance páteře v sagitální rovině. Kompenzační pánevní parametry (PT, SS) se po úpravě flekční kontraktury po implantaci totální endoprotézy kyčelního kloubu při sledování jeden rok po operaci sice upravují, ale ne statisticky signifikantně.

Introduction: It has become well recognised that sagittal balance of the spine is the result of an interaction between the spine, the pelvis and the hip. Flexion contracture is a frequent finding in patients with osteoarthrosis of the hip. Only few studies have insisted on the relationship between spinal-pelvic parameters and hip flexion parameters. Methods: A prospective study was carried out on 40 patients with flexion contracture of the hip. The Thomas test was used to identify and measure (pre- and postoperatively) the deformity. The parameters of pelvic incidence (PI), pelvic tilt (PT), sacral slope (SS) and lumbar lordosis (LL) were analysed on lateral standing radiographs of the lumbosacral spine before and one year after the flexion contracture release. Results: The average value of the flexion contracture of the hip was preoperatively 17° (range, 5° to 30°) and postoperatively 4° (range, 0° to 10°) (p = 0,018). PI did not change after the surgery (as expected) with a mean value of 57° (range, 37° - 72°). Compensatory balance parameters (PT, SS) changed postoperatively in all but one case. Preoperative and postoperative average value was for PT 14° (range, 1° to 30°) and 18° (range, 3° to 32°), respectively (p = 0,25); for SS 43° (range, 26° - 56°) and 39° (range, 23° - 54°), respectively (p = 0,31). LL changed less than 1° at average. Discussion and Conclusions: This is one of the first series analysing the hip flexion contracture as a cause of sagittal spinal imbalance. The compensatory pelvic parameters (PT, SS) of the spine balance adjust postoperatively after hip joint flexion reduction at one year follow-up, but not significantly.

• MeSH
• artróza kyčelních kloubů * chirurgie   patologie   MeSH
• kontraktura * diagnóza   etiologie   chirurgie   MeSH
• lidé středního věku MeSH
• lidé MeSH
• lordóza etiologie   MeSH
• náhrada kyčelního kloubu * MeSH
• postura těla MeSH
• posturální rovnováha MeSH
• prospektivní studie MeSH
• statistika jako téma MeSH
• výsledek terapie MeSH
• Check Tag
• lidé středního věku MeSH
• lidé MeSH
• mužské pohlaví MeSH
• ženské pohlaví MeSH

• MeSH
• konfokální mikroskopie metody   využití   MeSH
• lidé MeSH
• odběr biologického vzorku metody   využití   MeSH
• počítače MeSH
• počítačové zpracování obrazu metody   využití   MeSH
• programovací jazyk MeSH
• software MeSH
• statistika jako téma MeSH
• teoretické modely MeSH
• zobrazování trojrozměrné metody   přístrojové vybavení   využití   MeSH
• Check Tag
• lidé MeSH

BACKGROUND: Few studies on multiple sclerosis (MS) have explored the variability of percentage brain volume change (PBVC) measurements obtained from different clinical MRIs. In a retrospective multicentre cohort study, we quantified the variability of annualised PBVC in clinical MRIs. METHODS: Clinical MRIs of relapse-onset MS patients were assessed by icobrain. Volumetric data were analysed on same-scanner and different-scanner MRI pairs if they passed quality control criteria. Alignment similarity between two images had to be comparable to same-scanner scan-rescan images. RESULTS: Of 6826 MRIs, 85 % had appropriate volumetric sequences and 4446 serial MRI pairs were analysed. 3334 (75 %) MRI pairs from 1207 patients met the inclusions. The PBVC of included MRI pairs showed variance of 0.78 % for same-scanner pairs and 0.80 % for different-scanner pairs. Further selection of included MRI pairs with the best variance resulted in 1885 (42 %) MRI pairs with PBVC variance of 0.34 %. Excluded MRI pairs with poor alignment similarity had variances of 2.97 % for same-scanner pairs and 20.79 % for different-scanner pairs. CONCLUSION: Icobrain should be utilised for PBVC determination only on selected MRIs with the best alignment similarity. Applying strict selection criteria for the included MRI pairs and longitudinal imaging on the same scanner remain mandatory to reduce PBVC variability.

• MeSH
• dospělí MeSH
• lidé středního věku MeSH
• lidé MeSH
• magnetická rezonanční tomografie * MeSH
• mozek * diagnostické zobrazování   patologie   MeSH
• relabující-remitující roztroušená skleróza diagnostické zobrazování   farmakoterapie   patologie   MeSH
• retrospektivní studie MeSH
• roztroušená skleróza diagnostické zobrazování   patologie   MeSH
• velikost orgánu MeSH
• Check Tag
• dospělí MeSH
• lidé středního věku MeSH
• lidé MeSH
• mužské pohlaví MeSH
• ženské pohlaví MeSH
• Publikační typ
• časopisecké články MeSH
• multicentrická studie MeSH

