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Article ; Online: Interval from Oestrus to Ovulation in Dairy Cows-A Key Factor for Insemination Time: A Review.

De Rensis, Fabio / Dall'Olio, Eleonora / Gnemmi, Giovanni Maria / Tummaruk, Padet / Andrani, Melania / Saleri, Roberta

2024 Volume 11, Issue 4

Abstract: ... utilizing the "a.m.-p.m. rule", and only one insemination may be applied. In cows with too long or too short ...

Abstract	This review describes the oestrus-to-ovulation interval, the possibility of predicting the time of ovulation, and the optimum time for insemination relative to oestrus in dairy cows. The duration of oestrus in dairy cows is approximately 8-20 h, with differences possibly related to the methods of oestrus detection and the frequency of observations. Most cows ovulate approximately 24-33 h after the onset of oestrus and 15-22 h after the end of oestrus. The interval from the preovulatory luteinising hormone (LH) surge to ovulation is approximately 4-30 h. Ovulation occurs when follicle diameter averages 18-20 mm. When it is possible to correctly determine the beginning of oestrus, artificial insemination can be performed utilizing the "a.m.-p.m. rule", and only one insemination may be applied. In cows with too long or too short oestrus-to-ovulation intervals, fertility can be compromised. One important factor that can alter the oestrus-to-ovulation interval is acute or chronic heat stress during the warm season. When there is a risk that insemination may occur too early or too late with respect to the time of ovulation, GnRH administration can be considered.
Language	English
Publishing date	2024-03-29
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2768971-2
ISSN	2306-7381 ; 2306-7381
ISSN (online)	2306-7381
ISSN	2306-7381
DOI	10.3390/vetsci11040152
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Article ; Online: Molecular and Genetic Advances in Small Cell Lung Cancer Landscape: From Homogeneity to Diversity.

Zullo, Lodovica / Dall'Olio, Filippo Gustavo / Rossi, Giovanni / Dellepiane, Chiara / Barletta, Giulia / Bennicelli, Elisa / Ingaliso, Marta / Tagliamento, Marco / Genova, Carlo

International journal of molecular sciences

2023 Volume 25, Issue 1

Abstract: Small cell lung cancer (SCLC) has been historically considered a homogeneous disease and thus approached as a single entity when it comes to clinical studies design and new treatments developments. However, increasing knowledge in the genetic and ... ...

Abstract	Small cell lung cancer (SCLC) has been historically considered a homogeneous disease and thus approached as a single entity when it comes to clinical studies design and new treatments developments. However, increasing knowledge in the genetic and molecular landscape of this disease challenges this concept, opening the possibility that different subtypes might show differential vulnerability to treatments. In this narrative review, we gather the most relevant advances in genetic and molecular characterization of SCLC, focusing on how these discoveries may be used to design the path for a personalized treatment approach. Indeed, we discuss the new classification based on differential protein expression, the prevalence and significance of oncogenic drivers (e.g.,
MeSH term(s)	Humans ; Lung Neoplasms/genetics ; Small Cell Lung Carcinoma/genetics ; Liquid Biopsy ; Mutation ; PubMed
Language	English
Publishing date	2023-12-22
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2019364-6
ISSN	1422-0067 ; 1422-0067 ; 1661-6596
ISSN (online)	1422-0067
ISSN	1422-0067 ; 1661-6596
DOI	10.3390/ijms25010224
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Article ; Online: Surgery for Intraductal Papillary Mucinous Neoplasms of the Pancreas: Preoperative Factors Tipping the Scale of Decision-Making.

Marchegiani, Giovanni / Crippa, Stefano / Perri, Giampaolo / Rancoita, Paola M V / Caravati, Andrea / Belfiori, Giulio / Dall'Olio, Tommaso / Aleotti, Francesca / Partelli, Stefano / Bassi, Claudio / Falconi, Massimo / Salvia, Roberto

Annals of surgical oncology

2022 Volume 29, Issue 5, Page(s) 3206–3214

Abstract: Background: Decision-making in intraductal papillary mucinous neoplasms (IPMNs) of the pancreas depends on scaling the risk of malignancy with the surgical burden of a pancreatectomy. This study aimed to develop a preoperative, disease-specific tool to ... ...

