One of ten coroners working on the investigation, Eleni Zaggelidou, said 57 intact bodies had been tested for DNA.
According to a government minister, Greece’s economic crisis in the 2000s caused a lack of investment in the railways.
Following the disaster, rail workers held a one-day strike, accusing the government of negligence.
As a result of the disaster near the city of Larissa, more than 2,000 people protested for a second day in Athens and Thessaloniki.
Stavros Nantis, a pensioner in Athens, said, “We are angry at the company, the government, and past governments that did nothing to improve conditions on the Greek railway.”
Searching for victims continues in burned and buckled carriages.
“Instead of saving lives, we have to recover bodies,” rescuer Konstantinos Imanimidis told Storyline World correspondent.
On Tuesday, a passenger train carrying 350 passengers collided with a freight train after they ended up on the same track, causing the front carriages to burst into flames.
Following the disaster, the Athens national rail services and subway were affected by the railway workers’ strike which began at 6:00 local time (04:00 GMT).
Greeks see the crash as an accident that was waiting to happen, and the union blamed successive governments for showing disrespect to Greek railways.
Zoe Rapti, Greece’s deputy health minister, told the Storyline Worlds global correspondent, during a visit to a hospital where relatives of the missing had gathered, that the Greek debt crisis around 2010 had made investing in the rail network more difficult, resulting in drastic austerity measures in exchange for financial assistance from the EU and the IMF.
Although many things should have been done during these years, Greece faced a big economic crisis for more than 10 years, which caused many things to be put on hold.
She promised an “in-depth investigation” would be conducted, which would provide answers.
Giannis Oikonomous, a spokesman for the government, said “chronic delays” in implementing rail projects stemmed from decades-old distortions in the country’s public sector.
In Larissa, a 59-year-old station master is charged with manslaughter by negligence and is due in court on Thursday. His lawyer Stefanos Pantzartzidis said he admitted to contributing to the accident.
Pantzartzidis said he was devastated. From the first moment, he has assumed responsibility proportionate to himself, implying that the station master was not the only one responsible.
Transport Minister Kostas Karamanlis resigned after the crash, saying he would take responsibility for the authorities’ “longstanding failure” to fix an outdated railway system.
Kyriakos Mitsotakis’ suggestion that “tragic human error” was to blame has sparked anger.
Rioters clashed with police outside Hellenic Train’s headquarters in Athens on Wednesday night – the company responsible for maintaining Greece’s railways.
The protesters threw stones and lit fires in the streets, and tear gas was used to disperse them.

Silent vigils were held in Larissa to remember the victims, and one demonstrator said he felt the disaster was inevitable.
Nikos Savva, a medical student from Cyprus, told AFP that the rail network appeared problematic, with worn down, poorly paid staff.
A station master should not be held accountable for an entire ailing system, he argued.
The majority of passengers on board were students in their 20s returning from a long weekend celebrating Greek Orthodox Lent.

Vassilis Varthakogiannis, a fire brigade spokesperson, said temperatures inside the first carriage, which burst into flames, reached 1,300C (2,370F), making it difficult to identify people.
As Greece observes three days of national mourning, more than 10 people are still missing.
On Thursday, DNA samples will be collected from families to help with identification efforts.
According to Reuters, Katerina, searching for her missing brother on the train, shouted “Murderers!” outside the hospital in Larissa, directing her anger at the government and rail company.
Injured passengers will be operated on by Kostas Malizos, a recently retired surgeon and Emeritus Professor at the Greece University of Thessaly.
He said that it was a catastrophe. Families are crying tonight. Most of the victims are young students who left home, happy after the long weekend, to go for their studies or to see their relatives and never came back.
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