BACKGROUND: Understanding the architecture and function of RNA molecules requires methods for comparing and analyzing their tertiary and quaternary structures. While structural superposition of short RNAs is achievable in a reasonable time, large structures represent much bigger challenge. Therefore, we have developed a fast and accurate algorithm for RNA pairwise structure superposition called SETTER and implemented it in the SETTER web server. However, though biological relationships can be inferred by a pairwise structure alignment, key features preserved by evolution can be identified only from a multiple structure alignment. Thus, we extended the SETTER algorithm to the alignment of multiple RNA structures and developed the MultiSETTER algorithm. RESULTS: In this paper, we present the updated version of the SETTER web server that implements a user friendly interface to the MultiSETTER algorithm. The server accepts RNA structures either as the list of PDB IDs or as user-defined PDB files. After the superposition is computed, structures are visualized in 3D and several reports and statistics are generated. CONCLUSION: To the best of our knowledge, the MultiSETTER web server is the first publicly available tool for a multiple RNA structure alignment. The MultiSETTER server offers the visual inspection of an alignment in 3D space which may reveal structural and functional relationships not captured by other multiple alignment methods based either on a sequence or on secondary structure motifs.

• MeSH
• algoritmy * MeSH
• internet * MeSH
• konformace nukleové kyseliny * MeSH
• RNA chemie   MeSH
• sekvenční analýza RNA metody   MeSH
• sekvenční seřazení metody   MeSH
• software * MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH

IMPORTANCE: Autologous hematopoietic stem cell transplant (AHSCT) is available for treatment of highly active multiple sclerosis (MS). OBJECTIVE: To compare the effectiveness of AHSCT vs fingolimod, natalizumab, and ocrelizumab in relapsing-remitting MS by emulating pairwise trials. DESIGN, SETTING, AND PARTICIPANTS: This comparative treatment effectiveness study included 6 specialist MS centers with AHSCT programs and international MSBase registry between 2006 and 2021. The study included patients with relapsing-remitting MS treated with AHSCT, fingolimod, natalizumab, or ocrelizumab with 2 or more years study follow-up including 2 or more disability assessments. Patients were matched on a propensity score derived from clinical and demographic characteristics. EXPOSURE: AHSCT vs fingolimod, natalizumab, or ocrelizumab. MAIN OUTCOMES: Pairwise-censored groups were compared on annualized relapse rates (ARR) and freedom from relapses and 6-month confirmed Expanded Disability Status Scale (EDSS) score worsening and improvement. RESULTS: Of 4915 individuals, 167 were treated with AHSCT; 2558, fingolimod; 1490, natalizumab; and 700, ocrelizumab. The prematch AHSCT cohort was younger and with greater disability than the fingolimod, natalizumab, and ocrelizumab cohorts; the matched groups were closely aligned. The proportion of women ranged from 65% to 70%, and the mean (SD) age ranged from 35.3 (9.4) to 37.1 (10.6) years. The mean (SD) disease duration ranged from 7.9 (5.6) to 8.7 (5.4) years, EDSS score ranged from 3.5 (1.6) to 3.9 (1.9), and frequency of relapses ranged from 0.77 (0.94) to 0.86 (0.89) in the preceding year. Compared with the fingolimod group (769 [30.0%]), AHSCT (144 [86.2%]) was associated with fewer relapses (ARR: mean [SD], 0.09 [0.30] vs 0.20 [0.44]), similar risk of disability worsening (hazard ratio [HR], 1.70; 95% CI, 0.91-3.17), and higher chance of disability improvement (HR, 2.70; 95% CI, 1.71-4.26) over 5 years. Compared with natalizumab (730 [49.0%]), AHSCT (146 [87.4%]) was associated with marginally lower ARR (mean [SD], 0.08 [0.31] vs 0.10 [0.34]), similar risk of disability worsening (HR, 1.06; 95% CI, 0.54-2.09), and higher chance of disability improvement (HR, 2.68; 95% CI, 1.72-4.18) over 5 years. AHSCT (110 [65.9%]) and ocrelizumab (343 [49.0%]) were associated with similar ARR (mean [SD], 0.09 [0.34] vs 0.06 [0.32]), disability worsening (HR, 1.77; 95% CI, 0.61-5.08), and disability improvement (HR, 1.37; 95% CI, 0.66-2.82) over 3 years. AHSCT-related mortality occurred in 1 of 159 patients (0.6%). CONCLUSION: In this study, the association of AHSCT with preventing relapses and facilitating recovery from disability was considerably superior to fingolimod and marginally superior to natalizumab. This study did not find evidence for difference in the effectiveness of AHSCT and ocrelizumab over a shorter available follow-up time.

• MeSH
• dospělí MeSH
• fingolimod hydrochlorid terapeutické užití   MeSH
• lidé MeSH
• natalizumab terapeutické užití   MeSH
• relabující-remitující roztroušená skleróza * farmakoterapie   MeSH
• roztroušená skleróza * MeSH
• transplantace hematopoetických kmenových buněk * MeSH
• Check Tag
• dospělí MeSH
• lidé MeSH
• ženské pohlaví MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH

• MeSH
• lidé MeSH
• počítačová grafika MeSH
• sekvenční analýza MeSH
• sekvenční seřazení MeSH
• software MeSH
• Check Tag
• lidé MeSH