Abstract	Background: Decision-making in intraductal papillary mucinous neoplasms (IPMNs) of the pancreas depends on scaling the risk of malignancy with the surgical burden of a pancreatectomy. This study aimed to develop a preoperative, disease-specific tool to predict surgical morbidity for IPMNs. Methods: Based on preoperative variables of resected IPMNs at two high-volume institutions, classification tree analysis was applied to derive a predictive model identifying the risk factors for major morbidity (Clavien-Dindo ≥3) and postoperative pancreatic insufficiency. Results: Among 524 patients, 289 (55.2%) underwent pancreaticoduodenectomy (PD), 144 (27.5%) underwent distal pancreatectomy (DP), and 91 (17.4%) underwent total pancreatectomy (TP) for main-duct (18.7%), branch-duct (12.6%), or mixed-type (68.7%) IPMN. For 98 (18.7%) of the patients, major morbidity developed. The classification tree distinguished different probabilities of major complications based on the type of surgery (area under the surve [AUC] 0.70; 95% confidence interval [CI], 0.63-0.77). Among the DP patients, the presence of preoperative diabetes identified two risk classes with respective probabilities of 5% and 25% for the development of major morbidity, whereas among the PD/TP patients, three different classes with respective probabilities of 15%, 20%, and 36% were identified according to age and body mass index (BMI). Overall, history of diabetes, age, and cyst size segregated three different risk classes for new-onset/worsening diabetes. Conclusions: In presumed IPMNs, the disease-specific risk of major morbidity and pancreatic insufficiency can be determined in the preoperative setting and used to personalize the possible surgical indication. Age and overweight status in case of PD/TP and diabetes in case of DP tip the scale toward less aggressive clinical management in the absence of features suggestive for malignancy.
MeSH term(s)	Carcinoma, Pancreatic Ductal/pathology ; Carcinoma, Pancreatic Ductal/surgery ; Exocrine Pancreatic Insufficiency ; Humans ; Pancreas/surgery ; Pancreatectomy ; Pancreatic Intraductal Neoplasms/pathology ; Pancreatic Intraductal Neoplasms/surgery ; Pancreatic Neoplasms/pathology ; Pancreatic Neoplasms/surgery ; Retrospective Studies
Language	English
Publishing date	2022-01-24
Publishing country	United States
Document type	Journal Article
ZDB-ID	1200469-8
ISSN	1534-4681 ; 1068-9265
ISSN (online)	1534-4681
ISSN	1068-9265
DOI	10.1245/s10434-022-11326-5
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Article: Honey vs. Mite-A Trade-Off Strategy by Applying Summer Brood Interruption for

Kovačić, Marin / Uzunov, Aleksandar / Tlak Gajger, Ivana / Pietropaoli, Marco / Soroker, Victoria / Adjlane, Noureddine / Benko, Valerija / Charistos, Leonidas / Dall'Olio, Raffaele / Formato, Giovanni / Hatjina, Fani / Malagnini, Valeria / Freda, Fabrizio / Otmi, Asaf / Puškadija, Zlatko / Villar, Claudio / Büchler, Ralph

Insects

2023 Volume 14, Issue 9

Abstract: In this study, we investigated the effect of queen caging on honey bee colonies' post-treatment development and the optimal timing of method application on honey production during the main summer nectar flow. We conducted the study in nine apiaries (N = ... ...

Abstract	In this study, we investigated the effect of queen caging on honey bee colonies' post-treatment development and the optimal timing of method application on honey production during the main summer nectar flow. We conducted the study in nine apiaries (N = 9) across six Mediterranean countries, with a total of 178 colonies. The colonies were divided into three test groups: QC1, QC2, and C. The QC1 group involved queens caged for a total of 28 days before the expected harvesting day. In the QC2 group, queens were caged for 28 days, but only 14 days before the expected harvesting day. The C group consisted of queens that were not caged, and the colonies received common local treatments. In both the QC1 and QC2 groups, the colonies were treated with a 4.2% oxalic acid (OA) solution by trickling after the queen release. Our findings revealed no significant adverse effects (
Language	English
Publishing date	2023-09-07
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2662247-6
ISSN	2075-4450
ISSN	2075-4450
DOI	10.3390/insects14090751
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Article ; Online: Synthetic Data Generation by Artificial Intelligence to Accelerate Research and Precision Medicine in Hematology.

D'Amico, Saverio / Dall'Olio, Daniele / Sala, Claudia / Dall'Olio, Lorenzo / Sauta, Elisabetta / Zampini, Matteo / Asti, Gianluca / Lanino, Luca / Maggioni, Giulia / Campagna, Alessia / Ubezio, Marta / Russo, Antonio / Bicchieri, Maria Elena / Riva, Elena / Tentori, Cristina A / Travaglino, Erica / Morandini, Pierandrea / Savevski, Victor / Santoro, Armando /

Prada-Luengo, Iñigo / Krogh, Anders / Santini, Valeria / Kordasti, Shahram / Platzbecker, Uwe / Diez-Campelo, Maria / Fenaux, Pierre / Haferlach, Torsten / Castellani, Gastone / Della Porta, Matteo Giovanni

JCO clinical cancer informatics

2023 Volume 7, Page(s) e2300021

Abstract: Purpose: Synthetic data are artificial data generated without including any real patient information by an algorithm trained to learn the characteristics of a real source data set and became widely used to accelerate research in life sciences. We aimed ... ...

