The decision comes amid a spike in violence against dissenters in Russia, including this week's attack on a radio journalist who was stabbed in the neck at the offices of the liberal Echo of Moscow radio.
"If the state is not ready to protect us, we will protect ourselves," Sergei Sokolov, a deputy editor at Russia's top opposition newspaper, told AFP on Thursday.
"When journalists find themselves helpless in the face of lawlessness in the streets and indiscipline of law enforcement agencies there is no other way."
Novaya Gazeta editor Dmitry Muratov said on Wednesday that a number of employees would undergo arms training and the newspaper would purchase traumatic weapons.
The use of fire arms is tightly regulated in Russia. The so-called traumatic weapons that use rubber bullets can be used for self-defence but can also inflict lethal damage.
"I will arm the newsroom," Muratpv said on Echo of Moscow radio.
"We will also supply journalists with other security means that I don't want to talk about."
"We will conclude an official agreement with the Russian interior ministry," he added. "I have no other choice."
Contacted by AFP, Muratov said he could not provide details of the plan over security concerns.
"Our security experts have asked me to refrain from comments before we take concrete steps," he said.
"I don't see anything bad in our situation," he told AFP in written comments, adding that potential criminals may be deterred by the knowledge that Novaya Gazeta reporters carry weapons.
"This too is defence."
President Vladimir Putin's spokesman said Thursday he saw no reason to provide extra security for journalists.
"Unfortunately, everyone of us can become a target of a madman," Dmitry Peskov told reporters, adding Novaya Gazeta was free to adopt any measures as long as they were in line with existing laws.
Over the past two decades Novaya Gazeta has lost several journalists to contract-style killings, including investigative reporter Anna Politkovskaya who was gunned down in the entrance to her Moscow apartment in 2006.
Earlier this week Tatyana Felgenhauer, a 32-year-old Echo of Moscow presener, was stabbed in the neck by a mentally unstable man.
Many commentators have blamed the authorities for fomenting hatred against dissenters and creating an atmosphere in which such attacks became possible.
(Except for the headline, this story has not been edited by NDTV staff and is published from a syndicated feed.)