Then, aiming for higher education, he went to Germany and studied at the Faculty of Philosophy of the University of Jena, while simultaneously attending Oriental and Linguistic courses in Leipzig and Strasbourg (1893-1897).
His teachers were prominent orientalists and linguists of the time, such as Heinrich Hübschmann, Berthold Delbrück, Eduard Sievers, Otto Schrader, Karl Brugmann and other scientists.
In the summer of 1897 H. Manandyan completed the graduation program of the university by defending his dissertation in Jena, which had a philological bent and was dedicated to the study of Movses Kaghankatvatsi's "The History of the World of Aghvank".
About its purpose, Manandyan stated, "With this journal, we aim to acquaint European scientists with Armenia's precious materials, describing the living dialects, and publishing manuscripts that are still unprocessed and unstudied."
The esteemed Armenian poet Hovhannes Tumanyan, who was close to both Varvara and Hakob, wrote in a letter to his wife in the summer of 1904 that H. Manandyan was constantly around Varya.
During those years, he published a series of articles, criticizing the policy of the Imperial Government, arbitrary violence and tyranny, imprisonments, oppression especially towards the small nations of the Empire.
Nevertheless, later he was honest with his brother that he regretted almost 15 years following the Seminary period, that he did not have enough opportunities to engage in science, which he considered a great loss for Armenian bibliography.
On December 21, 1973, a scientific session of Yerevan State University and the Institute of History, dedicated to the 100th anniversary of Manandyan's birth, was held at the Academy of Sciences of the Armenian SSR.
Currently, the great-granddaughter and sole heir of the scientist, Spiritual Teacher and public figure Eleonora Manandyan, lives in this house with her mother Satenik and daughter Tarieyl.
In a short time, in Alexandrapol were gathered Armenian intellectuals who had studied at leading universities around the world, dedicating themselves tirelessly to the mission of educating the younger generation.
Among them were Hakob Manandyan, Nicholas Adontz, Joseph Orbeli, Alexander Tamanyan, Manuk Abeghyan, Hrachia Acharian, as well as prominent foreign Armenologists Nikolai Marr, Antoine Meillet, and Josef Markwart.
"A handful of Armenians, subjected to the torment of endless bloodshed and suffering, with a fervent impulse of heart and soul, aspired to the beautiful, to the fine arts and enlightened science," wrote the daily newspaper ‘Narod’ in its February 1920 issue.
His love for the university and dedication to the mission of education were vividly reflected in the letters he sent to his beloved wife Varya and daughter Eleonora, who was studying in Petersburg.
In 1921, in a letter addressed to his wife and daughter, Manandyan mentioned his pessimism about the Faculty of Oriental Studies attracting a sufficient number of students, but he was mistaken.
It is difficult to predict what will happen next with our country," Manandyan wrote to his wife Varya, and then shifted to expressing enthusiasm for the university, "My only consolation here is this work of mine, which is successfully being realized."
It is through music and visual arts that Armenians should endure the unspoken sufferings of their past and alleviate the heavy burden of sorrow accumulated in our hearts,” Manandyan wrote.
Meanwhile, the professor noted with great gratitude and joy that both students and faculty members had made every effort to convince him to reconsider his decision to leave the deanship.
Even during his years of teaching at the Gevorgyan Seminary in Echmiadzin, Manandyan devoted much time to studying the rich manuscripts of the Matenadaran, publishing notable articles and reviews in the journal “Ararat”.
Manandyan's primary goal in compiling this work was to identify all sources that could be used to obtain reliable information about the internal life of Armenians under Muslim rule.
Among Manandyan's philological studies, special attention is given to his research on Movses Khorenatsi and his "History," Mesrop Mashtots and the invention of writing system, presented in a number of works.
In the mentioned article, Manandian, presenting the rapid development of science, emphasized that among the old Teachings, Buddhism in particular began to attract the attention and respect of scientists.
In his monograph, Manandyan subjected Roman sources to meticulous critical analysis and reevaluation, exposing the one-sidedness and often falsehood of the information they provided about Tigran the Great and Armenia.
These works provide detailed descriptions of medieval Armenia's internal life from social, legal, and economic perspectives, including land ownership forms, etc., up to various measures and weights used.
In 1973, on the 100th anniversary of the outstanding scientist's birth, at the behest of the President of the Armenian SSR Academy of Sciences, the Institute of History began preparing a complete edition of Ya.A.
Historian Ashot Artsruni described his professor in his memoirs: “Pride and joy shone on his face when he spoke of the bright moments in Armenian history.
His voice would become angry and his eyes would redden when he mentioned conflicts and injustices inflicted upon Armenians.” Artsruni's memoirs also recount another of Manandyan's speeches, which vividly displayed the renowned historian's faith in the revival of the Armenian nation.
Enumerating the invasions and attempts at assimilation and destruction by ancient invaders and countries, most of which had disappeared long ago, becoming only history, Manandyan proudly presented the Armenian position against these winds.
In 1908, when Manandyan was in Petersburg preparing for the external exams of the University of Dorpat, the intellectual seemed to predict the impending destructive revolution in the empire, which he hinted at in his letter to Tumanyan: “It seems they no longer recognize the purity and truth of their pre-revolutionary faith... and are now patching up their old God.
He believed that more fruitful results in the field of historiography could be achieved if our archaeologists devoted their efforts to studying ancient Armenian sites such as Armavir, Yervandashat, and others.
In the last years of his life, when the famous scientist already felt that his strength was running out, he was tormented by only one thing: the still unexplored pages of Armenian history and the works that would remain unfinished.