Abstract	Purpose: Synthetic data are artificial data generated without including any real patient information by an algorithm trained to learn the characteristics of a real source data set and became widely used to accelerate research in life sciences. We aimed to (1) apply generative artificial intelligence to build synthetic data in different hematologic neoplasms; (2) develop a synthetic validation framework to assess data fidelity and privacy preservability; and (3) test the capability of synthetic data to accelerate clinical/translational research in hematology. Methods: A conditional generative adversarial network architecture was implemented to generate synthetic data. Use cases were myelodysplastic syndromes (MDS) and AML: 7,133 patients were included. A fully explainable validation framework was created to assess fidelity and privacy preservability of synthetic data. Results: We generated MDS/AML synthetic cohorts (including information on clinical features, genomics, treatment, and outcomes) with high fidelity and privacy performances. This technology allowed resolution of lack/incomplete information and data augmentation. We then assessed the potential value of synthetic data on accelerating research in hematology. Starting from 944 patients with MDS available since 2014, we generated a 300% augmented synthetic cohort and anticipated the development of molecular classification and molecular scoring system obtained many years later from 2,043 to 2,957 real patients, respectively. Moreover, starting from 187 MDS treated with luspatercept into a clinical trial, we generated a synthetic cohort that recapitulated all the clinical end points of the study. Finally, we developed a website to enable clinicians generating high-quality synthetic data from an existing biobank of real patients. Conclusion: Synthetic data mimic real clinical-genomic features and outcomes, and anonymize patient information. The implementation of this technology allows to increase the scientific use and value of real data, thus accelerating precision medicine in hematology and the conduction of clinical trials.
MeSH term(s)	Humans ; Precision Medicine ; Artificial Intelligence ; Algorithms ; Hematology ; Leukemia, Myeloid, Acute
Language	English
Publishing date	2023-06-14
Publishing country	United States
Document type	Journal Article
ISSN	2473-4276
ISSN (online)	2473-4276
DOI	10.1200/CCI.23.00021
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Article ; Online: NCG 5.0: updates of a manually curated repository of cancer genes and associated properties from cancer mutational screenings.

An, Omer / Dall'Olio, Giovanni M / Mourikis, Thanos P / Ciccarelli, Francesca D

Nucleic acids research

2016 Volume 44, Issue D1, Page(s) D992–9

Abstract: The Network of Cancer Genes (NCG, http://ncg.kcl.ac.uk/) is a manually curated repository of cancer genes derived from the scientific literature. Due to the increasing amount of cancer genomic data, we have introduced a more robust procedure to extract ... ...

Abstract	The Network of Cancer Genes (NCG, http://ncg.kcl.ac.uk/) is a manually curated repository of cancer genes derived from the scientific literature. Due to the increasing amount of cancer genomic data, we have introduced a more robust procedure to extract cancer genes from published cancer mutational screenings and two curators independently reviewed each publication. NCG release 5.0 (August 2015) collects 1571 cancer genes from 175 published studies that describe 188 mutational screenings of 13 315 cancer samples from 49 cancer types and 24 primary sites. In addition to collecting cancer genes, NCG also provides information on the experimental validation that supports the role of these genes in cancer and annotates their properties (duplicability, evolutionary origin, expression profile, function and interactions with proteins and miRNAs).
MeSH term(s)	Data Curation ; Databases, Genetic ; Genes, Neoplasm ; Humans ; Molecular Sequence Annotation ; Mutation ; Neoplasms/genetics
Language	English
Publishing date	2016-01-04
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	186809-3
ISSN	1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
ISSN (online)	1362-4962 ; 1362-4954
ISSN	0301-5610 ; 0305-1048
DOI	10.1093/nar/gkv1123
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Article ; Online: Percutaneous radiofrequency ablation in intrahepatic cholangiocarcinoma: a retrospective single-center experience.

Brandi, Giovanni / Rizzo, Alessandro / Dall'Olio, Filippo Gustavo / Felicani, Cristina / Ercolani, Giorgio / Cescon, Matteo / Frega, Giorgio / Tavolari, Simona / Palloni, Andrea / De Lorenzo, Stefania / Abbati, Francesca / Mollica, Veronica / Ricci, Angela Dalia / Serra, Carla

International journal of hyperthermia : the official journal of European Society for Hyperthermic Oncology, North American Hyperthermia Group

2020 Volume 37, Issue 1, Page(s) 479–485

Abstract: Background & aims: ...

Abstract	Background & aims:
MeSH term(s)	Adult ; Aged ; Aged, 80 and over ; Cholangiocarcinoma/pathology ; Cholangiocarcinoma/therapy ; Female ; Humans ; Male ; Middle Aged ; Radiofrequency Ablation/methods ; Retrospective Studies
Language	English
Publishing date	2020-06-03
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	632526-9
ISSN	1464-5157 ; 0265-6736
ISSN (online)	1464-5157
ISSN	0265-6736
DOI	10.1080/02656736.2020.1763484
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Article ; Online: Surveillance for Presumed BD-IPMN of the Pancreas: Stability, Size, and Age Identify Targets for Discontinuation.

Marchegiani, Giovanni / Pollini, Tommaso / Burelli, Anna / Han, Youngmin / Jung, Hye-Sol / Kwon, Wooil / Rocha Castellanos, Dario Missael / Crippa, Stefano / Belfiori, Giulio / Arcidiacono, Paolo Giorgio / Capurso, Gabriele / Apadula, Laura / Zaccari, Piera / Noia, José Lariño / Gorris, Myrte / Busch, Olivier / Ponweera, Arachchige / Mann, Kulbir / Demir, Ihsan Ekin /

Phillip, Veit / Ahmad, Nuzhat / Hackert, Thilo / Heckler, Max / Lennon, Anne Marie / Afghani, Elham / Vallicella, Davide / Dall'Olio, Tommaso / Nepi, Angelica / Vollmer, Charles M / Friess, Helmut / Ghaneh, Paula / Besselink, Marc / Falconi, Massimo / Bassi, Claudio / Goh, Brian Kim-Poh / Jang, Jin-Young / Fernández-Del Castillo, Carlos / Salvia, Roberto

Gastroenterology

2023 Volume 165, Issue 4, Page(s) 1016–1024.e5

Abstract: Background & aims: Currently, most patients with branch duct intraductal papillary mucinous neoplasms (BD-IPMN) are offered indefinite surveillance, resulting in health care costs with questionable benefits regarding cancer prevention. This study sought ...

Abstract	Background & aims: Currently, most patients with branch duct intraductal papillary mucinous neoplasms (BD-IPMN) are offered indefinite surveillance, resulting in health care costs with questionable benefits regarding cancer prevention. This study sought to identify patients in whom the risk of cancer is equivalent to an age-matched population, thereby justifying discontinuation of surveillance. Methods: International multicenter study involving presumed BD-IPMN without worrisome features (WFs) or high-risk stigmata (HRS) at diagnosis who underwent surveillance. Clusters of individuals at risk for cancer development were defined according to cyst size and stability for at least 5 years, and age-matched controls were used for comparison using standardized incidence ratios (SIRs) for pancreatic cancer. Results: Of 3844 patients with presumed BD-IPMN, 775 (20.2%) developed WFs and 68 (1.8%) HRS after a median surveillance of 53 (interquartile range 53) months. Some 164 patients (4.3%) underwent surgery. Of the overall cohort, 1617 patients (42%) remained stable without developing WFs or HRS for at least 5 years. In patients 75 years or older, the SIR was 1.12 (95% CI, 0.23-3.39), and in patients 65 years or older with stable lesions smaller than 15 mm in diameter after 5 years, the SIR was 0.95 (95% CI, 0.11-3.42). The all-cause mortality for patients who did not develop WFs or HRS for at least 5 years was 4.9% (n = 79), and the disease-specific mortality was 0.3% (n = 5). Conclusions: The risk of developing pancreatic malignancy in presumed BD-IPMN without WFs or HRS after 5 years of surveillance is comparable to that of the general population depending on cyst size and patient age. Surveillance discontinuation could be justified after 5 years of stability in patients older than 75 years with cysts <30 mm, and in patients 65 years or older who have cysts ≤15 mm.
MeSH term(s)	Humans ; Pancreatic Intraductal Neoplasms/pathology ; Carcinoma, Pancreatic Ductal/pathology ; Retrospective Studies ; Pancreatic Neoplasms/pathology ; Pancreas/pathology ; Cysts/pathology ; Pancreatic Ducts/pathology ; Pancreatic Neoplasms
Language	English
Publishing date	2023-07-04
Publishing country	United States
Document type	Multicenter Study ; Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	80112-4
ISSN	1528-0012 ; 0016-5085
ISSN (online)	1528-0012
ISSN	0016-5085
DOI	10.1053/j.gastro.2023.06.022
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Article ; Online: Genomic analysis of Andamanese provides insights into ancient human migration into Asia and adaptation.

Mondal, Mayukh / Casals, Ferran / Xu, Tina / Dall'Olio, Giovanni M / Pybus, Marc / Netea, Mihai G / Comas, David / Laayouni, Hafid / Li, Qibin / Majumder, Partha P / Bertranpetit, Jaume

Nature genetics

2016 Volume 48, Issue 9, Page(s) 1066–1070

Abstract: To shed light on the peopling of South Asia and the origins of the morphological adaptations found there, we analyzed whole-genome sequences from 10 Andamanese individuals and compared them with sequences for 60 individuals from mainland Indian ... ...

Abstract	To shed light on the peopling of South Asia and the origins of the morphological adaptations found there, we analyzed whole-genome sequences from 10 Andamanese individuals and compared them with sequences for 60 individuals from mainland Indian populations with different ethnic histories and with publicly available data from other populations. We show that all Asian and Pacific populations share a single origin and expansion out of Africa, contradicting an earlier proposal of two independent waves of migration. We also show that populations from South and Southeast Asia harbor a small proportion of ancestry from an unknown extinct hominin, and this ancestry is absent from Europeans and East Asians. The footprints of adaptive selection in the genomes of the Andamanese show that the characteristic distinctive phenotypes of this population (including very short stature) do not reflect an ancient African origin but instead result from strong natural selection on genes related to human body size.
MeSH term(s)	Adaptation, Physiological/genetics ; Asia ; Asian Continental Ancestry Group/genetics ; Genetic Markers/genetics ; Genetic Variation/genetics ; Genetics, Population ; Genome-Wide Association Study ; Human Migration ; Humans ; Phenotype ; Selection, Genetic/genetics
Chemical Substances	Genetic Markers
Language	English
Publishing date	2016-07-25
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1108734-1
ISSN	1546-1718 ; 1061-4036
ISSN (online)	1546-1718
ISSN	1061-4036
DOI	10.1038/ng.3621
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Article ; Online: Hierarchical boosting: a machine-learning framework to detect and classify hard selective sweeps in human populations.

Pybus, Marc / Luisi, Pierre / Dall'Olio, Giovanni Marco / Uzkudun, Manu / Laayouni, Hafid / Bertranpetit, Jaume / Engelken, Johannes

Bioinformatics (Oxford, England)

2015 Volume 31, Issue 24, Page(s) 3946–3952

Abstract: Motivation: Detecting positive selection in genomic regions is a recurrent topic in natural population genetic studies. However, there is little consistency among the regions detected in several genome-wide scans using different tests and/or populations. ...

Abstract	Motivation: Detecting positive selection in genomic regions is a recurrent topic in natural population genetic studies. However, there is little consistency among the regions detected in several genome-wide scans using different tests and/or populations. Furthermore, few methods address the challenge of classifying selective events according to specific features such as age, intensity or state (completeness). Results: We have developed a machine-learning classification framework that exploits the combined ability of some selection tests to uncover different polymorphism features expected under the hard sweep model, while controlling for population-specific demography. As a result, we achieve high sensitivity toward hard selective sweeps while adding insights about their completeness (whether a selected variant is fixed or not) and age of onset. Our method also determines the relevance of the individual methods implemented so far to detect positive selection under specific selective scenarios. We calibrated and applied the method to three reference human populations from The 1000 Genome Project to generate a genome-wide classification map of hard selective sweeps. This study improves detection of selective sweep by overcoming the classical selection versus no-selection classification strategy, and offers an explanation to the lack of consistency observed among selection tests when applied to real data. Very few signals were observed in the African population studied, while our method presents higher sensitivity in this population demography. Availability and implementation: The genome-wide results for three human populations from The 1000 Genomes Project and an R-package implementing the 'Hierarchical Boosting' framework are available at http://hsb.upf.edu/.
MeSH term(s)	Demography ; Genetics, Population/methods ; Genomics/methods ; Humans ; Machine Learning ; Polymorphism, Genetic ; Selection, Genetic
Language	English
Publishing date	2015-12-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1422668-6
ISSN	1367-4811 ; 1367-4803
ISSN (online)	1367-4811
ISSN	1367-4803
DOI	10.1093/bioinformatics/btv493
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